BLASTP 2.2.22 [Sep-27-2009]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= gi|254780417|ref|YP_003064830.1| transcriptional regulator CarD
family protein [Candidatus Liberibacter asiaticus str. psy62]
         (188 letters)

Database: nr 
           14,124,377 sequences; 4,842,793,630 total letters

Searching..................................................done


Results from round 1


>gi|254780417|ref|YP_003064830.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter asiaticus str. psy62]
 gi|254040094|gb|ACT56890.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 188

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 188/188 (100%), Positives = 188/188 (100%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP
Sbjct: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST
Sbjct: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180

Query: 181 SENQDKAA 188
           SENQDKAA
Sbjct: 181 SENQDKAA 188


>gi|315122139|ref|YP_004062628.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter solanacearum CLso-ZC1]
 gi|313495541|gb|ADR52140.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter solanacearum CLso-ZC1]
          Length = 188

 Score =  354 bits (908), Expect = 4e-96,   Method: Compositional matrix adjust.
 Identities = 171/188 (90%), Positives = 179/188 (95%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+  MRQGF+TGEHIVYP HGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP
Sbjct: 1   MTVQQKKSMMRQGFKTGEHIVYPTHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+RT++QPEKSYSERQLYESALNRMVRE+AAVNSISEPEAI+LIEVNLSSK  K EK T
Sbjct: 121 DLYRTENQPEKSYSERQLYESALNRMVREVAAVNSISEPEAIDLIEVNLSSKRPKDEKPT 180

Query: 181 SENQDKAA 188
           +ENQ KAA
Sbjct: 181 NENQCKAA 188


>gi|222150214|ref|YP_002551171.1| transcriptional regulator CarD family [Agrobacterium vitis S4]
 gi|221737196|gb|ACM38159.1| transcriptional regulator CarD family [Agrobacterium vitis S4]
          Length = 223

 Score =  281 bits (718), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 142/190 (74%), Positives = 162/190 (85%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI FDKDKM LKVP
Sbjct: 35  MTTQQKKSSTRQGFKTGEAIVYPAHGVGTITAIEEQEVAGMKLELFVIDFDKDKMRLKVP 94

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 95  VTKAVTIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 154

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R + QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+EVNL +K  K  KS 
Sbjct: 155 DLFRAEHQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEVNL-AKGPKRGKSV 213

Query: 181 SEN--QDKAA 188
            E+  Q++AA
Sbjct: 214 EEDETQEEAA 223


>gi|15890014|ref|NP_355695.1| CarD family transcriptional regulator [Agrobacterium tumefaciens
           str. C58]
 gi|15157987|gb|AAK88480.1| transcriptional regulator, CarD family [Agrobacterium tumefaciens
           str. C58]
          Length = 189

 Score =  280 bits (717), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 140/190 (73%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+     GF+TGE IVYPAHGVGTI+ I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSPAHHGFKTGEAIVYPAHGVGTISAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VAKAVSIGMRKLSEGDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+EVNL +K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEVNL-AKGPKRGKTV 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDSQDEAA 189


>gi|227823778|ref|YP_002827751.1| putative transcriptional regulator, CarD family [Sinorhizobium
           fredii NGR234]
 gi|227342780|gb|ACP26998.1| putative transcriptional regulator, CarD family [Sinorhizobium
           fredii NGR234]
          Length = 189

 Score =  280 bits (716), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 139/190 (73%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI FDKDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFDKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKAVSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL +K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEANL-NKGPKRGKAI 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDTQDEAA 189


>gi|325294135|ref|YP_004279999.1| transcriptional regulator, CarD family [Agrobacterium sp. H13-3]
 gi|325061988|gb|ADY65679.1| transcriptional regulator, CarD family [Agrobacterium sp. H13-3]
          Length = 189

 Score =  278 bits (712), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 139/190 (73%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+     GF+TGE IVYPAHGVGTI+ I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSPAHHGFKTGEAIVYPAHGVGTISAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VAKAVSIGMRKLSEGDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+EVNL +K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEVNL-AKGPKRGKAV 179

Query: 181 SEN--QDKAA 188
            E+  Q++AA
Sbjct: 180 EEDDSQEEAA 189


>gi|15967010|ref|NP_387363.1| hypothetical protein SMc03874 [Sinorhizobium meliloti 1021]
 gi|307302478|ref|ZP_07582235.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           BL225C]
 gi|307316192|ref|ZP_07595636.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           AK83]
 gi|15076283|emb|CAC47836.1| Hypothetical protein SMc03874 [Sinorhizobium meliloti 1021]
 gi|306898032|gb|EFN28774.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           AK83]
 gi|306903148|gb|EFN33738.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           BL225C]
          Length = 189

 Score =  278 bits (710), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 138/190 (72%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKAVGIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL +K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLVEANL-NKGPKRGKAI 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDAQDEAA 189


>gi|222087730|ref|YP_002546267.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725178|gb|ACM28334.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 190

 Score =  276 bits (707), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 141/191 (73%), Positives = 161/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKR-DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+  A R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSAARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL +K  K  K 
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNL-NKGPKRGKV 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 VEEDDSQDEAA 190


>gi|116254341|ref|YP_770179.1| CarD family transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|209551385|ref|YP_002283302.1| CarD family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|241206827|ref|YP_002977923.1| CarD family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|115258989|emb|CAK10098.1| putative CarD family transcriptional regulator [Rhizobium
           leguminosarum bv. viciae 3841]
 gi|209537141|gb|ACI57076.1| transcriptional regulator, CarD family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|240860717|gb|ACS58384.1| transcriptional regulator, CarD family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 190

 Score =  276 bits (706), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 140/191 (73%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL +K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNL-NKGPKRGKA 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 IEEDDSQDEAA 190


>gi|150398306|ref|YP_001328773.1| CarD family transcriptional regulator [Sinorhizobium medicae
           WSM419]
 gi|150029821|gb|ABR61938.1| transcriptional regulator, CarD family [Sinorhizobium medicae
           WSM419]
          Length = 189

 Score =  275 bits (704), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 137/190 (72%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKAVGIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E +L +K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEAHL-NKGPKRGKAI 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDAQDEAA 189


>gi|86359604|ref|YP_471496.1| CarD family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86283706|gb|ABC92769.1| probable transcriptional regulator protein, CarD family [Rhizobium
           etli CFN 42]
          Length = 190

 Score =  275 bits (702), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 139/191 (72%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL +K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNL-NKGPKRGKA 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 IEEDDSQDEAA 190


>gi|327191760|gb|EGE58762.1| CarD family transcriptional regulator [Rhizobium etli CNPAF512]
          Length = 199

 Score =  275 bits (702), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 139/191 (72%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 10  MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 69

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 70  PVAKAMSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 129

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL +K  K  K+
Sbjct: 130 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNL-NKGPKRGKA 188

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 189 IEEDDSQDEAA 199


>gi|190893877|ref|YP_001980419.1| transcriptional regulator protein, CarD family [Rhizobium etli CIAT
           652]
 gi|190699156|gb|ACE93241.1| probable transcriptional regulator protein, CarD family [Rhizobium
           etli CIAT 652]
          Length = 190

 Score =  272 bits (695), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 137/191 (71%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+ M REIAAVN++SE +A+ L+E NL +K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDSMAREIAAVNNMSETDAVRLVETNL-NKGPKRGKA 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 IEEDDSQDEAA 190


>gi|110635707|ref|YP_675915.1| CarD family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110286691|gb|ABG64750.1| transcriptional regulator, CarD family [Chelativorans sp. BNC1]
          Length = 190

 Score =  270 bits (691), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 130/186 (69%), Positives = 155/186 (83%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  QQK+ A RQGF+TGE IVYPAHGVG I  I++QEVAG KLE FVI F KDKM LKVP
Sbjct: 1   MATQQKKSAQRQGFKTGEFIVYPAHGVGQIVAIEDQEVAGHKLELFVIDFQKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           VGKA  IGMRKLSE  +V+RALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 61  VGKATAIGMRKLSETDYVDRALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIE NL+    +  K+ 
Sbjct: 121 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIETNLAKGPRRGTKAE 180

Query: 181 SENQDK 186
           +++ +K
Sbjct: 181 NDDAEK 186


>gi|163759997|ref|ZP_02167081.1| hypothetical protein HPDFL43_17241 [Hoeflea phototrophica DFL-43]
 gi|162282955|gb|EDQ33242.1| hypothetical protein HPDFL43_17241 [Hoeflea phototrophica DFL-43]
          Length = 189

 Score =  270 bits (690), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 135/190 (71%), Positives = 159/190 (83%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGHKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  FVERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKASTIGMRKLSETDFVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM RE+AAVN +S+ EA+ LIE NL +K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMARELAAVNKMSDTEAVRLIETNL-NKGPKRGKAA 179

Query: 181 SEN--QDKAA 188
            E+  Q++AA
Sbjct: 180 DEDGAQEEAA 189


>gi|297180170|gb|ADI16392.1| transcriptional regulators, similar to M. xanthus card [uncultured
           bacterium HF130_12L15]
          Length = 193

 Score =  268 bits (684), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 130/187 (69%), Positives = 154/187 (82%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  QQK+ A R GF+T E+IVYPAHGVG I  I+EQEVAG KLE FVI F KDKM LKVP
Sbjct: 1   MATQQKKTAARNGFKTAEYIVYPAHGVGQIVAIEEQEVAGHKLELFVIDFQKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  +V+RALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 61  VAKAASIGMRKLSETDYVDRALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+    +  K+ 
Sbjct: 121 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIEVNLNKGPRRGVKAD 180

Query: 181 SENQDKA 187
           +E + +A
Sbjct: 181 NEGEPEA 187


>gi|90420275|ref|ZP_01228183.1| transcriptional regulator, CarD family [Aurantimonas manganoxydans
           SI85-9A1]
 gi|90335609|gb|EAS49359.1| transcriptional regulator, CarD family [Aurantimonas manganoxydans
           SI85-9A1]
          Length = 205

 Score =  266 bits (681), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 127/174 (72%), Positives = 147/174 (84%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI F+KDKM LKVPV KA
Sbjct: 4   QKKASNRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVPVAKA 63

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             +GMRKLSE  FVER+LK+V+G+ARVK+TMWSRRAQEYDAKINSGDLI IAEVVRDL+R
Sbjct: 64  ESVGMRKLSETDFVERSLKVVQGRARVKKTMWSRRAQEYDAKINSGDLIQIAEVVRDLYR 123

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
            DSQPE+SYSERQLYE+AL RM RE+AAVN +SE EA+ LIE+NL+    +  K
Sbjct: 124 ADSQPEQSYSERQLYEAALGRMARELAAVNEVSETEAVQLIELNLNKGPKRVAK 177


>gi|319781058|ref|YP_004140534.1| transcription factor CarD [Mesorhizobium ciceri biovar biserrulae
           WSM1271]
 gi|317166946|gb|ADV10484.1| transcription factor CarD [Mesorhizobium ciceri biovar biserrulae
           WSM1271]
          Length = 193

 Score =  265 bits (676), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 129/179 (72%), Positives = 149/179 (83%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T Q+K  A R GF+TGE+IVYPAHGVG I  I EQEVAG KLE FVI F KDKM LKVP
Sbjct: 4   ITPQKKSTAARHGFKTGEYIVYPAHGVGQIVSIDEQEVAGHKLELFVIDFSKDKMRLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 64  VAKATSIGMRKLSEEDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+    +  K+
Sbjct: 124 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIEVNLNKGPKRGAKA 182


>gi|13473303|ref|NP_104870.1| transcriptional factor regulator [Mesorhizobium loti MAFF303099]
 gi|260461457|ref|ZP_05809704.1| transcriptional regulator, CarD family [Mesorhizobium opportunistum
           WSM2075]
 gi|14024051|dbj|BAB50656.1| transcriptional factor regulator [Mesorhizobium loti MAFF303099]
 gi|259032527|gb|EEW33791.1| transcriptional regulator, CarD family [Mesorhizobium opportunistum
           WSM2075]
          Length = 193

 Score =  263 bits (672), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 128/179 (71%), Positives = 148/179 (82%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T Q+K    R GF+TGE+IVYPAHGVG I  I EQEVAG KLE FVI F KDKM LKVP
Sbjct: 4   ITPQKKSTGARHGFKTGEYIVYPAHGVGQIVSIDEQEVAGHKLELFVIDFQKDKMRLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 64  VAKATSIGMRKLSEEDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+    +  K+
Sbjct: 124 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIEVNLNKGPKRGAKA 182


>gi|17986562|ref|NP_539196.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
 gi|17982170|gb|AAL51460.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
          Length = 207

 Score =  261 bits (666), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 131/186 (70%), Positives = 154/186 (82%), Gaps = 2/186 (1%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+  + R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 17  MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 76

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 77  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 136

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL +K  K  K+
Sbjct: 137 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNL-AKGPKRGKA 195

Query: 180 TSENQD 185
            +E  D
Sbjct: 196 EAELDD 201


>gi|23502623|ref|NP_698750.1| transcriptional regulator [Brucella suis 1330]
 gi|82700550|ref|YP_415124.1| transcription factor CarD [Brucella melitensis biovar Abortus 2308]
 gi|148558867|ref|YP_001259610.1| putative transcriptional regulator [Brucella ovis ATCC 25840]
 gi|161619691|ref|YP_001593578.1| hypothetical protein BCAN_A1804 [Brucella canis ATCC 23365]
 gi|163845343|ref|YP_001622998.1| hypothetical protein BSUIS_B1242 [Brucella suis ATCC 23445]
 gi|189024848|ref|YP_001935616.1| CarD family transcriptional regulator [Brucella abortus S19]
 gi|225853216|ref|YP_002733449.1| hypothetical protein BMEA_A1818 [Brucella melitensis ATCC 23457]
 gi|254694417|ref|ZP_05156245.1| hypothetical protein Babob3T_07112 [Brucella abortus bv. 3 str.
           Tulya]
 gi|254698076|ref|ZP_05159904.1| hypothetical protein Babob28_10303 [Brucella abortus bv. 2 str.
           86/8/59]
 gi|254700418|ref|ZP_05162246.1| hypothetical protein Bsuib55_06119 [Brucella suis bv. 5 str. 513]
 gi|254703537|ref|ZP_05165365.1| hypothetical protein Bsuib36_06359 [Brucella suis bv. 3 str. 686]
 gi|254708586|ref|ZP_05170414.1| hypothetical protein BpinM_16983 [Brucella pinnipedialis
           M163/99/10]
 gi|254708772|ref|ZP_05170583.1| hypothetical protein BpinB_00646 [Brucella pinnipedialis B2/94]
 gi|254714615|ref|ZP_05176426.1| hypothetical protein BcetM6_15022 [Brucella ceti M644/93/1]
 gi|254717513|ref|ZP_05179324.1| hypothetical protein BcetM_14151 [Brucella ceti M13/05/1]
 gi|254719759|ref|ZP_05181570.1| hypothetical protein Bru83_09478 [Brucella sp. 83/13]
 gi|256030298|ref|ZP_05443912.1| hypothetical protein BpinM2_06566 [Brucella pinnipedialis
           M292/94/1]
 gi|256045367|ref|ZP_05448261.1| hypothetical protein Bmelb1R_12807 [Brucella melitensis bv. 1 str.
           Rev.1]
 gi|256061797|ref|ZP_05451932.1| hypothetical protein Bneo5_15748 [Brucella neotomae 5K33]
 gi|256255678|ref|ZP_05461214.1| hypothetical protein BcetB_15638 [Brucella ceti B1/94]
 gi|256258180|ref|ZP_05463716.1| hypothetical protein Babob9C_12716 [Brucella abortus bv. 9 str.
           C68]
 gi|256263295|ref|ZP_05465827.1| transcription factor CarD [Brucella melitensis bv. 2 str. 63/9]
 gi|256370172|ref|YP_003107683.1| transcriptional regulator, CarD family [Brucella microti CCM 4915]
 gi|260167972|ref|ZP_05754783.1| transcriptional regulator, CarD family protein [Brucella sp. F5/99]
 gi|260547126|ref|ZP_05822864.1| transcription factor CarD [Brucella abortus NCTC 8038]
 gi|260565739|ref|ZP_05836222.1| transcription factor CarD [Brucella melitensis bv. 1 str. 16M]
 gi|260568843|ref|ZP_05839311.1| transcription factor CarD [Brucella suis bv. 4 str. 40]
 gi|260755460|ref|ZP_05867808.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260758682|ref|ZP_05871030.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260762517|ref|ZP_05874854.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260884478|ref|ZP_05896092.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|261214731|ref|ZP_05929012.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|261219348|ref|ZP_05933629.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261222884|ref|ZP_05937165.1| transcriptional regulator [Brucella ceti B1/94]
 gi|261316093|ref|ZP_05955290.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261316265|ref|ZP_05955462.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261322409|ref|ZP_05961606.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261325799|ref|ZP_05964996.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261750916|ref|ZP_05994625.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261754170|ref|ZP_05997879.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|261757414|ref|ZP_06001123.1| transcription factor CarD [Brucella sp. F5/99]
 gi|265984778|ref|ZP_06097513.1| transcriptional regulator [Brucella sp. 83/13]
 gi|265987329|ref|ZP_06099886.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|265991795|ref|ZP_06104352.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|265995635|ref|ZP_06108192.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|265998843|ref|ZP_06111400.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|306839455|ref|ZP_07472263.1| transcriptional regulator [Brucella sp. NF 2653]
 gi|306844751|ref|ZP_07477336.1| transcriptional regulator [Brucella sp. BO1]
 gi|23348628|gb|AAN30665.1| transcriptional regulator, putative [Brucella suis 1330]
 gi|82616651|emb|CAJ11733.1| Transcription factor CarD [Brucella melitensis biovar Abortus 2308]
 gi|148370124|gb|ABQ60103.1| putative transcriptional regulator [Brucella ovis ATCC 25840]
 gi|161336502|gb|ABX62807.1| Hypothetical protein BCAN_A1804 [Brucella canis ATCC 23365]
 gi|163676066|gb|ABY40176.1| Hypothetical protein, conserved [Brucella suis ATCC 23445]
 gi|189020420|gb|ACD73142.1| Transcription factor CarD [Brucella abortus S19]
 gi|225641581|gb|ACO01495.1| Hypothetical protein, conserved [Brucella melitensis ATCC 23457]
 gi|256000335|gb|ACU48734.1| transcriptional regulator, CarD family [Brucella microti CCM 4915]
 gi|260095491|gb|EEW79369.1| transcription factor CarD [Brucella abortus NCTC 8038]
 gi|260151112|gb|EEW86207.1| transcription factor CarD [Brucella melitensis bv. 1 str. 16M]
 gi|260154227|gb|EEW89309.1| transcription factor CarD [Brucella suis bv. 4 str. 40]
 gi|260669000|gb|EEX55940.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260672943|gb|EEX59764.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260675568|gb|EEX62389.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260874006|gb|EEX81075.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|260916338|gb|EEX83199.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|260921468|gb|EEX88121.1| transcriptional regulator [Brucella ceti B1/94]
 gi|260924437|gb|EEX91005.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261295099|gb|EEX98595.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261295488|gb|EEX98984.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261301779|gb|EEY05276.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261305119|gb|EEY08616.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261737398|gb|EEY25394.1| transcription factor CarD [Brucella sp. F5/99]
 gi|261740669|gb|EEY28595.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261743923|gb|EEY31849.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|262553532|gb|EEZ09301.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|262766919|gb|EEZ12537.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|263002751|gb|EEZ15154.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|263093262|gb|EEZ17359.1| transcription factor CarD [Brucella melitensis bv. 2 str. 63/9]
 gi|264659526|gb|EEZ29787.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|264663370|gb|EEZ33631.1| transcriptional regulator [Brucella sp. 83/13]
 gi|306274923|gb|EFM56693.1| transcriptional regulator [Brucella sp. BO1]
 gi|306405400|gb|EFM61671.1| transcriptional regulator [Brucella sp. NF 2653]
 gi|326409773|gb|ADZ66838.1| Transcription factor CarD [Brucella melitensis M28]
 gi|326539490|gb|ADZ87705.1| conserved hypothetical protein [Brucella melitensis M5-90]
          Length = 191

 Score =  261 bits (666), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 131/186 (70%), Positives = 154/186 (82%), Gaps = 2/186 (1%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+  + R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 1   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 61  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL +K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNL-AKGPKRGKA 179

Query: 180 TSENQD 185
            +E  D
Sbjct: 180 EAELDD 185


>gi|62290636|ref|YP_222429.1| transcriptional regulator [Brucella abortus bv. 1 str. 9-941]
 gi|254689925|ref|ZP_05153179.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|254730960|ref|ZP_05189538.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|256114331|ref|ZP_05455069.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|256160471|ref|ZP_05458160.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|297249030|ref|ZP_06932738.1| CarD family transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
 gi|62196768|gb|AAX75068.1| hypothetical transcriptional regulator [Brucella abortus bv. 1 str.
           9-941]
 gi|297174163|gb|EFH33520.1| CarD family transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
          Length = 194

 Score =  260 bits (665), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 131/186 (70%), Positives = 154/186 (82%), Gaps = 2/186 (1%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+  + R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 4   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 63

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 64  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 123

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL +K  K  K+
Sbjct: 124 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNL-AKGPKRGKA 182

Query: 180 TSENQD 185
            +E  D
Sbjct: 183 EAELDD 188


>gi|225628327|ref|ZP_03786361.1| transcriptional regulator [Brucella ceti str. Cudo]
 gi|225616173|gb|EEH13221.1| transcriptional regulator [Brucella ceti str. Cudo]
          Length = 250

 Score =  258 bits (660), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 131/186 (70%), Positives = 154/186 (82%), Gaps = 2/186 (1%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+  + R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 60  MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 119

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 120 PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 179

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL +K  K  K+
Sbjct: 180 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNL-AKGPKRGKA 238

Query: 180 TSENQD 185
            +E  D
Sbjct: 239 EAELDD 244


>gi|294851010|ref|ZP_06791686.1| CarD family transcriptional regulator [Brucella sp. NVSL 07-0026]
 gi|294821653|gb|EFG38649.1| CarD family transcriptional regulator [Brucella sp. NVSL 07-0026]
          Length = 194

 Score =  258 bits (659), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 130/186 (69%), Positives = 153/186 (82%), Gaps = 2/186 (1%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+  + R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 4   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 63

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMW RRAQEYDAKINSGDLI+I+EVV
Sbjct: 64  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWLRRAQEYDAKINSGDLISISEVV 123

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL +K  K  K+
Sbjct: 124 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNL-AKGPKRGKA 182

Query: 180 TSENQD 185
            +E  D
Sbjct: 183 EAELDD 188


>gi|239832849|ref|ZP_04681178.1| transcriptional regulator [Ochrobactrum intermedium LMG 3301]
 gi|239825116|gb|EEQ96684.1| transcriptional regulator [Ochrobactrum intermedium LMG 3301]
          Length = 209

 Score =  256 bits (654), Expect = 9e-67,   Method: Compositional matrix adjust.
 Identities = 125/171 (73%), Positives = 145/171 (84%), Gaps = 1/171 (0%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+  + R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 17  MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 76

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 77  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 136

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           RDL R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIE NL+
Sbjct: 137 RDLFRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEANLA 187


>gi|114705884|ref|ZP_01438787.1| hypothetical protein FP2506_15499 [Fulvimarina pelagi HTCC2506]
 gi|114538730|gb|EAU41851.1| hypothetical protein FP2506_15499 [Fulvimarina pelagi HTCC2506]
          Length = 204

 Score =  256 bits (654), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 121/165 (73%), Positives = 142/165 (86%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           K+ +  +GF+TGE IVYPAHGVG I  I+EQEVAGMKLE FV+ F+KDKM LKVPV KA 
Sbjct: 5   KKASASKGFKTGESIVYPAHGVGKIVAIEEQEVAGMKLELFVVDFEKDKMRLKVPVAKAK 64

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +GMRKLSE  FV+RALK+V+G+ARVK+TMWSRRAQEYDAKINSGDLI IAEVVRDL+R 
Sbjct: 65  SVGMRKLSETDFVDRALKVVQGRARVKKTMWSRRAQEYDAKINSGDLIQIAEVVRDLYRA 124

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           D+QPE+SYSERQLYE+AL RM RE+AAVN +SE EA+ LIE NL+
Sbjct: 125 DTQPEQSYSERQLYEAALGRMARELAAVNEVSETEAVRLIEENLN 169


>gi|153008468|ref|YP_001369683.1| CarD family transcriptional regulator [Ochrobactrum anthropi ATCC
           49188]
 gi|151560356|gb|ABS13854.1| transcriptional regulator, CarD family [Ochrobactrum anthropi ATCC
           49188]
          Length = 193

 Score =  256 bits (653), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 125/171 (73%), Positives = 145/171 (84%), Gaps = 1/171 (0%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+  + R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 1   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 61  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           RDL R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIE NL+
Sbjct: 121 RDLFRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEANLA 171


>gi|304394153|ref|ZP_07376076.1| CarD family transcriptional regulator [Ahrensia sp. R2A130]
 gi|303293593|gb|EFL87970.1| CarD family transcriptional regulator [Ahrensia sp. R2A130]
          Length = 193

 Score =  248 bits (634), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 119/182 (65%), Positives = 142/182 (78%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           K+   RQGF+TGE IVYPAHGVG ITEI++QEVAG +LE FVI F KDKM L+VPV K  
Sbjct: 4   KKATQRQGFKTGEFIVYPAHGVGQITEIEQQEVAGFELELFVIEFAKDKMTLRVPVPKIE 63

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +GMRKL+E   V+++L  V+G+AR+KRTMWSRRAQEYDAKINSGDLI IAEVVRDL R+
Sbjct: 64  SVGMRKLAEPKLVDKSLMTVQGRARIKRTMWSRRAQEYDAKINSGDLIQIAEVVRDLFRS 123

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQD 185
           D+QPE+SYSERQLYE+AL RM REI+ V  ISE EA+ LIE NL+    +  K   E +D
Sbjct: 124 DTQPEQSYSERQLYEAALERMAREISVVKKISETEAVQLIEANLAKGPRRGPKPEGEEED 183

Query: 186 KA 187
            A
Sbjct: 184 GA 185


>gi|220921710|ref|YP_002497011.1| CarD family transcriptional regulator [Methylobacterium nodulans
           ORS 2060]
 gi|219946316|gb|ACL56708.1| transcriptional regulator, CarD family [Methylobacterium nodulans
           ORS 2060]
          Length = 197

 Score =  248 bits (634), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 118/179 (65%), Positives = 150/179 (83%), Gaps = 1/179 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K  A RQGF+TGE IVYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP
Sbjct: 1   MTTAKKTTAARQGFKTGEAIVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA  +GMRKL+E   V++AL ++ G+ARVKRTMWSRRAQEY+AKINSGDLIA+ EVVR
Sbjct: 61  TAKANAVGMRKLAEPELVKKALDVLTGRARVKRTMWSRRAQEYEAKINSGDLIAVTEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           DL+R+++QPE+SYSERQLYE+AL+R+VREIAAVN I++ E++ LIE +L +KS +  KS
Sbjct: 121 DLYRSEAQPEQSYSERQLYEAALDRVVREIAAVNKITDTESLKLIEQSL-AKSPRRAKS 178


>gi|170742914|ref|YP_001771569.1| CarD family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168197188|gb|ACA19135.1| transcriptional regulator, CarD family [Methylobacterium sp. 4-46]
          Length = 197

 Score =  247 bits (630), Expect = 6e-64,   Method: Compositional matrix adjust.
 Identities = 114/170 (67%), Positives = 145/170 (85%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K  A RQGF+TGE IVYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP
Sbjct: 1   MTTAKKTTAARQGFKTGEAIVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA  +GMRKL+E   V++AL ++ G+ARVKRTMWSRRAQEY+AKINSGDLIA+ EVVR
Sbjct: 61  TAKANAVGMRKLAEPDLVKKALDVLTGRARVKRTMWSRRAQEYEAKINSGDLIAVTEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           DL+R+++QPE+SYSERQLYE+AL+R+VREIAAVN I++ E++ LIE +L+
Sbjct: 121 DLYRSEAQPEQSYSERQLYEAALDRVVREIAAVNKITDTESLKLIEQSLA 170


>gi|154244145|ref|YP_001415103.1| CarD family transcriptional regulator [Xanthobacter autotrophicus
           Py2]
 gi|154158230|gb|ABS65446.1| transcriptional regulator, CarD family [Xanthobacter autotrophicus
           Py2]
          Length = 206

 Score =  246 bits (628), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 112/159 (70%), Positives = 141/159 (88%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           R GF+TGEHIVYP+HGVG I  I+EQEVAG KLE FVI+F+KDKM L+VPV K   +GMR
Sbjct: 21  RLGFKTGEHIVYPSHGVGRIMAIEEQEVAGFKLELFVISFEKDKMTLRVPVPKIATVGMR 80

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLSE + V+++L+ ++G+ARVKRTMWSRRAQEY+AKINSGDL+AI+EVVRDL+R+D+QPE
Sbjct: 81  KLSETNIVDKSLETLQGRARVKRTMWSRRAQEYEAKINSGDLVAISEVVRDLYRSDAQPE 140

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           +SYSERQLYE+AL+RM RE++AVN+I+E EA+ LIE NL
Sbjct: 141 QSYSERQLYEAALDRMARELSAVNNITETEAVKLIEQNL 179


>gi|298293646|ref|YP_003695585.1| CarD family transcriptional regulator [Starkeya novella DSM 506]
 gi|296930157|gb|ADH90966.1| transcriptional regulator, CarD family [Starkeya novella DSM 506]
          Length = 200

 Score =  246 bits (628), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 113/160 (70%), Positives = 142/160 (88%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           +RQGF+TGEHIVYP+HGVG IT I+EQEVAG KLE FVI F+KDKM L+VPV K   +GM
Sbjct: 11  IRQGFKTGEHIVYPSHGVGRITSIEEQEVAGFKLELFVIHFEKDKMTLRVPVPKIASVGM 70

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           RKLSE   +++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGDL+AI+EVVRDL+R+++QP
Sbjct: 71  RKLSEPTILKKALETLKGRARVKRTMWSRRAQEYEAKINSGDLVAISEVVRDLYRSEAQP 130

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           E+SYSERQLYE+AL+RM RE+AAV++++E EAI LIE NL
Sbjct: 131 EQSYSERQLYEAALDRMARELAAVDNLTETEAIKLIEQNL 170


>gi|158425667|ref|YP_001526959.1| transcription factor protein [Azorhizobium caulinodans ORS 571]
 gi|158332556|dbj|BAF90041.1| transcription factor protein [Azorhizobium caulinodans ORS 571]
          Length = 198

 Score =  246 bits (628), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 114/169 (67%), Positives = 143/169 (84%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M+ ++     R GF+TGEHIVYP+HGVG IT I+EQEVAG KLE FVI+F+KDKM L+VP
Sbjct: 1   MSTKKSSAQARLGFKTGEHIVYPSHGVGRITSIEEQEVAGFKLELFVISFEKDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKLSE   V +AL+ ++G+ARVKRTMWSRRAQEY+AKINSGDLIAI+EVVR
Sbjct: 61  VPKIASVGMRKLSEGPVVTKALETLKGRARVKRTMWSRRAQEYEAKINSGDLIAISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           DL+R+D+QPE+SYSERQLYE+AL+RM RE++AV +I+E E++ LIE NL
Sbjct: 121 DLYRSDAQPEQSYSERQLYEAALDRMARELSAVQNITETESVKLIEQNL 169


>gi|328542018|ref|YP_004302127.1| CarD-like transcriptional regulator family [polymorphum gilvum
           SL003B-26A1]
 gi|326411768|gb|ADZ68831.1| CarD-like transcriptional regulator family [Polymorphum gilvum
           SL003B-26A1]
          Length = 192

 Score =  246 bits (627), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 114/165 (69%), Positives = 140/165 (84%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           K+ A RQGF+TGEHIVYP+HGVG IT I+EQ VAG  LE  VI+F+KDKM L+VPV K  
Sbjct: 6   KKAAQRQGFKTGEHIVYPSHGVGQITAIEEQSVAGHSLELLVISFEKDKMTLRVPVAKIA 65

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +GMRKL++A  V++AL+ VRG+ R+KRTMWSRRAQEY+AKINSGDLI+I+EVVRDL+R+
Sbjct: 66  TVGMRKLADAPTVKKALETVRGRPRIKRTMWSRRAQEYEAKINSGDLISISEVVRDLYRS 125

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           D+QPE+SYSERQLYE+AL+RM REIAAVN  SE EA+  IE NL+
Sbjct: 126 DTQPEQSYSERQLYEAALDRMAREIAAVNKCSETEAVKQIEQNLA 170


>gi|49474702|ref|YP_032744.1| transcriptional factor regulator [Bartonella quintana str.
           Toulouse]
 gi|49240206|emb|CAF26674.1| transcriptional factor regulator [Bartonella quintana str.
           Toulouse]
          Length = 194

 Score =  244 bits (622), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 121/187 (64%), Positives = 146/187 (78%), Gaps = 1/187 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q +  +  +GF T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHRTSSNAKGFATSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KAI +GMRKLS    VERALK++ GKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKAISVGMRKLSAVDSVERALKILHGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R++ QPE+SYSERQLY +AL+RM REIA +NS+SE EA+NLIE++LS+K  K E  T
Sbjct: 121 DLFRSNLQPEQSYSERQLYTAALDRMAREIAVINSLSETEAVNLIEMHLSNK-PKCEFKT 179

Query: 181 SENQDKA 187
             ++  A
Sbjct: 180 KSDETNA 186


>gi|240851257|ref|YP_002972660.1| transcriptional regulator, CarD family [Bartonella grahamii as4aup]
 gi|240268380|gb|ACS51968.1| transcriptional regulator, CarD family [Bartonella grahamii as4aup]
          Length = 194

 Score =  243 bits (621), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 120/188 (63%), Positives = 147/188 (78%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q    +  + F T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHGTSSKTKEFATSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+ +GMRKLS +  VERALK++RGKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKALSVGMRKLSASDSVERALKVLRGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R++ QPE+SYSERQLY +AL RM REIA +NS+SE EAINLIE++LS+K  +  K+ 
Sbjct: 121 DLFRSNLQPEQSYSERQLYTAALERMAREIAVINSLSETEAINLIEMHLSNKPKREFKTE 180

Query: 181 SENQDKAA 188
            E  D+++
Sbjct: 181 REETDESS 188


>gi|49476179|ref|YP_034220.1| transcriptional factor regulator [Bartonella henselae str.
           Houston-1]
 gi|49238987|emb|CAF28287.1| Transcriptional factor regulator [Bartonella henselae str.
           Houston-1]
          Length = 194

 Score =  243 bits (619), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 120/179 (67%), Positives = 140/179 (78%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q    +  +GF T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHGTSSNAKGFSTSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KAI +GMRKLS    VERALK++ GKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKAISVGMRKLSAVDSVERALKILHGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           DL R+D QPE+SYSERQLY +AL RM REIA +NS+SE EAINLIE++LS K  +  K+
Sbjct: 121 DLFRSDLQPEQSYSERQLYIAALERMAREIAVINSLSETEAINLIEMHLSQKPKRQFKT 179


>gi|170750107|ref|YP_001756367.1| CarD family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170656629|gb|ACB25684.1| transcriptional regulator, CarD family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 201

 Score =  243 bits (619), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 114/177 (64%), Positives = 149/177 (84%), Gaps = 1/177 (0%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP  KA  +GMR
Sbjct: 12  RQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVPTAKANSVGMR 71

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KL+E   V++AL L+ G+AR+KRTMWSRRAQEY+AKINSGDL+A+ EVVRDL R+++QPE
Sbjct: 72  KLAEPELVKKALDLLTGRARIKRTMWSRRAQEYEAKINSGDLLAVTEVVRDLFRSEAQPE 131

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
           +SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L +KS +  KS +E + +A
Sbjct: 132 QSYSERQLYEAALDRIVREISSVNRITETEALKLIEQSL-AKSPRRAKSEAEPEAEA 187


>gi|188583533|ref|YP_001926978.1| CarD family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179347031|gb|ACB82443.1| transcriptional regulator, CarD family [Methylobacterium populi
           BJ001]
          Length = 198

 Score =  241 bits (615), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 111/171 (64%), Positives = 145/171 (84%), Gaps = 1/171 (0%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT  +K  A  RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+V
Sbjct: 1   MTTAKKTTAAGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           P  KA  +GMRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI++ EVV
Sbjct: 61  PTAKANSVGMRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLISVTEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           RDL+R+++QPE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+
Sbjct: 121 RDLYRSEAQPEQSYSERQLYEAALDRVVREISSVNRITETEALKLIEQSLA 171


>gi|163869173|ref|YP_001610425.1| transcriptional factor [Bartonella tribocorum CIP 105476]
 gi|161018872|emb|CAK02430.1| transcriptional factor [Bartonella tribocorum CIP 105476]
          Length = 194

 Score =  241 bits (615), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 122/190 (64%), Positives = 145/190 (76%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q    +  + F T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHGTSSKTKEFATSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+ +GMRKLS    VERALK++RGKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKALSVGMRKLSAGDSVERALKVLRGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS---KTE 177
           DL R++ QPE+SYSERQLY +AL RM REIA +NS+SE EAINLIE++LS+K     KTE
Sbjct: 121 DLFRSNLQPEQSYSERQLYTAALERMAREIAVINSLSETEAINLIEMHLSNKPKREFKTE 180

Query: 178 KSTSENQDKA 187
           +  +    KA
Sbjct: 181 REETVENSKA 190


>gi|307943601|ref|ZP_07658945.1| transcription factor CarD [Roseibium sp. TrichSKD4]
 gi|307773231|gb|EFO32448.1| transcription factor CarD [Roseibium sp. TrichSKD4]
          Length = 194

 Score =  240 bits (613), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 118/194 (60%), Positives = 146/194 (75%), Gaps = 6/194 (3%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGE+IVYPAHGVG IT I+EQ VAG  LE  VI F+KDKM L+VP
Sbjct: 1   MASTTKKTAQRQGFKTGEYIVYPAHGVGQITAIEEQNVAGHSLELLVIVFEKDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKL +   V++AL+ VRG+ RVKRTMWSRRAQEY+AKINSGDLI+I+EVVR
Sbjct: 61  VAKIASVGMRKLGDPDAVKKALETVRGRPRVKRTMWSRRAQEYEAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK----- 175
           DL+R+DSQPE+SYSERQLYE+AL+R+ REIAAVN  SE EA   IE  L    ++     
Sbjct: 121 DLYRSDSQPEQSYSERQLYEAALDRLAREIAAVNKCSETEATKQIEQTLEKSPNRPKAPA 180

Query: 176 -TEKSTSENQDKAA 188
             + + S+ Q++AA
Sbjct: 181 EADSTGSDGQEEAA 194


>gi|254504462|ref|ZP_05116613.1| CarD-like transcriptional regulator family [Labrenzia alexandrii
           DFL-11]
 gi|222440533|gb|EEE47212.1| CarD-like transcriptional regulator family [Labrenzia alexandrii
           DFL-11]
          Length = 199

 Score =  240 bits (612), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 115/175 (65%), Positives = 139/175 (79%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGE+IVYPAHGVG IT I+EQ VAG  LE  VI F++DKM L+VP
Sbjct: 1   MATNTKKTAQRQGFKTGEYIVYPAHGVGQITAIEEQNVAGHSLELLVIVFEQDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKL +   V++AL+ V+G+ R+KRTMWSRRAQEY+AKINSGDLIAI+EVVR
Sbjct: 61  VAKIASVGMRKLGDPAAVKKALETVQGRPRIKRTMWSRRAQEYEAKINSGDLIAISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           DL R++SQPE+SYSERQLYE+AL+RM REIAAVN  SE EAI  IE NL+   S+
Sbjct: 121 DLFRSESQPEQSYSERQLYEAALDRMAREIAAVNKCSETEAIKEIEQNLAKSPSR 175


>gi|163853280|ref|YP_001641323.1| transcription factor CarD [Methylobacterium extorquens PA1]
 gi|163664885|gb|ABY32252.1| transcription factor CarD [Methylobacterium extorquens PA1]
          Length = 196

 Score =  239 bits (611), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 109/162 (67%), Positives = 140/162 (86%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP  KA  +G
Sbjct: 10  AGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVPTAKANSVG 69

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MRKL+E   V++AL ++ G+ARVKRTMWSRRAQEY+AKINSGDLI++ EVVRDL R+++Q
Sbjct: 70  MRKLAEPELVKKALDVLTGRARVKRTMWSRRAQEYEAKINSGDLISVTEVVRDLFRSEAQ 129

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           PE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+
Sbjct: 130 PEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSLA 171


>gi|118591279|ref|ZP_01548677.1| transcriptional regulator, CarD family protein [Stappia aggregata
           IAM 12614]
 gi|118435951|gb|EAV42594.1| transcriptional regulator, CarD family protein [Stappia aggregata
           IAM 12614]
          Length = 194

 Score =  239 bits (611), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 114/175 (65%), Positives = 140/175 (80%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGE+IVYPAHGVG IT I+EQ+VAG  LE  VI F++DKM L+VP
Sbjct: 1   MATNTKKTAQRQGFKTGEYIVYPAHGVGQITAIEEQKVAGHSLELLVIVFEQDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKL +   V++AL+ VRG+ RVKRTMWSRRAQEY+AKINSGDLI+I+EVVR
Sbjct: 61  VAKIASVGMRKLGDPAAVKKALETVRGRPRVKRTMWSRRAQEYEAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           DL R+++QPE+SYSERQLYE+AL+RM REIAAVN  SE EA+  IE NL+   S+
Sbjct: 121 DLFRSENQPEQSYSERQLYEAALDRMAREIAAVNKCSETEAVKQIEQNLAKSPSR 175


>gi|218532096|ref|YP_002422912.1| CarD family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|240140688|ref|YP_002965168.1| transcriptional regulator, CarD family [Methylobacterium extorquens
           AM1]
 gi|218524399|gb|ACK84984.1| transcriptional regulator, CarD family [Methylobacterium
           chloromethanicum CM4]
 gi|240010665|gb|ACS41891.1| transcriptional regulator, CarD family [Methylobacterium extorquens
           AM1]
          Length = 196

 Score =  239 bits (610), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 108/162 (66%), Positives = 140/162 (86%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP  KA  +G
Sbjct: 10  AGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVPTAKANSVG 69

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI++ EVVRDL R+++Q
Sbjct: 70  MRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLISVTEVVRDLFRSEAQ 129

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           PE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+
Sbjct: 130 PEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSLA 171


>gi|254563203|ref|YP_003070298.1| carD family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254270481|emb|CAX26481.1| transcriptional regulator, CarD family [Methylobacterium extorquens
           DM4]
          Length = 224

 Score =  238 bits (607), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 108/162 (66%), Positives = 140/162 (86%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP  KA  +G
Sbjct: 38  AGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVPTAKANSVG 97

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI++ EVVRDL R+++Q
Sbjct: 98  MRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLISVTEVVRDLFRSEAQ 157

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           PE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+
Sbjct: 158 PEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSLA 199


>gi|319409358|emb|CBI83002.1| transcriptional factor [Bartonella schoenbuchensis R1]
          Length = 194

 Score =  238 bits (606), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 116/179 (64%), Positives = 143/179 (79%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q+K+ +  +GF T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQRKKTSSVKGFSTSEYIVYPTHGVGQIIAIEEQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE+  VERALK ++GKARVKR MWSRRAQEYD KINSG+L+ IAEVVR
Sbjct: 61  VAKALSIGMRKLSESDLVERALKTLQGKARVKRAMWSRRAQEYDTKINSGNLVFIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           DL R++ Q E+SYSERQLY +AL+RM REIA +N++SE EAINLIE +L+ +S +  K+
Sbjct: 121 DLFRSELQSEQSYSERQLYAAALDRMAREIAIINNLSETEAINLIETHLTKESKRKFKA 179


>gi|209883217|ref|YP_002287074.1| transcriptional regulator of CarD family [Oligotropha
           carboxidovorans OM5]
 gi|209871413|gb|ACI91209.1| transcriptional regulator of CarD family [Oligotropha
           carboxidovorans OM5]
          Length = 323

 Score =  237 bits (604), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 107/160 (66%), Positives = 135/160 (84%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+T E +VYPAHGVG I  I+EQE+AG +LE FVI+F KDKM L+VP  K I++GMR
Sbjct: 125 RQGFKTNEFVVYPAHGVGQILAIEEQEIAGARLELFVISFIKDKMTLRVPTAKVINVGMR 184

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V+RAL  ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 185 KLSDPALVKRALDTLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 244

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  I+E EAI  +E NL+
Sbjct: 245 QSYSERQLYEAALDRLSREIAVVQHITETEAIKEVEANLA 284


>gi|75674610|ref|YP_317031.1| transcription factor CarD [Nitrobacter winogradskyi Nb-255]
 gi|74419480|gb|ABA03679.1| transcriptional regulator, CarD family [Nitrobacter winogradskyi
           Nb-255]
          Length = 283

 Score =  236 bits (601), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 107/160 (66%), Positives = 134/160 (83%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+TGE +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 93  RQGFKTGEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVANVGMR 152

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLSE   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 153 KLSEPGLVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 212

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  ++E EA+  IE  L+
Sbjct: 213 QSYSERQLYEAALDRLSREIAVVQHVTETEAVKEIEGQLA 252


>gi|115522154|ref|YP_779065.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           BisA53]
 gi|115516101|gb|ABJ04085.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           BisA53]
          Length = 358

 Score =  235 bits (599), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 107/160 (66%), Positives = 132/160 (82%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 168 RQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVTNVGMR 227

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLSE   V+RAL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL R+DSQPE
Sbjct: 228 KLSEPALVKRALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLFRSDSQPE 287

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+
Sbjct: 288 QSYSERQLYEAALDRLSREIAVVQHVTETEAVKEVEGQLA 327


>gi|299132816|ref|ZP_07026011.1| transcriptional regulator, CarD family [Afipia sp. 1NLS2]
 gi|298592953|gb|EFI53153.1| transcriptional regulator, CarD family [Afipia sp. 1NLS2]
          Length = 403

 Score =  234 bits (598), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 106/160 (66%), Positives = 135/160 (84%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+T E +VYPAHGVG I  I+EQE+AG  LE FVI+F KDKM L+VP  K I++GMR
Sbjct: 207 RQGFKTNEFVVYPAHGVGQILAIEEQEIAGATLELFVISFIKDKMTLRVPTAKVINVGMR 266

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 267 KLSDPALVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 326

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  I+E EA+  +E NL+
Sbjct: 327 QSYSERQLYEAALDRLSREIAVVQHITETEAVKEVEANLA 366


>gi|90422072|ref|YP_530442.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           BisB18]
 gi|90104086|gb|ABD86123.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           BisB18]
          Length = 365

 Score =  234 bits (597), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 110/170 (64%), Positives = 138/170 (81%), Gaps = 3/170 (1%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 174 RQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFMKDKMTLRVPTAKVANVGMR 233

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLSE   V+RAL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R+DSQPE
Sbjct: 234 KLSEPALVKRALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSDSQPE 293

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS---KSSKTE 177
           +SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+    + +KTE
Sbjct: 294 QSYSERQLYEAALDRLSREIAVVQHVTETEAVKEVEGQLAKSPRRGAKTE 343


>gi|182680042|ref|YP_001834188.1| CarD family transcriptional regulator [Beijerinckia indica subsp.
           indica ATCC 9039]
 gi|182635925|gb|ACB96699.1| transcriptional regulator, CarD family [Beijerinckia indica subsp.
           indica ATCC 9039]
          Length = 368

 Score =  234 bits (596), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 107/162 (66%), Positives = 135/162 (83%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +A R GF+  E IVYPAHGVG I  I+EQEVAG KLE FVI+F KDKM LKVP  KA+ +
Sbjct: 178 NAQRHGFKPLEFIVYPAHGVGQIIAIEEQEVAGFKLELFVISFVKDKMILKVPTPKAVSV 237

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
            MRKL+EA  +++AL+ + G+AR+KRTMWSRRAQEY+AKINSGDLIA+AEVVRDL+R+D+
Sbjct: 238 RMRKLAEADVIDKALETLTGRARIKRTMWSRRAQEYEAKINSGDLIAVAEVVRDLYRSDA 297

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           QPE+SYSERQLYE+AL+R+ RE+AAV  ++E E++ LIE  L
Sbjct: 298 QPEQSYSERQLYEAALDRVARELAAVQKLTETESLKLIEAQL 339


>gi|254473139|ref|ZP_05086537.1| transcription factor CarD [Pseudovibrio sp. JE062]
 gi|211957860|gb|EEA93062.1| transcription factor CarD [Pseudovibrio sp. JE062]
          Length = 193

 Score =  234 bits (596), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 110/171 (64%), Positives = 137/171 (80%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGEHI+YP+HGVG IT I+EQ VAG  LE  VI F++DKM L+VP
Sbjct: 1   MATPAKKTAQRQGFKTGEHIIYPSHGVGLITAIEEQTVAGYSLELLVIEFEQDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKLS+A  V+++L+ + GK RVKRTMWSRRAQEY+AKINSGDL++ AEVVR
Sbjct: 61  VAKIASVGMRKLSDASTVKKSLETIAGKPRVKRTMWSRRAQEYEAKINSGDLVSTAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           DL+R+D+QPE+SYSERQLYE+AL+RM REIAAV   ++ EAI  IE  LS+
Sbjct: 121 DLYRSDAQPEQSYSERQLYEAALDRMAREIAAVQKQTDTEAIRQIEGVLST 171


>gi|217977551|ref|YP_002361698.1| transcriptional regulator, CarD family [Methylocella silvestris
           BL2]
 gi|217502927|gb|ACK50336.1| transcriptional regulator, CarD family [Methylocella silvestris
           BL2]
          Length = 456

 Score =  233 bits (593), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 107/157 (68%), Positives = 127/157 (80%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           GF+  E+IVYPAHGVG I  I+EQEVAG KLE FVI+F KDKM LKVP  K   +GMRKL
Sbjct: 274 GFKPNEYIVYPAHGVGQIVAIEEQEVAGFKLELFVISFVKDKMILKVPTPKVTSVGMRKL 333

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +EA  V R+L  + G+AR+KRTMWSRRAQEY+AKINSGDLIAIAEVVRDL+R+DSQPE+S
Sbjct: 334 AEADVVRRSLDTLAGRARIKRTMWSRRAQEYEAKINSGDLIAIAEVVRDLYRSDSQPEQS 393

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           YSERQLYE+AL+RM RE+  V  ++E EA+  IE  L
Sbjct: 394 YSERQLYEAALDRMAREVVIVEKLTETEALKAIEAQL 430


>gi|8131942|gb|AAF73146.1|AF149031_1 unknown [Sinorhizobium meliloti]
          Length = 162

 Score =  232 bits (592), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 118/163 (72%), Positives = 138/163 (84%), Gaps = 3/163 (1%)

Query: 28  GTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRG 87
           G I  I+EQEVAGMKLE FVI F+KDKM LKVPV KA+ IGMRKLSE  FV+RALK+V+G
Sbjct: 1   GQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVPVAKAVGIGMRKLSETDFVDRALKVVQG 60

Query: 88  KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMV 147
           KARVKRTMWSRRAQEYDAKINSGDLI+IAEVVRDL+R ++QPE+SYSERQLYE+AL+RM 
Sbjct: 61  KARVKRTMWSRRAQEYDAKINSGDLISIAEVVRDLYRAENQPEQSYSERQLYEAALDRMA 120

Query: 148 REIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN--QDKAA 188
           REIAAVN +SE EA+ L+E NL +K  K  K+  E+  QD+AA
Sbjct: 121 REIAAVNRMSETEAVRLVEANL-NKGPKRGKAIEEDDAQDEAA 162


>gi|92116128|ref|YP_575857.1| CarD family transcriptional regulator [Nitrobacter hamburgensis
           X14]
 gi|91799022|gb|ABE61397.1| transcriptional regulator, CarD family [Nitrobacter hamburgensis
           X14]
          Length = 259

 Score =  232 bits (591), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 108/171 (63%), Positives = 137/171 (80%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGFRT E +VYPAHGVG I  I+EQE+AG +LE FVI F KDKM L+VP  K  ++GMR
Sbjct: 69  RQGFRTNEFVVYPAHGVGQILAIEEQEIAGARLELFVINFMKDKMTLRVPTAKIANVGMR 128

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLSE   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 129 KLSEPGLVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 188

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTS 181
           +SYSERQLYE+AL+R+ REIA V  ++E EA+  IE  L+    +  K+ S
Sbjct: 189 QSYSERQLYEAALDRLSREIAVVQHVTETEAVKEIEGQLAKSPRRGAKAES 239


>gi|319899401|ref|YP_004159498.1| transcriptional factor [Bartonella clarridgeiae 73]
 gi|319403369|emb|CBI76928.1| transcriptional factor [Bartonella clarridgeiae 73]
          Length = 191

 Score =  231 bits (590), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 112/166 (67%), Positives = 133/166 (80%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP+ KA+ IGMRKLS
Sbjct: 14  FLTSEYIVYPTHGVGQIMAIEEQEVAGHKLKLFVIHFAKDKMDVKVPIAKALSIGMRKLS 73

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V RA K+++G+AR+KRTMWSRRAQEYD KINSGD+I+IAEV+RDL R+D QPE+SY
Sbjct: 74  TVDSVNRAFKILQGRARIKRTMWSRRAQEYDTKINSGDIISIAEVIRDLFRSDLQPEQSY 133

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           SERQLY  AL+RM REIA VNS++E EAINLIE +L+ KS    KS
Sbjct: 134 SERQLYAIALDRMAREIAVVNSLTETEAINLIEKHLTKKSKSEFKS 179


>gi|27375267|ref|NP_766796.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27348403|dbj|BAC45421.1| bll0156 [Bradyrhizobium japonicum USDA 110]
          Length = 328

 Score =  231 bits (588), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 105/160 (65%), Positives = 131/160 (81%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 132 RQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVANVGMR 191

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLSE   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 192 KLSEPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 251

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V   +E EA+  IE  L+
Sbjct: 252 QSYSERQLYEAALDRLSREIAVVQHSTETEAVKEIEAQLA 291


>gi|85713774|ref|ZP_01044764.1| transcription factor CarD [Nitrobacter sp. Nb-311A]
 gi|85699678|gb|EAQ37545.1| transcription factor CarD [Nitrobacter sp. Nb-311A]
          Length = 220

 Score =  231 bits (588), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 108/169 (63%), Positives = 136/169 (80%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 28  RQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKIANVGMR 87

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLSE   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 88  KLSEPDLVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 147

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           +SYSERQLYE+AL+R+ REIA V  ++E EAI  IE  L+    +  K+
Sbjct: 148 QSYSERQLYEAALDRLSREIAVVQHVTETEAIKEIEGQLAKSPRRGAKA 196


>gi|91974760|ref|YP_567419.1| transcription factor CarD [Rhodopseudomonas palustris BisB5]
 gi|91681216|gb|ABE37518.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           BisB5]
          Length = 432

 Score =  230 bits (587), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 104/160 (65%), Positives = 132/160 (82%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+ GE +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 241 RQGFKAGEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVANVGMR 300

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL R++SQPE
Sbjct: 301 KLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLFRSESQPE 360

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+
Sbjct: 361 QSYSERQLYEAALDRLSREIAVVQQVTETEAVKEVEGQLA 400


>gi|121602125|ref|YP_988461.1| CarD family transcriptional regulator [Bartonella bacilliformis
           KC583]
 gi|120614302|gb|ABM44903.1| transcriptional regulator, CarD family [Bartonella bacilliformis
           KC583]
          Length = 192

 Score =  229 bits (585), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 117/190 (61%), Positives = 143/190 (75%), Gaps = 4/190 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  QQK+ +   GF T E+IVYP HGVG I  I+EQEVAG KLE FVI F KDKM +KVP
Sbjct: 1   MASQQKKTS--HGFSTSEYIVYPTHGVGQIMVIEEQEVAGHKLELFVIHFAKDKMDVKVP 58

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+  GMRKLSE   VE+ALK+++GKAR+KR MWSRRAQEYD KINSG+ + IAEVVR
Sbjct: 59  IAKALSTGMRKLSEPASVEKALKILQGKARIKRIMWSRRAQEYDTKINSGNFMFIAEVVR 118

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE--VNLSSKSSKTEK 178
           DL R+D QPE+SYSERQLY +AL+RM REI+ +N++SE EA+NLIE  +N   KSS   K
Sbjct: 119 DLFRSDLQPEQSYSERQLYAAALDRMSREISVINNLSETEAVNLIEKHLNEGQKSSFEAK 178

Query: 179 STSENQDKAA 188
               ++D  A
Sbjct: 179 IDEADEDSKA 188


>gi|86747677|ref|YP_484173.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           HaA2]
 gi|86570705|gb|ABD05262.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           HaA2]
          Length = 429

 Score =  229 bits (584), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 104/160 (65%), Positives = 131/160 (81%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 236 RQGFKASEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVANVGMR 295

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL R+DSQPE
Sbjct: 296 KLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLFRSDSQPE 355

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+
Sbjct: 356 QSYSERQLYEAALDRLSREIAVVQQVTETEAVKEVEGQLA 395


>gi|296447999|ref|ZP_06889905.1| transcriptional regulator, CarD family [Methylosinus trichosporium
           OB3b]
 gi|296254509|gb|EFH01630.1| transcriptional regulator, CarD family [Methylosinus trichosporium
           OB3b]
          Length = 546

 Score =  229 bits (583), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 107/167 (64%), Positives = 131/167 (78%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           GF+T E IVYPAHGVG I  I+ QEVAG  LE FV+ F KDKM LKVPV K   +GMRKL
Sbjct: 359 GFKTNEFIVYPAHGVGQIMAIETQEVAGFSLELFVVHFVKDKMTLKVPVSKVAAVGMRKL 418

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +E   VE+AL  + G+ARVKRTMWSRRAQEY+AKINSGDL+ IAEVVRDL+R+D+QPE+S
Sbjct: 419 AEPDVVEKALGTLTGRARVKRTMWSRRAQEYEAKINSGDLVTIAEVVRDLYRSDTQPEQS 478

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           YSERQLYE+AL+RM RE+AAV  + + E++ LIE  L+    + +KS
Sbjct: 479 YSERQLYEAALDRMAREVAAVRKLIDSESLKLIESFLAKSPRRGQKS 525


>gi|148258713|ref|YP_001243298.1| CarD family transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146410886|gb|ABQ39392.1| transcriptional regulator, CarD family [Bradyrhizobium sp. BTAi1]
          Length = 278

 Score =  228 bits (582), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 109/177 (61%), Positives = 140/177 (79%), Gaps = 3/177 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           ++K    RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K
Sbjct: 72  EKKLPTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAK 131

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
             ++GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+
Sbjct: 132 VANVGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLY 191

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS---KSSKTE 177
           R++SQPE+SYSERQLYE+AL+R+ REIA V   +E EA+  IE  L+    + +KTE
Sbjct: 192 RSESQPEQSYSERQLYEAALDRLSREIAVVQHSTETEAVKEIETQLAKSPRRGAKTE 248


>gi|146337765|ref|YP_001202813.1| CarD family transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146190571|emb|CAL74573.1| putative transcriptional regulatory protein, CarD family
           [Bradyrhizobium sp. ORS278]
          Length = 204

 Score =  228 bits (581), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 108/170 (63%), Positives = 137/170 (80%), Gaps = 3/170 (1%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 5   RQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVANVGMR 64

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 65  KLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 124

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS---KSSKTE 177
           +SYSERQLYE+AL+R+ REIA V   +E EA+  IE  L+    + +KTE
Sbjct: 125 QSYSERQLYEAALDRLSREIAVVQHSTETEAVKEIETQLAKSPRRGAKTE 174


>gi|316931531|ref|YP_004106513.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           DX-1]
 gi|315599245|gb|ADU41780.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           DX-1]
          Length = 264

 Score =  227 bits (578), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 104/160 (65%), Positives = 132/160 (82%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 70  RQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVGNVGMR 129

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 130 KLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 189

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  I+E EA+  +E  L+
Sbjct: 190 QSYSERQLYEAALDRLSREIAVVQHITETEAVKEVESQLA 229


>gi|192288919|ref|YP_001989524.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           TIE-1]
 gi|192282668|gb|ACE99048.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           TIE-1]
          Length = 278

 Score =  226 bits (577), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 104/160 (65%), Positives = 132/160 (82%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 86  RQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVGNVGMR 145

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 146 KLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 205

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  I+E EA+  +E  L+
Sbjct: 206 QSYSERQLYEAALDRLSREIAVVQHITETEAVKEVESQLA 245


>gi|319406281|emb|CBI79918.1| transcriptional factor [Bartonella sp. AR 15-3]
          Length = 191

 Score =  226 bits (576), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 108/160 (67%), Positives = 129/160 (80%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP+ KA+  GMRKLS
Sbjct: 14  FSTSEYIVYPTHGVGQIIAIEEQEVAGHKLKLFVIHFAKDKMDVKVPIAKALSTGMRKLS 73

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + RA K+++G+AR+KRTMWSRRAQEYD KINSGD+I+IAEVVRDL R+D QPE+SY
Sbjct: 74  TVDSMNRAFKILQGRARIKRTMWSRRAQEYDTKINSGDIISIAEVVRDLFRSDLQPEQSY 133

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           SERQLY  AL+RM REIA +NS++E EAINLIE  L+ KS
Sbjct: 134 SERQLYTIALDRMAREIAVINSLTEMEAINLIEKYLTKKS 173


>gi|39933565|ref|NP_945841.1| CarD-like transcriptional regulator [Rhodopseudomonas palustris
           CGA009]
 gi|39647411|emb|CAE25932.1| possible CarD-like transcriptional regulator [Rhodopseudomonas
           palustris CGA009]
          Length = 220

 Score =  225 bits (574), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 104/160 (65%), Positives = 132/160 (82%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  ++GMR
Sbjct: 28  RQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVGNVGMR 87

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++SQPE
Sbjct: 88  KLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSESQPE 147

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYE+AL+R+ REIA V  I+E EA+  +E  L+
Sbjct: 148 QSYSERQLYEAALDRLSREIAVVQHITETEAVKEVESQLA 187


>gi|154252146|ref|YP_001412970.1| CarD family transcriptional regulator [Parvibaculum lavamentivorans
           DS-1]
 gi|154156096|gb|ABS63313.1| transcriptional regulator, CarD family [Parvibaculum
           lavamentivorans DS-1]
          Length = 350

 Score =  225 bits (573), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 108/174 (62%), Positives = 138/174 (79%), Gaps = 1/174 (0%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           R  F+  E +VYPAHGVG I +I+EQEVAG KLE FVI FDK+KM L+VP  KA  +GMR
Sbjct: 173 RANFKAKEFVVYPAHGVGQILDIEEQEVAGHKLELFVINFDKEKMTLRVPTNKAGAVGMR 232

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+A  V+ A++ +RG+AR+KRTMWSRRAQEY+AKINSGDLI+IAEVVRDL+R++ QPE
Sbjct: 233 KLSDAGVVDSAIETLRGRARIKRTMWSRRAQEYEAKINSGDLISIAEVVRDLYRSERQPE 292

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           +SYSERQLYE+AL+RM RE+AAV  I E  AI  +E  L   ++KT+K+   ++
Sbjct: 293 QSYSERQLYEAALDRMAREVAAVERIGEDAAIERVEQALQG-AAKTDKAPKSDE 345


>gi|323138996|ref|ZP_08074056.1| transcriptional regulator, CarD family [Methylocystis sp. ATCC
           49242]
 gi|322395750|gb|EFX98291.1| transcriptional regulator, CarD family [Methylocystis sp. ATCC
           49242]
          Length = 485

 Score =  224 bits (571), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 101/156 (64%), Positives = 127/156 (81%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           + GF+  E IVYPAHGVG I  ++ QEVAG  LE FV++F KDKM LKVP  K  ++GMR
Sbjct: 300 KHGFKQSEFIVYPAHGVGQIIGVEIQEVAGFSLELFVVSFIKDKMILKVPTSKVANVGMR 359

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KL+E + V++AL  + G+AR+KRTMWSRRAQEY+AKINSGDL+ IAEVVRDL+R+D+QPE
Sbjct: 360 KLAEGNVVDKALATLSGRARIKRTMWSRRAQEYEAKINSGDLVTIAEVVRDLYRSDTQPE 419

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +SYSERQLYE+AL+RM REIAAV  + + EA+ LIE
Sbjct: 420 QSYSERQLYEAALDRMAREIAAVRKLIDSEALKLIE 455


>gi|319407756|emb|CBI81403.1| transcriptional factor [Bartonella sp. 1-1C]
          Length = 191

 Score =  224 bits (570), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 109/162 (67%), Positives = 129/162 (79%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVPV KA+  GMRK
Sbjct: 12  EDFSTSEYIVYPTHGVGQIMAIEEQEVAGHKLKLFVIHFAKDKMDVKVPVAKALSTGMRK 71

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           LS    V RA K+++GKAR+KRTMWSRRAQEYD KINSGD+I+IAEVVRDL R+  QPE+
Sbjct: 72  LSTVDSVNRAFKILQGKARIKRTMWSRRAQEYDTKINSGDIISIAEVVRDLFRSALQPEQ 131

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           SYSERQLY  AL+RM REIA +N+++E EAINLIE +L  KS
Sbjct: 132 SYSERQLYAIALDRMAREIAIINNLTETEAINLIEKHLDKKS 173


>gi|300024663|ref|YP_003757274.1| CarD family transcriptional regulator [Hyphomicrobium denitrificans
           ATCC 51888]
 gi|299526484|gb|ADJ24953.1| transcriptional regulator, CarD family [Hyphomicrobium
           denitrificans ATCC 51888]
          Length = 333

 Score =  222 bits (566), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 104/175 (59%), Positives = 136/175 (77%), Gaps = 1/175 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +  Q+K    R GF+  E +VYPAHGVG I  I+EQE+AGM LE FVI FDK+K+ L+VP
Sbjct: 146 LAVQKKPVNQRHGFKANEFVVYPAHGVGRIVGIEEQEIAGMSLELFVITFDKEKLTLRVP 205

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
            GK   +GMRKL++   V++A++ ++G+AR+KRTMWSRRAQEY AKINSGDLI+IAEVVR
Sbjct: 206 TGKLASVGMRKLADEGLVKKAMETLKGRARIKRTMWSRRAQEYVAKINSGDLISIAEVVR 265

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           DL+R+++QPE+SYSERQLYE AL+RM RE+AAV  + E  A+  I   + SKS+K
Sbjct: 266 DLYRSEAQPEQSYSERQLYEDALDRMARELAAVEKLDERGAVQRI-TEILSKSAK 319


>gi|319404796|emb|CBI78397.1| transcriptional factor [Bartonella rochalimae ATCC BAA-1498]
          Length = 191

 Score =  222 bits (565), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 108/162 (66%), Positives = 129/162 (79%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVPV KA+  GMRK
Sbjct: 12  EDFSTSEYIVYPTHGVGQIMAIEEQEVAGHKLKLFVIHFAKDKMDVKVPVAKALSTGMRK 71

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           LS    V RA K+++GKAR+KRTMWSRRAQEYD KINSG++I+IAEVVRDL R+  QPE+
Sbjct: 72  LSTVDSVNRAFKILQGKARIKRTMWSRRAQEYDTKINSGNIISIAEVVRDLFRSALQPEQ 131

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           SYSERQLY  AL+RM REIA +N+++E EAINLIE +L  KS
Sbjct: 132 SYSERQLYAIALDRMAREIAIINNLTETEAINLIEKHLDKKS 173


>gi|312113407|ref|YP_004011003.1| transcriptional regulator, CarD family [Rhodomicrobium vannielii
           ATCC 17100]
 gi|311218536|gb|ADP69904.1| transcriptional regulator, CarD family [Rhodomicrobium vannielii
           ATCC 17100]
          Length = 187

 Score =  221 bits (564), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 107/174 (61%), Positives = 134/174 (77%), Gaps = 1/174 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           GF+  E++VYP HGVG I  I+EQE+AG KLE FVI F+KDKM L+VP  K    GMRKL
Sbjct: 11  GFKANEYVVYPTHGVGRIVAIEEQEIAGCKLELFVINFEKDKMTLRVPTSKTQSAGMRKL 70

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S+A  + RA++ +RG+ARVKRTMWSRRAQEY+AKINSGDLI IAEVVRDL+R+D+QPE+S
Sbjct: 71  SDAAVLARAMETLRGRARVKRTMWSRRAQEYEAKINSGDLITIAEVVRDLYRSDAQPEQS 130

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDK 186
           YSERQLYESAL+RM REIAA   + E  AI  +   L +K+ +  K   E+++K
Sbjct: 131 YSERQLYESALDRMAREIAAAQDVDESIAIQKVAEAL-TKAGRLRKQEVEDEEK 183


>gi|302384121|ref|YP_003819944.1| CarD family transcriptional regulator [Brevundimonas subvibrioides
           ATCC 15264]
 gi|302194749|gb|ADL02321.1| transcriptional regulator, CarD family [Brevundimonas subvibrioides
           ATCC 15264]
          Length = 186

 Score =  215 bits (548), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 99/175 (56%), Positives = 130/175 (74%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYPAHGVG +  ++ QEVAGM LE +V+ FD +KM L+VP  KA   G+R L+
Sbjct: 9   FKVGDAVVYPAHGVGKVAAVEVQEVAGMSLEVYVVTFDHEKMTLRVPTKKAKTAGLRSLA 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +AL  ++G+AR+KRTMWSRRAQEY+AKINSGDL+ IAEVVRDLHR DSQPE+SY
Sbjct: 69  SEDVVTKALSTLKGRARIKRTMWSRRAQEYEAKINSGDLVCIAEVVRDLHRADSQPEQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKAA 188
           SERQLYESAL+RM RE+AA N I +  A+ L+  +LS+K +    +   ++D  A
Sbjct: 129 SERQLYESALDRMAREVAAANRIDKDAAVQLLSKSLSAKKANAPVAEVADEDSEA 183


>gi|254418588|ref|ZP_05032312.1| CarD-like transcriptional regulator family [Brevundimonas sp. BAL3]
 gi|196184765|gb|EDX79741.1| CarD-like transcriptional regulator family [Brevundimonas sp. BAL3]
          Length = 176

 Score =  215 bits (548), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 97/159 (61%), Positives = 125/159 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYPAHGVG +  ++ QEVAGM LE +V+ FD +KM L+VP  KA   G+R L+
Sbjct: 9   FKVGDAVVYPAHGVGKVAAVETQEVAGMSLEVYVVTFDHEKMTLRVPTKKAATAGLRSLA 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +AL  ++G+AR+KRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR D+QPE+SY
Sbjct: 69  ADDVVTKALTTLKGRARIKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRADTQPEQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SERQLYESAL+RM RE+AA N I +  A+ L+  +LS+K
Sbjct: 129 SERQLYESALDRMAREVAAANKIDKDAAVELLAKSLSAK 167


>gi|99080417|ref|YP_612571.1| CarD family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99036697|gb|ABF63309.1| transcriptional regulator, CarD family [Ruegeria sp. TM1040]
          Length = 169

 Score =  214 bits (545), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 103/161 (63%), Positives = 126/161 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  + IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM L+VP  KAIDIGMR LS
Sbjct: 9   FRPNDFIVYPAHGVGQIISIEEQEVAGYKLELFVITFEKDKMTLRVPTHKAIDIGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVINQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGGDEIAAAKQVDEVLTSRAA 169


>gi|119384562|ref|YP_915618.1| CarD family transcriptional regulator [Paracoccus denitrificans
           PD1222]
 gi|119374329|gb|ABL69922.1| transcriptional regulator, CarD family [Paracoccus denitrificans
           PD1222]
          Length = 169

 Score =  213 bits (543), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 127/161 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  + +VYP HGVG I  I+EQEVAG++LE FVI+F+KDKM L+VP  +A +IGMR LS
Sbjct: 9   FRPDDFVVYPTHGVGRIVSIEEQEVAGLRLEMFVISFEKDKMTLRVPTARATEIGMRGLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VERAL  ++GKARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR D Q E+SY
Sbjct: 69  TPDLVERALDTLKGKARVKRAMWSRRAQEYEQKINSGDLMSIAEVVRDLHRNDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL+R+ RE+AAV+ + E  A   +E  L+++++
Sbjct: 129 SERQLYEAALDRLTREVAAVSGMDEAGAQKRVETVLTARAA 169


>gi|114799783|ref|YP_762092.1| CarD family transcriptional regulator [Hyphomonas neptunium ATCC
           15444]
 gi|114739957|gb|ABI78082.1| transcriptional regulator, CarD family [Hyphomonas neptunium ATCC
           15444]
          Length = 174

 Score =  213 bits (542), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 101/158 (63%), Positives = 126/158 (79%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K +A    F  G+ +VYPAHGVG IT I+ Q VAGM+LE +V+AFD+DKM L+VP  +A
Sbjct: 3   KKAEARTHAFEVGQSVVYPAHGVGKITGIESQTVAGMQLEVYVVAFDQDKMILRVPTNRA 62

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              GMR L+ +  V+ ALK + GKAR+KRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR
Sbjct: 63  EASGMRALAGSKLVDDALKTLGGKARIKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHR 122

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAI 162
            D QPE+SYSERQLYESAL+RM RE+AAV +I + +A+
Sbjct: 123 GDDQPEQSYSERQLYESALDRMARELAAVENIDKGKAM 160


>gi|167648071|ref|YP_001685734.1| CarD family transcriptional regulator [Caulobacter sp. K31]
 gi|167350501|gb|ABZ73236.1| transcriptional regulator, CarD family [Caulobacter sp. K31]
          Length = 170

 Score =  213 bits (541), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 97/156 (62%), Positives = 124/156 (79%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+H+VYPAHGVG+I  ++ QEVAGM LE ++I FD +KM L+VP  KA   G+R L+
Sbjct: 8   FSVGDHVVYPAHGVGSIQGVETQEVAGMSLEVYIITFDHEKMTLRVPTKKAKTAGLRPLA 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           E + V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR ++QPE+SY
Sbjct: 68  EGNVVSQALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAENQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           SERQLYESAL+RM RE+AA+  I    AI ++  +L
Sbjct: 128 SERQLYESALDRMAREVAAIERIDREAAIGILTKSL 163


>gi|16124906|ref|NP_419470.1| hypothetical protein CC_0653 [Caulobacter crescentus CB15]
 gi|221233627|ref|YP_002516063.1| CarD-like transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13421868|gb|AAK22638.1| conserved hypothetical protein [Caulobacter crescentus CB15]
 gi|220962799|gb|ACL94155.1| CarD-like transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 185

 Score =  213 bits (541), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 99/156 (63%), Positives = 123/156 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+H+VYPAHGVG+I  I+ QEVAGM LE +VI FD +KM L+VP  KA   G+R L+
Sbjct: 26  FSVGDHVVYPAHGVGSIQAIETQEVAGMSLEVYVITFDHEKMTLRVPTKKAKTAGLRPLA 85

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           E   V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR ++QPE+SY
Sbjct: 86  EGGTVSQALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAENQPEQSY 145

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           SERQLYESAL+RM RE+AA+  I    AI ++  +L
Sbjct: 146 SERQLYESALDRMAREVAAIERIDREAAIGILTKSL 181


>gi|83308694|emb|CAJ01604.1| putative transcriptional factor regulator [Methylocapsa acidiphila]
          Length = 175

 Score =  213 bits (541), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 101/150 (67%), Positives = 123/150 (82%)

Query: 20  IVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVE 79
           +VYPAHGVG I  I+EQ VAG KLE FVI+F KDKM LKVP  K   +GMRKL+EA  V+
Sbjct: 1   MVYPAHGVGQIIAIEEQVVAGFKLELFVISFIKDKMILKVPTPKVASVGMRKLAEAGVVK 60

Query: 80  RALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLY 139
           +AL  + G+AR+KRTMWSRRAQEY+AKINSGDLIAIAEVVRDL+R+D+QPE+SYSERQLY
Sbjct: 61  KALDTLAGRARIKRTMWSRRAQEYEAKINSGDLIAIAEVVRDLYRSDAQPEQSYSERQLY 120

Query: 140 ESALNRMVREIAAVNSISEPEAINLIEVNL 169
           E+AL+RM REI  V  ++E E++ +IE  L
Sbjct: 121 EAALDRMAREIVVVQKLTETESLKVIEGQL 150


>gi|259417460|ref|ZP_05741379.1| transcriptional regulator, CarD family [Silicibacter sp. TrichCH4B]
 gi|259346366|gb|EEW58180.1| transcriptional regulator, CarD family [Silicibacter sp. TrichCH4B]
          Length = 193

 Score =  213 bits (541), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 102/161 (63%), Positives = 126/161 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  + IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM L+VP  KA+DIGMR LS
Sbjct: 33  FRPNDFIVYPAHGVGQIISIEEQEVAGYKLELFVITFEKDKMTLRVPTHKAVDIGMRSLS 92

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 93  SPDVINQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 152

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 153 SERQLYEAALERLTREVAAVSGGDEIAAAKQVDEVLTSRAA 193


>gi|310815308|ref|YP_003963272.1| transcriptional regulator, CarD family protein [Ketogulonicigenium
           vulgare Y25]
 gi|308754043|gb|ADO41972.1| transcriptional regulator, CarD family protein [Ketogulonicigenium
           vulgare Y25]
          Length = 169

 Score =  212 bits (539), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 101/145 (69%), Positives = 117/145 (80%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   ++IVYPAHGVG I  I+EQEVAG KLE FVIAF+KDKM L+VP  KAI+IGMR L+
Sbjct: 9   FHPNDYIVYPAHGVGQILSIEEQEVAGFKLELFVIAFEKDKMTLRVPTNKAIEIGMRALA 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            +  V+ ALK ++GKA+VK+ MWSRRAQEYD KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 69  SSDVVDHALKTLKGKAKVKKAMWSRRAQEYDEKINSGDLIAIAEVVRDLHRADDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SERQLYE AL R+ RE+AAVN   E
Sbjct: 129 SERQLYERALERLTRELAAVNGKDE 153


>gi|295691061|ref|YP_003594754.1| CarD family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295432964|gb|ADG12136.1| transcriptional regulator, CarD family [Caulobacter segnis ATCC
           21756]
          Length = 167

 Score =  212 bits (539), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 99/156 (63%), Positives = 122/156 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+H+VYPAHGVG I  I+ QEVAGM LE +VI FD +KM L+VP  KA   G+R L+
Sbjct: 8   FSVGDHVVYPAHGVGNIQAIETQEVAGMSLEVYVITFDHEKMTLRVPTKKAKTAGLRPLA 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           E   V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR ++QPE+SY
Sbjct: 68  EGGTVSQALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAENQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           SERQLYESAL+RM RE+AA+  I    AI ++  +L
Sbjct: 128 SERQLYESALDRMAREVAAIERIDREAAIGILTKSL 163


>gi|197104173|ref|YP_002129550.1| transcriptional regulator,CarD family [Phenylobacterium zucineum
           HLK1]
 gi|196477593|gb|ACG77121.1| transcriptional regulator,CarD family [Phenylobacterium zucineum
           HLK1]
          Length = 171

 Score =  212 bits (539), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 97/156 (62%), Positives = 123/156 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+H+VYPAHGVG +  I+ QEVAG+KLE +VI FD +KM L+VP  KA   G+R L+
Sbjct: 8   FSVGDHVVYPAHGVGQVQGIETQEVAGLKLEVYVITFDHEKMTLRVPTAKAKTAGLRPLA 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR ++QPE+SY
Sbjct: 68  DTGLVSKALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAENQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           SERQLYESAL+RM RE+AA+  I    AI ++  +L
Sbjct: 128 SERQLYESALDRMAREVAAIERIDREAAIAMLNKSL 163


>gi|159043338|ref|YP_001532132.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
 gi|157911098|gb|ABV92531.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
          Length = 170

 Score =  211 bits (538), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 101/161 (62%), Positives = 124/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E++VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP  KA ++GMR LS
Sbjct: 10  FRPNEYVVYPAHGVGQIVSIEEQEVAGLTLELFVISFEKDKMTLRVPTNKATEVGMRSLS 69

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +A+  ++GKARVKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 70  SPDIVSKAMDTLKGKARVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRNDDQREQSY 129

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ REIAAV+   E  A   ++  L S+++
Sbjct: 130 SERQLYEAALERLTREIAAVSGDDEGNAQKRVDDVLVSRAA 170


>gi|254463989|ref|ZP_05077400.1| transcriptional regulator, CarD family [Rhodobacterales bacterium
           Y4I]
 gi|206684897|gb|EDZ45379.1| transcriptional regulator, CarD family [Rhodobacterales bacterium
           Y4I]
          Length = 169

 Score =  211 bits (538), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 126/161 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQEVAG  LE FVI F+KDKM L+VP  KA ++GMR LS
Sbjct: 9   FRPDDYVVYPAHGVGQIISIEEQEVAGFALELFVITFEKDKMTLRVPTNKATEVGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVIEQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGNDEIAAAKQVDEVLTSRAA 169


>gi|77462983|ref|YP_352487.1| CarD family transcriptional regulator [Rhodobacter sphaeroides
           2.4.1]
 gi|126461857|ref|YP_001042971.1| CarD family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17029]
 gi|146277597|ref|YP_001167756.1| CarD family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17025]
 gi|221638839|ref|YP_002525101.1| CarD family transcriptional regulator [Rhodobacter sphaeroides
           KD131]
 gi|332557859|ref|ZP_08412181.1| Transcriptional regulator, CarD family protein [Rhodobacter
           sphaeroides WS8N]
 gi|77387401|gb|ABA78586.1| transcriptional regulator, CarD family [Rhodobacter sphaeroides
           2.4.1]
 gi|126103521|gb|ABN76199.1| transcriptional regulator, CarD family [Rhodobacter sphaeroides
           ATCC 17029]
 gi|145555838|gb|ABP70451.1| transcriptional regulator, CarD family [Rhodobacter sphaeroides
           ATCC 17025]
 gi|221159620|gb|ACM00600.1| Transcriptional regulator, CarD family [Rhodobacter sphaeroides
           KD131]
 gi|332275571|gb|EGJ20886.1| Transcriptional regulator, CarD family protein [Rhodobacter
           sphaeroides WS8N]
          Length = 169

 Score =  211 bits (537), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 126/161 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E +VYPAHGVG I  I+EQE+AG++LE FVI+F+KDKM L+VP  KA ++GMR LS
Sbjct: 9   FRPNEFVVYPAHGVGRIISIEEQEIAGIRLELFVISFEKDKMTLRVPTHKATEVGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +AL  ++GKARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHRTD Q E+SY
Sbjct: 69  TPDVVTKALDTLKGKARVKRAMWSRRAQEYEQKINSGDLMSIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+ + E  A   ++  L S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGVDEAGAQKAVDAVLVSRAA 169


>gi|260434064|ref|ZP_05788035.1| transcriptional regulator, CarD family [Silicibacter
           lacuscaerulensis ITI-1157]
 gi|260417892|gb|EEX11151.1| transcriptional regulator, CarD family [Silicibacter
           lacuscaerulensis ITI-1157]
          Length = 169

 Score =  211 bits (537), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 127/161 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  + +VYPAHGVG I  I+EQEVAG KLE FVI+F+KDKM L+VP  KA + G+R LS
Sbjct: 9   FRPNDFVVYPAHGVGKIISIEEQEVAGFKLELFVISFEKDKMTLRVPTNKATESGLRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++A+K +RGKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 69  TPDVIDQAMKTLRGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL+R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALDRLTREVAAVSGADEIAAAKQVDEVLTSRAA 169


>gi|126738718|ref|ZP_01754414.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           SK209-2-6]
 gi|126719899|gb|EBA16606.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           SK209-2-6]
          Length = 169

 Score =  211 bits (537), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQEVAG  LE FVI F+KDKM L+VP  KA ++GMR LS
Sbjct: 9   FRPNDYVVYPAHGVGQIISIEEQEVAGFALELFVITFEKDKMTLRVPTNKATEVGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVINQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGADEILAAKQVDEVLTSRAA 169


>gi|84687443|ref|ZP_01015321.1| transcriptional regulator, CarD family protein [Maritimibacter
           alkaliphilus HTCC2654]
 gi|84664601|gb|EAQ11087.1| transcriptional regulator, CarD family protein [Rhodobacterales
           bacterium HTCC2654]
          Length = 169

 Score =  211 bits (536), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E++VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP  KA ++GMR LS
Sbjct: 9   FRPNEYVVYPAHGVGQIVSIEEQEVAGLTLELFVISFEKDKMTLRVPTNKATEVGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +A+  ++GKARVKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHR D Q E+SY
Sbjct: 69  SPDVVSKAMDTLKGKARVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRNDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGGDEAAAQEKVDGVLTSRAA 169


>gi|260576851|ref|ZP_05844834.1| transcriptional regulator, CarD family [Rhodobacter sp. SW2]
 gi|259020888|gb|EEW24201.1| transcriptional regulator, CarD family [Rhodobacter sp. SW2]
          Length = 169

 Score =  210 bits (535), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E +VYPAHGVG I  I+EQE+AG+ LE FVI+F+KDKM L+VP  KA +IGMR LS
Sbjct: 9   FRPNEFVVYPAHGVGKIISIEEQEIAGLHLELFVISFEKDKMTLRVPTHKATEIGMRGLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +AL  ++GKARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR+D Q E+SY
Sbjct: 69  SPDIVTKALDTLKGKARVKRAMWSRRAQEYEQKINSGDLLSIAEVVRDLHRSDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+ + E  A   +   L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGVDEAGAQKTVGTVLTSRAA 169


>gi|56696304|ref|YP_166661.1| CarD family transcriptional regulator [Ruegeria pomeroyi DSS-3]
 gi|56678041|gb|AAV94707.1| transcriptional regulator, CarD family [Ruegeria pomeroyi DSS-3]
          Length = 169

 Score =  210 bits (534), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 98/161 (60%), Positives = 126/161 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQEVAG KLE FVI+F+KDKM L+VP  KA + G+R LS
Sbjct: 9   FRPNDYVVYPAHGVGQILSIEEQEVAGFKLELFVISFEKDKMTLRVPTNKATESGLRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVISQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGADEMAAAKQVDEVLTSRAA 169


>gi|329890831|ref|ZP_08269174.1| carD-like/TRCF domain protein [Brevundimonas diminuta ATCC 11568]
 gi|328846132|gb|EGF95696.1| carD-like/TRCF domain protein [Brevundimonas diminuta ATCC 11568]
          Length = 181

 Score =  209 bits (533), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 97/159 (61%), Positives = 125/159 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYPAHGVG +  I+ QEVAGM LE +V+ F+ +KM L+VP  KA   G+R L+
Sbjct: 9   FKVGDAVVYPAHGVGKVAAIETQEVAGMALEVYVVTFEHEKMTLRVPTKKAKTAGLRTLA 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR ++QPE+SY
Sbjct: 69  ADDTVSKALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAETQPEQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SERQLYESAL+RM RE+AA N I +  A+ L+  +LS+K
Sbjct: 129 SERQLYESALDRMAREVAAANKIDKDAAMALLGKSLSAK 167


>gi|254476379|ref|ZP_05089765.1| transcriptional regulator, CarD family [Ruegeria sp. R11]
 gi|214030622|gb|EEB71457.1| transcriptional regulator, CarD family [Ruegeria sp. R11]
          Length = 169

 Score =  209 bits (532), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQEVAG KLE FVI F+KDKM L+VP  KA +IGMR LS
Sbjct: 9   FRPDDYVVYPAHGVGQIISIEEQEVAGFKLELFVITFEKDKMTLRVPTHKATEIGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +A+  ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVIAKAMTTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGGDEISAAKQVDEVLTSRAA 169


>gi|86137857|ref|ZP_01056433.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           MED193]
 gi|85825449|gb|EAQ45648.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           MED193]
          Length = 170

 Score =  209 bits (531), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 96/141 (68%), Positives = 115/141 (81%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            FR  E++VYPAHGVG I  ++EQEVAG  LE FVI F+KDKM L+VP  KAI++GMR L
Sbjct: 8   AFRPDEYVVYPAHGVGQIISVEEQEVAGFALELFVITFEKDKMTLRVPTNKAIEVGMRSL 67

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+S
Sbjct: 68  SSPDVIAQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQS 127

Query: 133 YSERQLYESALNRMVREIAAV 153
           YSERQLYE+AL R+ RE+AAV
Sbjct: 128 YSERQLYEAALERLTREVAAV 148


>gi|254461053|ref|ZP_05074469.1| transcriptional regulator, CarD family [Rhodobacterales bacterium
           HTCC2083]
 gi|206677642|gb|EDZ42129.1| transcriptional regulator, CarD family [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 172

 Score =  209 bits (531), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 103/159 (64%), Positives = 120/159 (75%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E +VYPAHGVG +  ++EQEVA +KLE +VIAF+KDKM L+VP  KAIDIGMR LS
Sbjct: 9   FRVNEFVVYPAHGVGKVVSVEEQEVADVKLELYVIAFEKDKMTLRVPTHKAIDIGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+SY
Sbjct: 69  TGDEVAHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SERQLYE+AL R+ REI AV    E  A   I   L S+
Sbjct: 129 SERQLYEAALERLTREIGAVQGGDEDAAARQITDVLMSR 167


>gi|114764920|ref|ZP_01444093.1| transcriptional regulator, CarD family protein [Pelagibaca
           bermudensis HTCC2601]
 gi|114542632|gb|EAU45656.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           HTCC2601]
          Length = 169

 Score =  209 bits (531), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 98/145 (67%), Positives = 117/145 (80%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQEVAGM LE FVI+F+KDKM L+VP  KA +IGMR LS
Sbjct: 9   FRPNDYVVYPAHGVGQIMSIEEQEVAGMTLELFVISFEKDKMTLRVPTHKATEIGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 69  SPDVVSQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SERQLYE+AL R+ RE+AAV+   E
Sbjct: 129 SERQLYEAALERLTREVAAVSGGDE 153


>gi|163738513|ref|ZP_02145928.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis BS107]
 gi|163743575|ref|ZP_02150952.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis 2.10]
 gi|161383160|gb|EDQ07552.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis 2.10]
 gi|161388434|gb|EDQ12788.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis BS107]
          Length = 170

 Score =  208 bits (529), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 98/161 (60%), Positives = 124/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQEVAG  LE FVI F+KDKM L+VP  KA +IGMR LS
Sbjct: 9   FRPDDYVVYPAHGVGQIISIEEQEVAGFALELFVITFEKDKMTLRVPTNKATEIGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +A+  ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVIAKAMTTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGGDEISAAKQVDEVLTSRAA 169


>gi|315498116|ref|YP_004086920.1| transcriptional regulator, card family [Asticcacaulis excentricus
           CB 48]
 gi|315416128|gb|ADU12769.1| transcriptional regulator, CarD family [Asticcacaulis excentricus
           CB 48]
          Length = 169

 Score =  208 bits (529), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 94/156 (60%), Positives = 124/156 (79%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+TG+ +VYPAHGVGT+  ++ QEVAG +LE +V+ FD +KM L+VP  KA   G+R L+
Sbjct: 10  FKTGDKVVYPAHGVGTVAAVESQEVAGYQLEVYVVTFDHEKMTLRVPTKKAKTAGLRHLA 69

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            A  + +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDL++IAEVVRDLHR ++QPE+SY
Sbjct: 70  PAAVMSQALVTLKGRARVKRTMWSRRAQEYEAKINSGDLVSIAEVVRDLHRAENQPEQSY 129

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           SERQLYESAL+RM RE+AA+  I    A+ L+  +L
Sbjct: 130 SERQLYESALDRMAREVAAIEKIDRDAAVALLNKSL 165


>gi|83955682|ref|ZP_00964262.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           NAS-14.1]
 gi|83839976|gb|EAP79152.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           NAS-14.1]
          Length = 171

 Score =  208 bits (529), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 97/140 (69%), Positives = 114/140 (81%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E +VYPAHGVG I  ++EQEVAG+ LE FVIAF+KDKM L+VP  KA +IGMR LS
Sbjct: 9   FRPNEFVVYPAHGVGQIISVEEQEVAGISLELFVIAFEKDKMTLRVPTHKATEIGMRALS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVISHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAV 153
           SERQLYE+AL R+ RE+AAV
Sbjct: 129 SERQLYEAALERLTREVAAV 148


>gi|294678311|ref|YP_003578926.1| CarD family transcriptional regulator [Rhodobacter capsulatus SB
           1003]
 gi|294477131|gb|ADE86519.1| transcriptional regulator, CarD family [Rhodobacter capsulatus SB
           1003]
          Length = 169

 Score =  207 bits (527), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 97/161 (60%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  + +VYPAHGVG I  I+EQE+AG++LE FVI+F+KDKM L+VP  KA+DIGMR LS
Sbjct: 9   FRPDDFVVYPAHGVGKIISIEEQEIAGLRLELFVISFEKDKMTLRVPTHKAVDIGMRGLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +AL+ ++GKA+VKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR D Q E+SY
Sbjct: 69  SPDVVTKALETLKGKAKVKRAMWSRRAQEYEQKINSGDLLSIAEVVRDLHRADDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L  +++
Sbjct: 129 SERQLYEAALERLTREVAAVSGTDEAGAAKKVDEVLVGRAA 169


>gi|163746984|ref|ZP_02154341.1| transcriptional regulator, CarD family, putative [Oceanibulbus
           indolifex HEL-45]
 gi|161380098|gb|EDQ04510.1| transcriptional regulator, CarD family, putative [Oceanibulbus
           indolifex HEL-45]
          Length = 170

 Score =  207 bits (527), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 102/158 (64%), Positives = 121/158 (76%), Gaps = 5/158 (3%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K D     FR  E +VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP
Sbjct: 1   MTKSKKLD-----FRPNEFVVYPAHGVGQIVSIEEQEVAGIALELFVISFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA +IGMR LS    +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKATEIGMRALSTPDVINHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISE 158
           DLHRTD Q E+SYSERQLYE+AL R+ RE+AAV+   E
Sbjct: 116 DLHRTDDQREQSYSERQLYEAALERLTREVAAVSGGDE 153


>gi|254293138|ref|YP_003059161.1| CarD family transcriptional regulator [Hirschia baltica ATCC 49814]
 gi|254041669|gb|ACT58464.1| transcriptional regulator, CarD family [Hirschia baltica ATCC
           49814]
          Length = 171

 Score =  207 bits (527), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 96/161 (59%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   +HIVYPAHGVG +T ++ QEVA MKLE +V+AF++DK+ L+VP  KA   GMR L+
Sbjct: 11  FEVEQHIVYPAHGVGRVTAVEVQEVADMKLEVYVVAFEQDKLILRVPTAKAKSSGMRSLA 70

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V  A+K + G+AR+KRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR D QP++SY
Sbjct: 71  STKVVGDAIKTLGGRARIKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRADDQPDQSY 130

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYESAL+RM RE+A V +I   EA+  +  +L+ +++
Sbjct: 131 SERQLYESALDRMARELAVVENIEHTEAVARLSQSLAQRAA 171


>gi|254486669|ref|ZP_05099874.1| transcriptional regulator, CarD family [Roseobacter sp. GAI101]
 gi|214043538|gb|EEB84176.1| transcriptional regulator, CarD family [Roseobacter sp. GAI101]
          Length = 171

 Score =  207 bits (527), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 96/140 (68%), Positives = 114/140 (81%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E +VYPAHGVG I  ++EQE+AG+ LE FVIAF+KDKM L+VP  KA +IGMR LS
Sbjct: 9   FRPNEFVVYPAHGVGQIVSVEEQEIAGISLELFVIAFEKDKMTLRVPTHKATEIGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDTITHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAV 153
           SERQLYE+AL R+ RE+AAV
Sbjct: 129 SERQLYEAALERLTREVAAV 148


>gi|126727502|ref|ZP_01743336.1| putative CarD-like transcriptional regulator [Rhodobacterales
           bacterium HTCC2150]
 gi|126703282|gb|EBA02381.1| putative CarD-like transcriptional regulator [Rhodobacterales
           bacterium HTCC2150]
          Length = 172

 Score =  207 bits (526), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 123/161 (76%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            FR  E +VYPAHGVG I  I++QE+AG+++E FV+AF+KDKM L+VP  KA+ +GMR L
Sbjct: 8   AFRPNEFVVYPAHGVGQIVRIEDQEIAGIEMELFVVAFEKDKMTLRVPTEKALHVGMRSL 67

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    V RA+  ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+S
Sbjct: 68  SSPETVTRAMTTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDEQREQS 127

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           YSERQLYE+AL R+ RE+AAV    E  A   I+  L S++
Sbjct: 128 YSERQLYEAALERLTREVAAVGGTDEVVAGQQIDGVLMSRA 168


>gi|255262370|ref|ZP_05341712.1| transcriptional regulator, CarD family [Thalassiobium sp. R2A62]
 gi|255104705|gb|EET47379.1| transcriptional regulator, CarD family [Thalassiobium sp. R2A62]
          Length = 171

 Score =  207 bits (526), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 104/174 (59%), Positives = 128/174 (73%), Gaps = 5/174 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M+ ++KRD     F   + +VYPAHGVG +  I+EQEVAG +LE FVIAF+KDKM L+VP
Sbjct: 1   MSKKKKRD-----FEPNDFVVYPAHGVGKVVSIEEQEVAGFELELFVIAFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KAI++GMR LS    V  A+K ++GKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKAIEVGMRSLSTPDVVNHAMKTLKGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           DLHR D Q E+SYSERQLYE+AL R+ REIAA  S  E  A   I   L S+++
Sbjct: 116 DLHRADDQREQSYSERQLYEAALERLTREIAATGSGDEAIAAQEITDVLQSRAA 169


>gi|110679120|ref|YP_682127.1| CarD family transcriptional regulator [Roseobacter denitrificans
           OCh 114]
 gi|109455236|gb|ABG31441.1| transcriptional regulator, CarD family, putative [Roseobacter
           denitrificans OCh 114]
          Length = 170

 Score =  207 bits (526), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 101/158 (63%), Positives = 121/158 (76%), Gaps = 5/158 (3%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K D     FR  E +VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP
Sbjct: 1   MTKSKKLD-----FRPNEFVVYPAHGVGQILSIEEQEVAGLSLELFVISFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA +IGMR LS    +  A++ ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKATEIGMRALSSPDVISHAMRTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISE 158
           DLHRTD Q E+SYSERQLYE+AL R+ RE+AAV+   E
Sbjct: 116 DLHRTDDQREQSYSERQLYEAALERLTREVAAVSGGDE 153


>gi|260426540|ref|ZP_05780519.1| transcriptional regulator, CarD family [Citreicella sp. SE45]
 gi|260421032|gb|EEX14283.1| transcriptional regulator, CarD family [Citreicella sp. SE45]
          Length = 170

 Score =  207 bits (526), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 97/145 (66%), Positives = 118/145 (81%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQE+AG+KLE FVI+F+KDKM L+VP  KA +IGMR LS
Sbjct: 10  FRPNDYVVYPAHGVGQIVLIEEQEIAGIKLELFVISFEKDKMTLRVPTHKASEIGMRSLS 69

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 70  SPDVVSQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQREQSY 129

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SERQLYE+AL R+ RE+AAV+   E
Sbjct: 130 SERQLYEAALERLTREVAAVSGGDE 154


>gi|163736061|ref|ZP_02143484.1| transcriptional regulator, CarD family, putative [Roseobacter
           litoralis Och 149]
 gi|161390657|gb|EDQ15003.1| transcriptional regulator, CarD family, putative [Roseobacter
           litoralis Och 149]
          Length = 170

 Score =  206 bits (525), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 101/158 (63%), Positives = 121/158 (76%), Gaps = 5/158 (3%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K D     FR  E +VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP
Sbjct: 1   MTKSKKLD-----FRPNEFVVYPAHGVGQILSIEEQEVAGISLELFVISFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA +IGMR LS    +  A++ ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKATEIGMRALSSPDVISHAMRTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISE 158
           DLHRTD Q E+SYSERQLYE+AL R+ RE+AAV+   E
Sbjct: 116 DLHRTDDQREQSYSERQLYEAALERLTREVAAVSGGDE 153


>gi|84500895|ref|ZP_00999130.1| transcriptional regulator, CarD family protein [Oceanicola
           batsensis HTCC2597]
 gi|84390962|gb|EAQ03380.1| transcriptional regulator, CarD family protein [Oceanicola
           batsensis HTCC2597]
          Length = 169

 Score =  206 bits (525), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 95/161 (59%), Positives = 124/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+ QE+AG+ LE FVI+F+KDKM L+VP  KA ++GMR LS
Sbjct: 9   FRPNDYVVYPAHGVGQIVSIESQEIAGISLELFVISFEKDKMTLRVPTNKATEVGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +A+  ++GKA+VKR MWSRRAQEY+ KINSGDL+AIAEVVRDLHR D Q E+SY
Sbjct: 69  TPDVVSKAMSTLKGKAKVKRAMWSRRAQEYEQKINSGDLVAIAEVVRDLHRNDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E +A   ++  L S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGADEVDAARKVDEVLVSRAA 169


>gi|149202302|ref|ZP_01879275.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           TM1035]
 gi|149144400|gb|EDM32431.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           TM1035]
          Length = 169

 Score =  206 bits (524), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 98/161 (60%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQE+AG+ LE FVI+F+KDKM L+VP  KA +IGMR LS
Sbjct: 9   FRPDDYVVYPAHGVGQIVSIEEQEIAGITLELFVISFEKDKMTLRVPTNKATEIGMRGLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +A+  ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR+D Q E+SY
Sbjct: 69  SPDVVSKAMSTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRSDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGGDEVLAARKVDEVLVSRAA 169


>gi|89055799|ref|YP_511250.1| CarD family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88865348|gb|ABD56225.1| transcriptional regulator, CarD family [Jannaschia sp. CCS1]
          Length = 172

 Score =  206 bits (523), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 96/148 (64%), Positives = 116/148 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   +++VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP  KA ++GMR LS
Sbjct: 10  FSPNDYVVYPAHGVGQIITIEEQEVAGLNLELFVISFEKDKMTLRVPTAKATEVGMRPLS 69

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   V +AL  ++GKARVKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHR D Q E+SY
Sbjct: 70  DPTVVSKALDTLKGKARVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRADDQREQSY 129

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SERQLYE+AL R+ RE+A V  I E  A
Sbjct: 130 SERQLYEAALERLTRELAVVKGIDEAGA 157


>gi|254511434|ref|ZP_05123501.1| transcriptional regulator, CarD family [Rhodobacteraceae bacterium
           KLH11]
 gi|221535145|gb|EEE38133.1| transcriptional regulator, CarD family [Rhodobacteraceae bacterium
           KLH11]
          Length = 170

 Score =  205 bits (521), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 95/161 (59%), Positives = 124/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQ+VAG  LE FVI+F+KDKM L+VP  K  + G+R LS
Sbjct: 9   FRPNDYVVYPAHGVGQIISIEEQDVAGFSLELFVISFEKDKMTLRVPTNKVTESGLRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q E+SY
Sbjct: 69  SPDVISQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 129 SERQLYEAALERLTREVAAVSGADEISAAKQVDEVLTSRAA 169


>gi|126729325|ref|ZP_01745139.1| transcriptional regulator, CarD family protein [Sagittula stellata
           E-37]
 gi|126710315|gb|EBA09367.1| transcriptional regulator, CarD family protein [Sagittula stellata
           E-37]
          Length = 171

 Score =  204 bits (520), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 94/141 (66%), Positives = 114/141 (80%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  +++VYPAHGVG I  I+EQE+AG+ LE FVI+F+KDKM L+VP  KA ++GMR LS
Sbjct: 12  FRPNDYVVYPAHGVGQIVSIEEQEIAGISLELFVISFEKDKMTLRVPTHKASEVGMRSLS 71

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 72  SPDVVSEAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQREQSY 131

Query: 134 SERQLYESALNRMVREIAAVN 154
           SERQLYE+AL R+ RE+AAV 
Sbjct: 132 SERQLYEAALERLTREVAAVT 152


>gi|89069370|ref|ZP_01156729.1| transcriptional regulator, CarD family protein [Oceanicola
           granulosus HTCC2516]
 gi|89045137|gb|EAR51208.1| transcriptional regulator, CarD family protein [Oceanicola
           granulosus HTCC2516]
          Length = 171

 Score =  203 bits (517), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 122/161 (75%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   +H+VYPAHGVG I  I++QEVAG +LE FVI+F+KDKM L+VP  KA ++GMR LS
Sbjct: 9   FSPNDHVVYPAHGVGQIVSIEKQEVAGFELELFVISFEKDKMTLRVPTHKAEEVGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V  A+K ++GKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 69  SPDVVAHAMKTLKGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ REIAAV    E  A   I+  L S+++
Sbjct: 129 SERQLYEAALERLTREIAAVGGNDEVAAAKEIDDVLVSRAA 169


>gi|114570846|ref|YP_757526.1| CarD family transcriptional regulator [Maricaulis maris MCS10]
 gi|114341308|gb|ABI66588.1| transcriptional regulator, CarD family [Maricaulis maris MCS10]
          Length = 169

 Score =  203 bits (517), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 96/161 (59%), Positives = 122/161 (75%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + F+ G+ IVYPAHGVG +T +++  VAG  +E +V+ F++DKM L+VP  K    GMR 
Sbjct: 6   KSFKKGDFIVYPAHGVGRVTGVEKDSVAGFDIEVYVVTFEQDKMTLRVPTAKTEASGMRP 65

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           LS    V+ ALK ++GKA+VKRTMWSRRAQEY+AKINSGDLI IAEVVRDLHR + QPE+
Sbjct: 66  LSSDKIVKDALKTLKGKAKVKRTMWSRRAQEYEAKINSGDLIQIAEVVRDLHRAEDQPEQ 125

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SYSERQLYESAL+RMVRE+AAV  I    A  ++  +L+ K
Sbjct: 126 SYSERQLYESALDRMVRELAAVEEIEHEAAREMLSTSLAKK 166


>gi|83942849|ref|ZP_00955310.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           EE-36]
 gi|83846942|gb|EAP84818.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           EE-36]
          Length = 160

 Score =  203 bits (516), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 95/136 (69%), Positives = 112/136 (82%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHF 77
           E +VYPAHGVG I  ++EQEVAG+ LE FVIAF+KDKM L+VP  KA +IGMR LS    
Sbjct: 2   EFVVYPAHGVGQIISVEEQEVAGISLELFVIAFEKDKMTLRVPTHKATEIGMRALSSPDV 61

Query: 78  VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQ 137
           +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+SYSERQ
Sbjct: 62  ISHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQSYSERQ 121

Query: 138 LYESALNRMVREIAAV 153
           LYE+AL R+ RE+AAV
Sbjct: 122 LYEAALERLTREVAAV 137


>gi|329848406|ref|ZP_08263434.1| carD-like/TRCF domain protein [Asticcacaulis biprosthecum C19]
 gi|328843469|gb|EGF93038.1| carD-like/TRCF domain protein [Asticcacaulis biprosthecum C19]
          Length = 172

 Score =  202 bits (515), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 93/160 (58%), Positives = 122/160 (76%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           R  F  G+ +VYPAHGVGT+  ++ QEVAG  LE FV+ FD +KM L+VP  KA   G+R
Sbjct: 10  RFDFSVGDKVVYPAHGVGTVAAVETQEVAGYALEVFVVTFDHEKMTLRVPTKKAKTAGLR 69

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            L+    + +AL  ++G+AR+KRTMWSRRAQEY+AKINSG L+++AEVVRDL+R+DSQPE
Sbjct: 70  HLAAEAVMSQALVTLKGRARIKRTMWSRRAQEYEAKINSGCLVSLAEVVRDLYRSDSQPE 129

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +SYSERQLYESAL+RM RE+AA+  I    A+ L+  NL+
Sbjct: 130 QSYSERQLYESALDRMAREVAAIEKIDRDAAVALLNKNLT 169


>gi|83859720|ref|ZP_00953240.1| hypothetical protein OA2633_06964 [Oceanicaulis alexandrii
           HTCC2633]
 gi|83852079|gb|EAP89933.1| hypothetical protein OA2633_06964 [Oceanicaulis alexandrii
           HTCC2633]
          Length = 172

 Score =  202 bits (514), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 90/161 (55%), Positives = 125/161 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+  +++VYPAHGVG +  ++++ VAG  +E +V++F++DKM L+VP  KA   GMR L+
Sbjct: 12  FKKSDYVVYPAHGVGRVVGVEKESVAGFDIEVYVVSFEQDKMTLRVPTAKATAAGMRPLA 71

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ ALK ++GK +VKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR + QPE SY
Sbjct: 72  SDDVLKDALKTLKGKPKVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRQEDQPEPSY 131

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYESAL+RMVRE+AAV  +   +A+ ++   L+ K++
Sbjct: 132 SERQLYESALDRMVREVAAVEKVDREKALEMLTTTLTKKAA 172


>gi|114769349|ref|ZP_01446975.1| transcriptional regulator, CarD family protein [alpha
           proteobacterium HTCC2255]
 gi|114550266|gb|EAU53147.1| transcriptional regulator, CarD family protein [alpha
           proteobacterium HTCC2255]
          Length = 170

 Score =  201 bits (511), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 93/161 (57%), Positives = 122/161 (75%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  + +VYPAHGVG I  ++ QE+AG ++E FVIAF+KDKM L+VP  KA  +GMR L+
Sbjct: 10  FRLNDFVVYPAHGVGKIMTVETQEIAGTQMELFVIAFEKDKMTLRVPTAKATAVGMRNLA 69

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE+A+K ++G+ARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR D + E+SY
Sbjct: 70  SEELVEKAMKTLKGRARVKRAMWSRRAQEYEQKINSGDLMSIAEVVRDLHRNDEEREQSY 129

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   +   L +++S
Sbjct: 130 SERQLYEAALERLTREVAAVDGTDEGVAAEKVTDILVARAS 170


>gi|126733165|ref|ZP_01748912.1| transcriptional regulator, CarD family, putative [Roseobacter sp.
           CCS2]
 gi|126716031|gb|EBA12895.1| transcriptional regulator, CarD family, putative [Roseobacter sp.
           CCS2]
          Length = 168

 Score =  200 bits (509), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 99/161 (61%), Positives = 119/161 (73%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   E +VYPAHGVG I  I+ QEVAG +LE FVI+F+KDKM L+VP  KA  +GMR L+
Sbjct: 8   FSPNEFVVYPAHGVGKIVSIETQEVAGFELEMFVISFEKDKMTLRVPTDKATHVGMRALA 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V  A+K +RGKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 68  TPDVVSHAMKTLRGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRQDDQREQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ REIAAV    E  A   I+  L S+++
Sbjct: 128 SERQLYEAALERLTREIAAVAGNDENAAAAEIDSVLVSRAA 168


>gi|254449905|ref|ZP_05063342.1| transcriptional regulator, CarD family [Octadecabacter antarcticus
           238]
 gi|198264311|gb|EDY88581.1| transcriptional regulator, CarD family [Octadecabacter antarcticus
           238]
          Length = 170

 Score =  199 bits (505), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 96/160 (60%), Positives = 119/160 (74%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +   + +VYPAHGVG I  I+ QE+AG +LE FVIAF+KDKM L+VP  KA D+GMR L+
Sbjct: 8   YSPNDFVVYPAHGVGKIVSIETQEIAGFELEMFVIAFEKDKMTLRVPTNKAEDVGMRSLA 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   +K ++GKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 68  STEVVADCMKTLKGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQREQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           SERQLYE+AL R+ RE AAV + +E EA   I   L S++
Sbjct: 128 SERQLYEAALERLTREFAAVGNGNELEAGTEITDTLQSRA 167


>gi|254441381|ref|ZP_05054874.1| CarD-like transcriptional regulator family [Octadecabacter
           antarcticus 307]
 gi|198251459|gb|EDY75774.1| CarD-like transcriptional regulator family [Octadecabacter
           antarcticus 307]
          Length = 170

 Score =  198 bits (503), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 96/161 (59%), Positives = 119/161 (73%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +   + +VYPAHGVG +  I+ QE+AG +LE FVIAF+KDKM L+VP  KA ++GMR L+
Sbjct: 8   YSPNDFVVYPAHGVGKVVSIETQEIAGFELEMFVIAFEKDKMTLRVPTNKAEEVGMRSLA 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   +K +RGKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 68  STDVVADCMKTLRGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQREQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE AAV + +E EA   I   L S+ S
Sbjct: 128 SERQLYEAALERLTREFAAVGNGNELEAGTEITDTLQSRVS 168


>gi|84515406|ref|ZP_01002768.1| putative CarD-like transcriptional regulator [Loktanella
           vestfoldensis SKA53]
 gi|84510689|gb|EAQ07144.1| putative CarD-like transcriptional regulator [Loktanella
           vestfoldensis SKA53]
          Length = 225

 Score =  197 bits (502), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 94/140 (67%), Positives = 110/140 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPAHGVG I  ++ QEVAG +LE FVIAF+KDKM L+VP  KA D+GMR L+
Sbjct: 65  FSPDQFVVYPAHGVGKIVSVETQEVAGFELEMFVIAFEKDKMTLRVPTHKATDVGMRALA 124

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V  ALK +RGKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q E+SY
Sbjct: 125 TPDVVNHALKTLRGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRQDDQREQSY 184

Query: 134 SERQLYESALNRMVREIAAV 153
           SERQLYE+AL R+ RE AAV
Sbjct: 185 SERQLYEAALERLTREFAAV 204


>gi|87198150|ref|YP_495407.1| CarD family transcriptional regulator [Novosphingobium
           aromaticivorans DSM 12444]
 gi|87133831|gb|ABD24573.1| transcriptional regulator, CarD family [Novosphingobium
           aromaticivorans DSM 12444]
          Length = 174

 Score =  193 bits (490), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 88/163 (53%), Positives = 122/163 (74%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG + E++++E+AGMKL+ +V+ F+K++M L+VPV K   IGMRKL
Sbjct: 7   AFDVGDYVVYPKHGVGRVVELQDEEIAGMKLQLYVLRFEKERMTLRVPVNKVEAIGMRKL 66

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    +  AL  ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D QPE+S
Sbjct: 67  SSDKTLREALDTLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRADDQPEQS 126

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           YSERQ++E+A +R+ RE+AA+    EP A+  I   L+  + K
Sbjct: 127 YSERQIFEAASSRLARELAAMEKTDEPAALKKILAILNEHAPK 169


>gi|94497220|ref|ZP_01303792.1| transcriptional regulator, CarD family protein [Sphingomonas sp.
           SKA58]
 gi|94423325|gb|EAT08354.1| transcriptional regulator, CarD family protein [Sphingomonas sp.
           SKA58]
          Length = 175

 Score =  193 bits (490), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 84/152 (55%), Positives = 120/152 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E++++++AGM+LE +V+ F+K++M L+VP  KA  +GMRKLS
Sbjct: 8   FDVGDYVVYPKHGVGRVIELQKEQIAGMELELYVLRFEKERMTLRVPTNKAEGVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D QPE+SY
Sbjct: 68  SNKTLEEAMETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
           SERQ++E+A +R+ RE+AA+    EP A+  I
Sbjct: 128 SERQIFEAASSRLARELAAMEETDEPSALQKI 159


>gi|46201683|ref|ZP_00208209.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Magnetospirillum magnetotacticum MS-1]
          Length = 164

 Score =  192 bits (489), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 85/143 (59%), Positives = 113/143 (79%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG +  ++ QE+ GMKL+ FVI FD+D+M L+VPV KA   G+RKLS
Sbjct: 6   FTQGDYVVYPTHGVGQVVAVETQEIGGMKLQLFVITFDRDRMTLRVPVTKAQKSGLRKLS 65

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ AL  ++G+A+VKRTMWSRRAQEY+AKINSGD ++IAEVVRDLHR  +QP++SY
Sbjct: 66  SRSVMDTALSTLKGRAKVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLHRNANQPDQSY 125

Query: 134 SERQLYESALNRMVREIAAVNSI 156
           SERQ+YE+AL R+  E+AAV  I
Sbjct: 126 SERQIYEAALERLASELAAVERI 148


>gi|148556439|ref|YP_001264021.1| CarD family transcriptional regulator [Sphingomonas wittichii RW1]
 gi|148501629|gb|ABQ69883.1| transcriptional regulator, CarD family [Sphingomonas wittichii RW1]
          Length = 172

 Score =  192 bits (489), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 84/148 (56%), Positives = 118/148 (79%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E++ QE+AG KLE +V+ F+K++M L+VP  KA  +GMRKLS
Sbjct: 8   FVVGDYVVYPKHGVGRVVELQSQEIAGAKLELYVLRFEKERMTLRVPTNKAEAVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            +  +  AL  ++GK ++KRTMWSRRAQEY+AKINSGDL++I+EVVRDL R D QPE+SY
Sbjct: 68  SSVTMGEALTTLKGKPKIKRTMWSRRAQEYEAKINSGDLVSISEVVRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SERQ++E+A +R+ RE+AA+ ++ EP A
Sbjct: 128 SERQIFEAATSRLARELAAMEAVDEPTA 155


>gi|296284819|ref|ZP_06862817.1| transcriptional regulator [Citromicrobium bathyomarinum JL354]
          Length = 182

 Score =  192 bits (488), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 88/170 (51%), Positives = 126/170 (74%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG + E++ +E+AGM+LE +V+ F+K++M L+VPV K   IGMRKL
Sbjct: 12  AFDVGDYVVYPKHGVGRVVELQSEEIAGMQLELYVLRFEKERMTLRVPVNKVEAIGMRKL 71

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    ++ A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D QPE+S
Sbjct: 72  SSDKTLKEAMETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRPDDQPEQS 131

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
           YSERQ++E+A +R+ RE+AA+    EP A+  I   L   + +  ++T E
Sbjct: 132 YSERQIFEAASSRLARELAAMEKTDEPAALEKILSVLREHAPQYYENTEE 181


>gi|294012721|ref|YP_003546181.1| CarD-family transcriptional regulator [Sphingobium japonicum UT26S]
 gi|292676051|dbj|BAI97569.1| CarD-family transcriptional regulator [Sphingobium japonicum UT26S]
          Length = 175

 Score =  192 bits (488), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 84/152 (55%), Positives = 120/152 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E++++++AGM+LE +V+ F+K++M L+VP  KA  +GMRKLS
Sbjct: 8   FDVGDYVVYPKHGVGRVIELQKEQIAGMELELYVLRFEKERMTLRVPTNKAEGVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D QPE+SY
Sbjct: 68  SNKTLEEAVETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
           SERQ++E+A +R+ RE+AA+    EP A+  I
Sbjct: 128 SERQIFEAASSRLARELAAMEETDEPSALKKI 159


>gi|307294532|ref|ZP_07574374.1| transcriptional regulator, CarD family [Sphingobium
           chlorophenolicum L-1]
 gi|306879006|gb|EFN10224.1| transcriptional regulator, CarD family [Sphingobium
           chlorophenolicum L-1]
          Length = 175

 Score =  192 bits (488), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 84/152 (55%), Positives = 120/152 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E++++++AGM+LE +V+ F+K++M L+VP  KA  +GMRKLS
Sbjct: 8   FDVGDYVVYPKHGVGRVIELQKEQIAGMELELYVLRFEKERMTLRVPTNKAEGVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D QPE+SY
Sbjct: 68  SNKTLEEAVETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
           SERQ++E+A +R+ RE+AA+    EP A+  I
Sbjct: 128 SERQIFEAASSRLARELAAMEETDEPSALKKI 159


>gi|332186920|ref|ZP_08388661.1| carD-like/TRCF domain protein [Sphingomonas sp. S17]
 gi|332012930|gb|EGI54994.1| carD-like/TRCF domain protein [Sphingomonas sp. S17]
          Length = 177

 Score =  192 bits (487), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 84/148 (56%), Positives = 118/148 (79%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E+++QE+AGM+LE +V+ F+K++M L+VP  KA  +GMRKLS
Sbjct: 8   FDVGDYVVYPKHGVGRVIELQKQEIAGMQLELYVLRFEKERMTLRVPTNKAESVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +  A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEVVRDL R D QPE+SY
Sbjct: 68  SDKTMREAMETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVVRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SERQ++E+A +R+ RE+AA+  + E  A
Sbjct: 128 SERQIFEAATSRLARELAAMEEVDEQRA 155


>gi|56551117|ref|YP_161956.1| CarD family transcriptional regulator [Zymomonas mobilis subsp.
           mobilis ZM4]
 gi|241761475|ref|ZP_04759563.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
 gi|260753230|ref|YP_003226123.1| CarD family transcriptional regulator [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
 gi|56542691|gb|AAV88845.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis ZM4]
 gi|241374382|gb|EER63879.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
 gi|258552593|gb|ACV75539.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
          Length = 184

 Score =  190 bits (483), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 82/152 (53%), Positives = 119/152 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E++ QE+AG +LE +V+ F+K++M L+VP  KA  +GMRKLS
Sbjct: 8   FVVGDYVVYPKHGVGRVVELQSQEIAGTRLELYVLRFEKERMTLRVPTNKAEAVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            +  ++ A++ ++GK R+KRTMWSRRAQEY+ KINSGDL++IAEVVRDL R D QPE+SY
Sbjct: 68  SSATLQEAIQTLKGKPRIKRTMWSRRAQEYETKINSGDLVSIAEVVRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
           SERQ++E A +R+ RE+ A+ +  E +A++ I
Sbjct: 128 SERQIFEGAASRLARELGAMENTDEAQALDKI 159


>gi|144899571|emb|CAM76435.1| Transcription factor CarD-like [Magnetospirillum gryphiswaldense
           MSR-1]
          Length = 164

 Score =  190 bits (483), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 88/155 (56%), Positives = 119/155 (76%), Gaps = 1/155 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG +  I+ QE+ GMKL+ FVI F++D+M L+VPV KA   G+RKLS
Sbjct: 6   FAEGDYVVYPTHGVGQVMAIENQEIGGMKLQLFVITFERDRMTLRVPVAKATKSGLRKLS 65

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ AL  ++G+A+VKRTMWSRRAQEY+AKINSGD ++IAEVVRDL+R  +QP++SY
Sbjct: 66  SRKDMDTALSTLKGRAKVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLYRNANQPDQSY 125

Query: 134 SERQLYESALNRMVREIAAVNSI-SEPEAINLIEV 167
           SERQ+YE+AL R+  E+AAV  I +E  A  L E+
Sbjct: 126 SERQIYEAALERLAAELAAVEGIDAEAAAAKLCEL 160


>gi|83313417|ref|YP_423681.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82948258|dbj|BAE53122.1| Transcriptional regulator [Magnetospirillum magneticum AMB-1]
          Length = 167

 Score =  190 bits (483), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 84/143 (58%), Positives = 112/143 (78%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG +  ++ QE+ GMKL+ FVI FD+D+M L+VPV KA   G+R LS
Sbjct: 9   FTQGDYVVYPTHGVGQVVAVETQEIGGMKLQLFVITFDRDRMTLRVPVTKAQKSGLRMLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ AL  ++G+A+VKRTMWSRRAQEY+AKINSGD ++IAEVVRDLHR  +QP++SY
Sbjct: 69  SRSVMDTALSTLKGRAKVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLHRNANQPDQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSI 156
           SERQ+YE+AL R+  E+AAV  I
Sbjct: 129 SERQIYEAALERLASELAAVERI 151


>gi|306841480|ref|ZP_07474180.1| transcriptional regulator [Brucella sp. BO2]
 gi|306288444|gb|EFM59800.1| transcriptional regulator [Brucella sp. BO2]
          Length = 136

 Score =  190 bits (483), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 95/131 (72%), Positives = 112/131 (85%), Gaps = 1/131 (0%)

Query: 55  MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIA 114
           M LKVPV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+
Sbjct: 1   MRLKVPVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLIS 60

Query: 115 IAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           I+EVVRDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL +K  
Sbjct: 61  ISEVVRDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNL-AKGP 119

Query: 175 KTEKSTSENQD 185
           K  K+ +E  D
Sbjct: 120 KRGKAEAELDD 130


>gi|304321707|ref|YP_003855350.1| transcriptional regulator [Parvularcula bermudensis HTCC2503]
 gi|303300609|gb|ADM10208.1| transcriptional regulator [Parvularcula bermudensis HTCC2503]
          Length = 308

 Score =  189 bits (480), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 90/161 (55%), Positives = 118/161 (73%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q F+    I+YPAHGVG I ++++Q +   ++E FVI F+ +KM L+VPV KA   GMR 
Sbjct: 142 QKFKVNTQIIYPAHGVGNIVDLEKQTIGDFEVELFVIDFEHEKMKLRVPVAKAAASGMRN 201

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           LS    ++ AL+L+ G+ARVKRTMWSRRAQEY+AKINSGDL+++AEVVRDL R D QPE+
Sbjct: 202 LSTTEQIDDALELLEGRARVKRTMWSRRAQEYEAKINSGDLVSVAEVVRDLFRADDQPEQ 261

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SYSERQL+E A  R  RE+AAV   S  +AI+ I ++L  K
Sbjct: 262 SYSERQLFEQARERFGREVAAVRKKSLEKAIDEIHIHLDRK 302


>gi|85709786|ref|ZP_01040851.1| transcriptional regulator [Erythrobacter sp. NAP1]
 gi|85688496|gb|EAQ28500.1| transcriptional regulator [Erythrobacter sp. NAP1]
          Length = 178

 Score =  188 bits (477), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 83/153 (54%), Positives = 117/153 (76%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG + E++ +E+AGM+LE +V+ F+K++M L+VPV K   IGMRKL
Sbjct: 7   AFTVGDYVVYPKHGVGRVIELQSEEIAGMQLELYVLRFEKERMTLRVPVNKVESIGMRKL 66

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    ++ A+  ++GK +VKRTMWSRRAQEY+AKINSG+++ IAEV RDL R D QPE+S
Sbjct: 67  SSDKTLKEAMDTLKGKPKVKRTMWSRRAQEYEAKINSGEIVLIAEVTRDLFRPDDQPEQS 126

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           YSERQ++E+A +R+ RE+AA+    EP A+  I
Sbjct: 127 YSERQIFEAASSRLARELAAMEETDEPTALEKI 159


>gi|103485742|ref|YP_615303.1| CarD family transcriptional regulator [Sphingopyxis alaskensis
           RB2256]
 gi|98975819|gb|ABF51970.1| transcriptional regulator, CarD family [Sphingopyxis alaskensis
           RB2256]
          Length = 175

 Score =  185 bits (469), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 83/148 (56%), Positives = 115/148 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E+++ E+AGM+LE +V+ F+K+KM L+VP  KA  +GMRKLS
Sbjct: 8   FEVGDYVVYPKHGVGRVIELQKSEIAGMQLELYVLRFEKEKMTLRVPTNKAEGVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ AL+++  K +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D QPE+SY
Sbjct: 68  SDKTLKEALQVLTTKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SERQ++E+A +R+ RE+AA+    E  A
Sbjct: 128 SERQIFEAASSRLARELAAMEESDEKTA 155


>gi|149185279|ref|ZP_01863596.1| transcriptional regulator [Erythrobacter sp. SD-21]
 gi|148831390|gb|EDL49824.1| transcriptional regulator [Erythrobacter sp. SD-21]
          Length = 177

 Score =  183 bits (465), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 81/153 (52%), Positives = 117/153 (76%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG + E++ +E+AGM+L+ +V+ F+K++M L+VPV K   IGMRKL
Sbjct: 7   AFDVGDYVVYPKHGVGRVIELQSEEIAGMQLDLYVLRFEKERMTLRVPVNKVESIGMRKL 66

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    ++ A++ ++GK +VKRTMWSRRAQEY+AKINSG+++ IAEV RDL R D QPE+S
Sbjct: 67  SSDKTLKEAMETLKGKPKVKRTMWSRRAQEYEAKINSGEIVLIAEVTRDLFRPDDQPEQS 126

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           YSERQ++E+A +R+ RE+AA+    E  A+  I
Sbjct: 127 YSERQIFEAASSRLARELAAMEKTDEATALEKI 159


>gi|85375450|ref|YP_459512.1| transcriptional regulator [Erythrobacter litoralis HTCC2594]
 gi|84788533|gb|ABC64715.1| transcriptional regulator [Erythrobacter litoralis HTCC2594]
          Length = 178

 Score =  183 bits (464), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 81/153 (52%), Positives = 116/153 (75%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG + E++ +E+AGM+LE +V+ F+K++M L+VP  K   IGMRKL
Sbjct: 7   AFDVGDYVVYPKHGVGRVIELQNEEIAGMQLELYVLRFEKERMTLRVPTNKVESIGMRKL 66

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    ++ A++ ++GK +VKRTMWSRRAQEY+AKINSG+++ IAEV RDL R D QPE+S
Sbjct: 67  SSDKTLKEAMETLKGKPKVKRTMWSRRAQEYEAKINSGEIVLIAEVTRDLFRPDDQPEQS 126

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           YSERQ++E+A +R+ RE+AA+    E  A+  I
Sbjct: 127 YSERQIFEAASSRLARELAAMEKTDEATALEKI 159


>gi|83591419|ref|YP_425171.1| CarD family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83574333|gb|ABC20884.1| transcriptional regulator, CarD family [Rhodospirillum rubrum ATCC
           11170]
          Length = 165

 Score =  182 bits (461), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 85/158 (53%), Positives = 116/158 (73%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           + TG+ +VYP HGVG + +I++Q + G  LE  VI F++++M L++P+ K  + G+R+LS
Sbjct: 7   YETGDFVVYPTHGVGQVLDIEKQVIGGYDLELLVIGFERERMKLRIPMPKVRESGLRRLS 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E AL  +RGKARVKRTMWSRRAQEY+AKINSGD ++IAEVVRDLHR  +QPE+SY
Sbjct: 67  TKKVMESALVTLRGKARVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLHRNATQPEQSY 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           SERQ+YE AL R+  E+AA+  I    A   +E  LS+
Sbjct: 127 SERQIYELALERLTCELAAIEDIDASTATQKVEKLLSA 164


>gi|148262071|ref|YP_001236198.1| CarD family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|326405583|ref|YP_004285665.1| CarD family transcriptional regulator [Acidiphilium multivorum
           AIU301]
 gi|146403752|gb|ABQ32279.1| transcriptional regulator, CarD family [Acidiphilium cryptum JF-5]
 gi|325052445|dbj|BAJ82783.1| CarD family transcriptional regulator [Acidiphilium multivorum
           AIU301]
          Length = 266

 Score =  181 bits (459), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 82/150 (54%), Positives = 110/150 (73%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+H+VYP HGVG +  I  +E+AG KLE   I FD+++M L+VPV KA   G+RKLS
Sbjct: 108 FKPGDHVVYPTHGVGKVERIAAEEIAGQKLELIHITFDENRMTLRVPVNKARTAGLRKLS 167

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  ++G+ARVKRTMWSRRAQEY+AKINSGD +AIAEVVRDLHR   QP++S+
Sbjct: 168 SRKQFDEVLATLKGRARVKRTMWSRRAQEYEAKINSGDPMAIAEVVRDLHRNAGQPDQSF 227

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN 163
           SERQ++E AL+R+  E  A+  + +  AI+
Sbjct: 228 SERQIFEQALDRLAAEYGALEGLDKQGAID 257


>gi|163797039|ref|ZP_02190995.1| Transcriptional regulator [alpha proteobacterium BAL199]
 gi|159177786|gb|EDP62337.1| Transcriptional regulator [alpha proteobacterium BAL199]
          Length = 166

 Score =  178 bits (451), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 80/153 (52%), Positives = 118/153 (77%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+TG+ +VYP HGVG I   + Q VAG +L+  VI F++D+M L++PVGKA   G+R+LS
Sbjct: 8   FKTGDFVVYPTHGVGLIKGTETQIVAGTELDLLVIDFEQDRMTLRIPVGKARTSGLRRLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ AL+ ++G+A+V+RTMWSRRAQEY+AKINSGD ++IAEVVRDL R+ +Q ++SY
Sbjct: 68  SRKQMDVALQKLKGRAKVRRTMWSRRAQEYEAKINSGDPVSIAEVVRDLRRSSNQADQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SERQ+Y++A++R+ RE A +  I E  A++ +E
Sbjct: 128 SERQMYQAAIDRLAREFAKIEQIDEVTAVDRLE 160


>gi|288957083|ref|YP_003447424.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288909391|dbj|BAI70880.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 166

 Score =  178 bits (451), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 82/157 (52%), Positives = 119/157 (75%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYPAHGVG +  I+   +AG++++ + I F+K++M LKVPV KA + G+R+LS
Sbjct: 7   FDAGDFVVYPAHGVGRVEGIETHSIAGLEVQLYAITFEKERMTLKVPVTKARNAGLRRLS 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ AL+ ++G++RV+RTMWSRRAQEY+AKINSGD ++IAEVVRDL+R   Q ++SY
Sbjct: 67  SKDRIKVALETLQGRSRVRRTMWSRRAQEYEAKINSGDPVSIAEVVRDLYRGADQSDQSY 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SERQ+Y++AL R+ RE+AAV  I E +A   +E  LS
Sbjct: 127 SERQIYQAALERLARELAAVEKIDETKATERLESVLS 163


>gi|326386142|ref|ZP_08207766.1| CarD family transcriptional regulator [Novosphingobium
           nitrogenifigens DSM 19370]
 gi|326209367|gb|EGD60160.1| CarD family transcriptional regulator [Novosphingobium
           nitrogenifigens DSM 19370]
          Length = 151

 Score =  172 bits (435), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 82/146 (56%), Positives = 110/146 (75%)

Query: 30  ITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKA 89
           + E++ +E+AGMKLE +V+ F+K++M L+VPV K   IGMRKLS    +  AL  ++GK 
Sbjct: 1   MVELQNEEIAGMKLELYVLRFEKERMTLRVPVNKVEAIGMRKLSSDKTLREALDTLKGKP 60

Query: 90  RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVRE 149
           +VKRTMWSRRAQEY+AKINSGDL+AIAEV RDL R D QPE+SYSERQ++E+A +R+ RE
Sbjct: 61  KVKRTMWSRRAQEYEAKINSGDLVAIAEVTRDLFRADDQPEQSYSERQIFEAASSRLARE 120

Query: 150 IAAVNSISEPEAINLIEVNLSSKSSK 175
           +AA+    EP A+  I V L+  + K
Sbjct: 121 LAAMEKTDEPAALKKILVILNEHAPK 146


>gi|296537276|ref|ZP_06899162.1| CarD family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
 gi|296262394|gb|EFH09133.1| CarD family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
          Length = 226

 Score =  171 bits (434), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 72/142 (50%), Positives = 108/142 (76%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+H+VYP HGVG +  I+   VAG +L+  ++ F++++M L+VP+ KA   G+RKL+
Sbjct: 68  FKAGDHVVYPTHGVGQVQGIESMAVAGTELKVIIVTFEENRMTLRVPLNKAASSGLRKLA 127

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +  A++ ++G+AR+KRTMWSRRAQEY+ KINSGD + IAEVVRDLHR   QP++S+
Sbjct: 128 GGDRMGEAMETLKGRARIKRTMWSRRAQEYEQKINSGDPVQIAEVVRDLHRNAGQPDQSF 187

Query: 134 SERQLYESALNRMVREIAAVNS 155
           SERQ+YE A++R+  E+AA++ 
Sbjct: 188 SERQIYELAMDRLAAEVAAIDG 209


>gi|209965508|ref|YP_002298423.1| CarD-like transcriptional regulator protein, putative
           [Rhodospirillum centenum SW]
 gi|209958974|gb|ACI99610.1| CarD-like transcriptional regulator protein, putative
           [Rhodospirillum centenum SW]
          Length = 166

 Score =  171 bits (433), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 81/157 (51%), Positives = 112/157 (71%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+H+VYPAHGVG I  I+   +A   +  + I F+K++M LKVPV KA   G+R+LS
Sbjct: 7   FAAGDHVVYPAHGVGKIIGIETHSIAEQTVTLYAIQFEKERMTLKVPVAKARAAGLRRLS 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++ AL+ ++G +R+KR MWSRRAQEY+AKINSGD ++IAEVVRDL+R + Q ++SY
Sbjct: 67  SKDRIKAALETLQGPSRIKRIMWSRRAQEYEAKINSGDPVSIAEVVRDLYRGEDQSDQSY 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SERQ+Y +AL R+ RE+A V  I E +A   +E  LS
Sbjct: 127 SERQIYHAALERLARELAVVEKIDERKATERLEAVLS 163


>gi|294084639|ref|YP_003551397.1| transcriptional regulator [Candidatus Puniceispirillum marinum
           IMCC1322]
 gi|292664212|gb|ADE39313.1| Transcriptional regulator [Candidatus Puniceispirillum marinum
           IMCC1322]
          Length = 168

 Score =  171 bits (432), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 78/149 (52%), Positives = 111/149 (74%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HGVG I   + +EVAG++LE  V+ F++D+M L+VP+ KA  +G+R L
Sbjct: 8   AFEEGDFVVYPTHGVGRILGTETREVAGIELEMLVVRFEQDRMTLRVPMEKAKTLGLRTL 67

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S +  +++A+  ++GKARV+RTMWSRRA EY+ KI SGD ++IAEVVRDLHR  +Q E+S
Sbjct: 68  SSSKQMDQAITTLQGKARVRRTMWSRRAAEYETKIKSGDPVSIAEVVRDLHRRTNQSEQS 127

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
           YSERQ+Y++AL R+ RE AA+  I +  A
Sbjct: 128 YSERQMYQAALERLAREYAAIEKIDQDAA 156


>gi|23009120|ref|ZP_00050287.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Magnetospirillum magnetotacticum MS-1]
          Length = 143

 Score =  169 bits (427), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 80/133 (60%), Positives = 111/133 (83%), Gaps = 1/133 (0%)

Query: 55  MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIA 114
           M L+VP  KA  +GMRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI+
Sbjct: 1   MVLRVPTAKANSVGMRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLIS 60

Query: 115 IAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           + EVVRDL+R+++QPE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L +KS 
Sbjct: 61  VTEVVRDLYRSEAQPEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSL-AKSP 119

Query: 175 KTEKSTSENQDKA 187
           +  K+ +E + +A
Sbjct: 120 RRAKADAETEAEA 132


>gi|157825168|ref|YP_001492888.1| transcriptional regulator [Rickettsia akari str. Hartford]
 gi|157799126|gb|ABV74380.1| Transcriptional regulator [Rickettsia akari str. Hartford]
          Length = 177

 Score =  164 bits (415), Expect = 5e-39,   Method: Compositional matrix adjust.
 Identities = 80/167 (47%), Positives = 117/167 (70%), Gaps = 2/167 (1%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  + +   + GF+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV
Sbjct: 5   TQSENKTEQKSGFKIGQRIVYPAHGVGEITNIEYNTIAGTEIKVYVISFSQDKMTLKVPV 64

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RD
Sbjct: 65  SRAAVVGLRAVASRKDLDLIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRD 124

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           LH+ +   ++SYSER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 125 LHK-NVDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEV 170


>gi|157964091|ref|YP_001498915.1| transcriptional regulator [Rickettsia massiliae MTU5]
 gi|157843867|gb|ABV84368.1| Transcriptional regulator [Rickettsia massiliae MTU5]
          Length = 195

 Score =  160 bits (406), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 112/155 (72%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  +G+R ++
Sbjct: 35  FKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPVSRAAVVGLRAVA 94

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ +   ++SY
Sbjct: 95  SRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHK-NVDNDRSY 153

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           SER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 154 SERTLYESALNRLAGELAILENIHPTEAINKLVEV 188


>gi|67458425|ref|YP_246049.1| transcriptional regulator [Rickettsia felis URRWXCal2]
 gi|67003958|gb|AAY60884.1| Transcriptional regulator [Rickettsia felis URRWXCal2]
          Length = 177

 Score =  160 bits (406), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 112/155 (72%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  +G+R ++
Sbjct: 17  FKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPVSRAAVVGLRAVA 76

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ +   ++SY
Sbjct: 77  SRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHK-NVDNDRSY 135

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           SER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 136 SERTLYESALNRLAGELAILENIHPTEAINKLVEV 170


>gi|239948445|ref|ZP_04700198.1| transcriptional regulator [Rickettsia endosymbiont of Ixodes
           scapularis]
 gi|239922721|gb|EER22745.1| transcriptional regulator [Rickettsia endosymbiont of Ixodes
           scapularis]
          Length = 177

 Score =  160 bits (405), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 112/155 (72%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  +G+R ++
Sbjct: 17  FKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPVSRAAVVGLRAVA 76

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ +   ++SY
Sbjct: 77  SRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHK-NVDNDRSY 135

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           SER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 136 SERTLYESALNRLAGELAILENIHPTEAINKLVEV 170


>gi|15891953|ref|NP_359667.1| hypothetical protein RC0030 [Rickettsia conorii str. Malish 7]
 gi|157827900|ref|YP_001494142.1| hypothetical protein A1G_00190 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165932588|ref|YP_001649377.1| carD-like transcriptional regulator [Rickettsia rickettsii str.
           Iowa]
 gi|238650343|ref|YP_002916195.1| carD-like transcriptional regulator [Rickettsia peacockii str.
           Rustic]
 gi|15619064|gb|AAL02568.1| unknown [Rickettsia conorii str. Malish 7]
 gi|157800381|gb|ABV75634.1| hypothetical protein A1G_00190 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165907675|gb|ABY71971.1| carD-like transcriptional regulator [Rickettsia rickettsii str.
           Iowa]
 gi|238624441|gb|ACR47147.1| carD-like transcriptional regulator [Rickettsia peacockii str.
           Rustic]
          Length = 173

 Score =  160 bits (405), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 112/155 (72%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  +G+R ++
Sbjct: 13  FKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPVSRAAVVGLRAVA 72

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ +   ++SY
Sbjct: 73  SRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHK-NVDNDRSY 131

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           SER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 132 SERTLYESALNRLAGELAILENIHPTEAINKLVEV 166


>gi|157803212|ref|YP_001491761.1| hypothetical protein A1E_00115 [Rickettsia canadensis str. McKiel]
 gi|157784475|gb|ABV72976.1| hypothetical protein A1E_00115 [Rickettsia canadensis str. McKiel]
          Length = 175

 Score =  160 bits (404), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 112/155 (72%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  +G+R ++
Sbjct: 15  FKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFAQDKMTLKVPVNRATIVGLRAVA 74

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ +   ++SY
Sbjct: 75  SRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHK-NVDNDRSY 133

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           SER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 134 SERTLYESALNRLAGELAILENIHPTEAINKLVEV 168


>gi|229586256|ref|YP_002844757.1| Transcriptional regulator [Rickettsia africae ESF-5]
 gi|228021306|gb|ACP53014.1| Transcriptional regulator [Rickettsia africae ESF-5]
          Length = 173

 Score =  160 bits (404), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 112/155 (72%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  +G+R ++
Sbjct: 13  FKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPVSRAAVVGLRAVA 72

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ +   ++SY
Sbjct: 73  SRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHK-NVDNDRSY 131

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           SER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 132 SERTLYESALNRLAGELAILENIHPTEAINKLVEV 166


>gi|34581009|ref|ZP_00142489.1| hypothetical protein [Rickettsia sibirica 246]
 gi|28262394|gb|EAA25898.1| unknown [Rickettsia sibirica 246]
          Length = 173

 Score =  160 bits (404), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 112/155 (72%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  +G+R ++
Sbjct: 13  FKIGQRIVYPAHGVGEITNIEYYTIAGTEIKVYVISFSQDKMTLKVPVSRAAVVGLRAVA 72

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ +   ++SY
Sbjct: 73  SRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHK-NVDNDRSY 131

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           SER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 132 SERTLYESALNRLAGELAILENIHPTEAINKLVEV 166


>gi|51473313|ref|YP_067070.1| hypothetical protein RT0102 [Rickettsia typhi str. Wilmington]
 gi|51459625|gb|AAU03588.1| conserved hypothetical protein [Rickettsia typhi str. Wilmington]
          Length = 177

 Score =  159 bits (403), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 79/168 (47%), Positives = 117/168 (69%), Gaps = 2/168 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T  + +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVP
Sbjct: 4   ITQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIAGNEIKVYVISFSQDKMTLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+R
Sbjct: 64  VSRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           DLH+ +   ++SYSER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 124 DLHK-NVDNDRSYSERTLYESALNRLAGELAILENIDPTEAINKLVEV 170


>gi|91206102|ref|YP_538457.1| transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157826465|ref|YP_001495529.1| transcriptional regulator [Rickettsia bellii OSU 85-389]
 gi|91069646|gb|ABE05368.1| Transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157801769|gb|ABV78492.1| Transcriptional regulator [Rickettsia bellii OSU 85-389]
          Length = 178

 Score =  159 bits (402), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 76/165 (46%), Positives = 116/165 (70%), Gaps = 2/165 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + K +  +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM +KVPV +
Sbjct: 8   EDKTEQQKSEFKIGQRIVYPAHGVGEITNIENHTIAGTEIKVYVISFPQDKMTVKVPVSR 67

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
           A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++A+AEV+RDLH
Sbjct: 68  ATVVGLRAVASKKDLDLIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAVAEVLRDLH 127

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           + +   ++SYSER LYE+ALNR+  E+A + +I   EAIN L+EV
Sbjct: 128 K-NVDNDRSYSERTLYEAALNRLAGELAILENIDSSEAINKLVEV 171


>gi|15603905|ref|NP_220420.1| hypothetical protein RP026 [Rickettsia prowazekii str. Madrid E]
 gi|3860596|emb|CAA14497.1| unknown [Rickettsia prowazekii]
          Length = 201

 Score =  157 bits (398), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 78/168 (46%), Positives = 116/168 (69%), Gaps = 2/168 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T  + +   +  F+ G+ IVYPAHGVG IT I+   +A  +++ +VI+F +DKM LKVP
Sbjct: 28  ITQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIADTEIKVYVISFSQDKMTLKVP 87

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+R
Sbjct: 88  VNRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLR 147

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           DLH+ +   ++SYSER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 148 DLHK-NVDNDRSYSERTLYESALNRLAGELAILENIDPTEAINKLVEV 194


>gi|292571621|gb|ADE29536.1| Transcriptional regulator [Rickettsia prowazekii Rp22]
          Length = 177

 Score =  157 bits (397), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 78/168 (46%), Positives = 116/168 (69%), Gaps = 2/168 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T  + +   +  F+ G+ IVYPAHGVG IT I+   +A  +++ +VI+F +DKM LKVP
Sbjct: 4   ITQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIADTEIKVYVISFSQDKMTLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+R
Sbjct: 64  VNRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAIN-LIEV 167
           DLH+ +   ++SYSER LYESALNR+  E+A + +I   EAIN L+EV
Sbjct: 124 DLHK-NVDNDRSYSERTLYESALNRLAGELAILENIDPTEAINKLVEV 170


>gi|114328507|ref|YP_745664.1| carD-like transcriptional regulator [Granulibacter bethesdensis
           CGDNIH1]
 gi|114316681|gb|ABI62741.1| carD-like transcriptional regulator [Granulibacter bethesdensis
           CGDNIH1]
          Length = 216

 Score =  150 bits (380), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 69/152 (45%), Positives = 103/152 (67%), Gaps = 1/152 (0%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  Q   A +Q F+TG+ +VYP HGVG +  +  Q+VAG K+E   I+F +++M +++P 
Sbjct: 18  TAAQSSPAAKQ-FKTGDAVVYPGHGVGRVDHVGMQDVAGHKIEMIQISFAENQMTIRLPA 76

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            K    G+RKLS     E+A+  + G+ R+ + MWS+RAQEY A+INSGDL+A+AE++RD
Sbjct: 77  AKVATTGLRKLSSKADAEKAIAALSGRPRISKVMWSKRAQEYQARINSGDLLALAELLRD 136

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAV 153
           L R     + S+SERQ++E+AL+R   EIA V
Sbjct: 137 LRRNAGSQDGSFSERQIFETALDRFASEIATV 168


>gi|330813497|ref|YP_004357736.1| carD-like transcriptional regulator [Candidatus Pelagibacter sp.
           IMCC9063]
 gi|327486592|gb|AEA80997.1| carD-like transcriptional regulator [Candidatus Pelagibacter sp.
           IMCC9063]
          Length = 273

 Score =  143 bits (361), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 65/150 (43%), Positives = 104/150 (69%), Gaps = 3/150 (2%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K+D  ++ ++  ++++YP HG+G IT +++  +AG+ + F+ I   KDK+ L +P  + 
Sbjct: 100 KKQDNEKRTYKIKDYVIYPKHGIGQITAVEKDTIAGIDINFYKIEITKDKLVLTIPTNQQ 159

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R LS    V +A+ +++GKA+VKRTMWSRRAQEY+ KINSG++  IAEVVRDL++
Sbjct: 160 GH--LRSLSSTGQVAKAISILKGKAKVKRTMWSRRAQEYEQKINSGEIYQIAEVVRDLNK 217

Query: 125 TDSQP-EKSYSERQLYESALNRMVREIAAV 153
               P ++SYSERQL+E A  R++ E+  V
Sbjct: 218 NTDMPVDQSYSERQLFEKAFERLLGEVTVV 247


>gi|162147634|ref|YP_001602095.1| CarD family transcriptional regulator [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209542263|ref|YP_002274492.1| CarD family transcriptional regulator [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|161786211|emb|CAP55793.1| Transcriptional regulator, CarD family [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209529940|gb|ACI49877.1| transcriptional regulator, CarD family [Gluconacetobacter
           diazotrophicus PAl 5]
          Length = 196

 Score =  140 bits (352), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 69/149 (46%), Positives = 97/149 (65%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FREGDAIVYAAHGVGRVDRIGIDEIAGTKLEMIQISFPGNQMTLRIPLAKARKAGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V R MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSRGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAI 162
           SER+L+E+A  R V E+A +    EP A+
Sbjct: 158 SERKLFEAAQERFVAEVAVLEG-KEPTAV 185


>gi|148284672|ref|YP_001248762.1| putative transcriptional factor regulator [Orientia tsutsugamushi
           str. Boryong]
 gi|146740111|emb|CAM80284.1| putative transcriptional factor regulator [Orientia tsutsugamushi
           str. Boryong]
          Length = 169

 Score =  139 bits (351), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 67/149 (44%), Positives = 101/149 (67%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP+HGVG +  I+ Q   G +L  +V++F  DKM LKVPV      G+R +S
Sbjct: 9   FKIGDKVVYPSHGVGEVIGIENQVFCGKELRVYVVSFPMDKMTLKVPVNSKSTSGLRAIS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                ++  K++  +++    MWSRRAQEY+ KINSGDL +IAEVVRDL++ +++ ++SY
Sbjct: 69  YKTDTDKIYKILSSQSQPGNRMWSRRAQEYENKINSGDLCSIAEVVRDLYK-NAEVDRSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAI 162
           SER +YESA+ R+ RE+A + S+   E I
Sbjct: 128 SERIIYESAITRLARELAILESVKYEEII 156


>gi|189183652|ref|YP_001937437.1| hypothetical protein OTT_0745 [Orientia tsutsugamushi str. Ikeda]
 gi|189180423|dbj|BAG40203.1| hypothetical protein OTT_0745 [Orientia tsutsugamushi str. Ikeda]
          Length = 169

 Score =  139 bits (350), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 67/149 (44%), Positives = 101/149 (67%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP+HGVG +  I+ Q   G +L  +V++F  DKM LKVPV      G+R +S
Sbjct: 9   FKIGDKVVYPSHGVGEVIGIENQVFCGKELRVYVVSFPMDKMTLKVPVNSKSASGLRAIS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                ++  K++  +++    MWSRRAQEY+ KINSGDL +IAEVVRDL++ +++ ++SY
Sbjct: 69  YKTDTDKIYKILCSQSQPGNRMWSRRAQEYENKINSGDLCSIAEVVRDLYK-NAEVDRSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAI 162
           SER +YESA+ R+ RE+A + S+   E I
Sbjct: 128 SERTIYESAITRLARELAILESLKYEEII 156


>gi|262277939|ref|ZP_06055732.1| transcriptional regulator, CarD family [alpha proteobacterium
           HIMB114]
 gi|262225042|gb|EEY75501.1| transcriptional regulator, CarD family [alpha proteobacterium
           HIMB114]
          Length = 255

 Score =  139 bits (349), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 64/152 (42%), Positives = 103/152 (67%), Gaps = 3/152 (1%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           ++ ++  ++++YP HG+G I  + +  +AG++   + I   KDK+ L +P  +     +R
Sbjct: 86  KRTYKVKDYVIYPKHGIGQIISVDKLTIAGIEASVYKIEITKDKLNLTIPTNQQQH--LR 143

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP- 129
            LS  + + +AL +++GKA++KRTMWSRRA EY+ KINSGD+  IAEVVRDL++    P 
Sbjct: 144 PLSSLNQINKALSILKGKAKIKRTMWSRRAAEYEQKINSGDIYQIAEVVRDLNKNTDMPV 203

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEA 161
           ++SYSERQL+E A +R++ E++ V  ISE E 
Sbjct: 204 DQSYSERQLFEKAYDRLLGEVSIVLKISEEEG 235


>gi|330994677|ref|ZP_08318600.1| hypothetical protein SXCC_04565 [Gluconacetobacter sp. SXCC-1]
 gi|329758318|gb|EGG74839.1| hypothetical protein SXCC_04565 [Gluconacetobacter sp. SXCC-1]
          Length = 196

 Score =  137 bits (346), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 70/155 (45%), Positives = 98/155 (63%), Gaps = 1/155 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FREGDAIVYAAHGVGRVDRIGVDEIAGTKLEMIQISFPGNQMTLRIPLSKARKSGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V R MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSRGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAI-NLIEV 167
           SER+L+E+A  R V E+A +      E +  L EV
Sbjct: 158 SERKLFEAAQERFVAEVAVLEGKDPTEVLEKLTEV 192


>gi|296116291|ref|ZP_06834907.1| transcriptional regulator, CarD family protein [Gluconacetobacter
           hansenii ATCC 23769]
 gi|295977110|gb|EFG83872.1| transcriptional regulator, CarD family protein [Gluconacetobacter
           hansenii ATCC 23769]
          Length = 196

 Score =  137 bits (344), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 68/146 (46%), Positives = 95/146 (65%), Gaps = 1/146 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FREGDAIVYAAHGVGRVDRIGIDEIAGTKLEMIQISFPGNQMTLRIPLSKARKSGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V R MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSRGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEP 159
           SER+L+E+A  R V E+A +    EP
Sbjct: 158 SERKLFEAAQERFVAEVAVLEG-KEP 182


>gi|258542109|ref|YP_003187542.1| CarD family transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01]
 gi|256633187|dbj|BAH99162.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-01]
 gi|256636244|dbj|BAI02213.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-03]
 gi|256639299|dbj|BAI05261.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-07]
 gi|256642353|dbj|BAI08308.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-22]
 gi|256645408|dbj|BAI11356.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-26]
 gi|256648463|dbj|BAI14404.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-32]
 gi|256651516|dbj|BAI17450.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256654507|dbj|BAI20434.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-12]
          Length = 196

 Score =  133 bits (335), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 64/142 (45%), Positives = 93/142 (65%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FEEGDAIVYAAHGVGRVDRIGVDEIAGTKLEVIQISFPGNQMTLRIPLSKARKAGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V + MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSKGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNS 155
           SER+L+E+A  R V E+A + +
Sbjct: 158 SERKLFEAAQERFVAEVAVLEN 179


>gi|329114138|ref|ZP_08242900.1| Transcriptional Regulator CarD Family [Acetobacter pomorum DM001]
 gi|326696214|gb|EGE47893.1| Transcriptional Regulator CarD Family [Acetobacter pomorum DM001]
          Length = 196

 Score =  133 bits (335), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 64/140 (45%), Positives = 92/140 (65%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FEEGDAIVYAAHGVGRVDRIGVDEIAGTKLEVIQISFPGNQMTLRIPLSKARKAGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V + MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSKGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAV 153
           SER+L+E+A  R V E+A +
Sbjct: 158 SERKLFEAAQERFVAEVAVL 177


>gi|254455735|ref|ZP_05069164.1| CarD-like transcriptional regulator family protein [Candidatus
           Pelagibacter sp. HTCC7211]
 gi|207082737|gb|EDZ60163.1| CarD-like transcriptional regulator family protein [Candidatus
           Pelagibacter sp. HTCC7211]
          Length = 279

 Score =  132 bits (333), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 65/154 (42%), Positives = 105/154 (68%), Gaps = 3/154 (1%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K++  ++ ++  +H+VYP HGVG I+E K+  + G+ +E +VI F+KDK    VPV K 
Sbjct: 79  KKQETEKREYKIKDHVVYPKHGVGQISEFKKINIGGIDVETYVIKFEKDKANGMVPVNKQ 138

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R L+  + V + + +++ K ++KR+MWSRRAQEY+AKI+SG +  +AEVVRDL++
Sbjct: 139 S--HLRPLATINQVNKCISILKSKPKIKRSMWSRRAQEYEAKISSGKIYELAEVVRDLNK 196

Query: 125 TDS-QPEKSYSERQLYESALNRMVREIAAVNSIS 157
            D    ++SYSERQL+E A  R++ E   V ++S
Sbjct: 197 GDDLMVDQSYSERQLFEKAYERILSEFQIVLNMS 230


>gi|71083129|ref|YP_265848.1| hypothetical protein SAR11_0423 [Candidatus Pelagibacter ubique
           HTCC1062]
 gi|71062242|gb|AAZ21245.1| hypothetical protein SAR11_0423 [Candidatus Pelagibacter ubique
           HTCC1062]
          Length = 299

 Score =  132 bits (332), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 65/154 (42%), Positives = 104/154 (67%), Gaps = 3/154 (1%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K++  ++ ++  +++VYP HGVG ITE K+  + G+ +E +V+ F+KDK    VPV K 
Sbjct: 100 KKQETEKREYKVKDYVVYPKHGVGQITEFKKINIGGIDVETYVLKFEKDKANGMVPVNK- 158

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R L+  + V + + +++ K ++KR+MWSRRAQEY+AKI+SG +  +AEVVRDL++
Sbjct: 159 -QSHLRPLATINQVNKCISILKSKPKIKRSMWSRRAQEYEAKISSGKIYELAEVVRDLNK 217

Query: 125 TDS-QPEKSYSERQLYESALNRMVREIAAVNSIS 157
            D    ++SYSERQL+E A  R++ E   V  IS
Sbjct: 218 GDDLMVDQSYSERQLFEKAYERILSEFQIVMGIS 251


>gi|58040444|ref|YP_192408.1| transcriptional regulator [Gluconobacter oxydans 621H]
 gi|58002858|gb|AAW61752.1| Transcriptional regulator [Gluconobacter oxydans 621H]
          Length = 184

 Score =  132 bits (331), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 64/149 (42%), Positives = 96/149 (64%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG + +I   EVA   +E   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 26  FREGDSIVYAAHGVGRVDKIGMVEVADTVIEMIQISFPGNQMTLRIPLAKARKAGLRKIV 85

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V + MW+RRA  Y  KINSGDLI IAEV+RDL R     + S+
Sbjct: 86  TRDIVDKAMTVIKGKPHVSKGMWARRAVAYQEKINSGDLIQIAEVLRDLRRNVDSLDGSF 145

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAI 162
           SER+L+E+A  R V E+A + ++   + +
Sbjct: 146 SERKLFEAAQERFVAEVAVLENVDPAQVL 174


>gi|91762444|ref|ZP_01264409.1| hypothetical protein PU1002_04226 [Candidatus Pelagibacter ubique
           HTCC1002]
 gi|91718246|gb|EAS84896.1| hypothetical protein PU1002_04226 [Candidatus Pelagibacter ubique
           HTCC1002]
          Length = 304

 Score =  131 bits (330), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 64/154 (41%), Positives = 104/154 (67%), Gaps = 3/154 (1%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K++  ++ ++  +++VYP HGVG ITE K+  + G+ +E +V+ F+KDK    VPV K 
Sbjct: 105 KKQETEKREYKVKDYVVYPKHGVGQITEFKKINIGGIDVETYVLKFEKDKANGMVPVNK- 163

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R L+  + V + + +++ K ++KR+MWSRRAQEY+AKI+SG +  +AEVVRDL++
Sbjct: 164 -QSHLRPLATINQVNKCISILKSKPKIKRSMWSRRAQEYEAKISSGKIYELAEVVRDLNK 222

Query: 125 TDS-QPEKSYSERQLYESALNRMVREIAAVNSIS 157
            D    ++SYSERQL+E A  R++ E   V  +S
Sbjct: 223 GDDLMVDQSYSERQLFEKAYERILSEFQIVMGVS 256


>gi|40062705|gb|AAR37618.1| transcriptional regulator, CarD family [uncultured marine bacterium
           314]
          Length = 223

 Score =  128 bits (322), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 61/141 (43%), Positives = 93/141 (65%), Gaps = 3/141 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +   +++VYP HGVG I  I + ++  + + F+ +  +K+K+ L +P+ +     +R +S
Sbjct: 59  YNVKDYVVYPKHGVGKIISIDKAKMGDIDITFYKVLIEKEKLTLSIPINQQSH--LRHVS 116

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEKS 132
               + +A  +++ K R+KRTMWSRRAQEYD KINSG L  +AEVVRDL+ +TD   E+S
Sbjct: 117 SISQINKAASILKSKPRIKRTMWSRRAQEYDQKINSGKLYELAEVVRDLNKKTDIIAEQS 176

Query: 133 YSERQLYESALNRMVREIAAV 153
           YSERQL+E A NR+  E+  V
Sbjct: 177 YSERQLFEKAYNRLKSELEVV 197


>gi|86450984|gb|ABC96759.1| transcriptional regulator CarD family [Rhizobium leguminosarum bv.
           trifolii TA1]
          Length = 86

 Score =  107 bits (268), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 58/87 (66%), Positives = 71/87 (81%), Gaps = 3/87 (3%)

Query: 104 DAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAIN 163
           DAKINSGDLI+IAEVVRDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ 
Sbjct: 1   DAKINSGDLISIAEVVRDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVR 60

Query: 164 LIEVNLSSKSSKTEKSTSEN--QDKAA 188
           L E NL +K  K  K+  E+  QD+AA
Sbjct: 61  LDETNL-NKGPKRGKAIEEDDSQDEAA 86


>gi|77917722|ref|YP_355537.1| putative transcriptional regulator [Pelobacter carbinolicus DSM
           2380]
 gi|77543805|gb|ABA87367.1| transcriptional regulator, CarD family [Pelobacter carbinolicus DSM
           2380]
          Length = 161

 Score =  100 bits (249), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 87/155 (56%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+  VYPA GVG I  I+ +E  G K++F+V+      M + +PV     +GMR L 
Sbjct: 2   FKIGDMAVYPAQGVGVIEAIESKEFVGQKMDFYVLRIVDSDMTIMIPVNNVDSVGMRSLI 61

Query: 74  EAHFVERALKLVRGKARVKRTM--WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +   V     +++ K + +  +  WSRR ++Y+ KI SGD+  +AEV+R+L+      E 
Sbjct: 62  DKDRVRTVYDILKDKTQNQGNLASWSRRQRDYNEKIRSGDVFEVAEVLRELYMIREDKEL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SY E+++ E A   +V+EIA  +   E +  + +E
Sbjct: 122 SYGEKKVLELARKLVVKEIALADGKDEQQVTDRVE 156


>gi|183222034|ref|YP_001840030.1| CarD family transcriptional regulator [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
 gi|189912101|ref|YP_001963656.1| transcriptional regulator [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167776777|gb|ABZ95078.1| Transcriptional regulator [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167780456|gb|ABZ98754.1| Transcriptional regulator, CarD family [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
          Length = 193

 Score = 99.4 bits (246), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 87/152 (57%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++VYP HGVG +TE+ ++ + G K + + +     KM + +PV +A+D+G+R + 
Sbjct: 15  FKVGDYVVYPIHGVGEVTEVAKKLILGKKKDCYSLEIQGSKMKVSIPVDRAMDVGIRSII 74

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++ L L++         W  R Q    KI SG +  +A+V R+L+R     E S 
Sbjct: 75  DKKEIKKVLTLLKKDEVDTEEDWKVRYQNNMNKIKSGSIFEVADVCRNLYRRAYGKELSI 134

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            ER+LYESA N +  EIA    + + EA N++
Sbjct: 135 MERKLYESAYNLVKMEIALSKGVPQEEAGNIV 166


>gi|108760890|ref|YP_630846.1| CarD family transcriptional regulator CdnL [Myxococcus xanthus DK
           1622]
 gi|108464770|gb|ABF89955.1| transcriptional regulator, CarD family [Myxococcus xanthus DK 1622]
          Length = 164

 Score = 99.0 bits (245), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 89/152 (58%), Gaps = 1/152 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M+  F+TG+  VYP  GVG +  I+  EVAG +  F+V+   ++ M + +P+ K   +G+
Sbjct: 1   MQTSFKTGDKAVYPGQGVGEVMGIEHTEVAGQRQSFYVLRILENGMRIMIPINKVGSVGL 60

Query: 70  RKLSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R++     V++   +++ K   V  T W+RR +EY  KI +G +  IAEV+RDL+     
Sbjct: 61  REIISEEDVKQVYSILKEKDISVDSTTWNRRYREYMEKIKTGSVFEIAEVLRDLYLLKGD 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPE 160
            + S+ ER++ ++A + +++E++     SE E
Sbjct: 121 KDLSFGERKMLDTARSLLIKELSLAKDCSEDE 152


>gi|115378642|ref|ZP_01465793.1| transcriptional regulator, CarD family [Stigmatella aurantiaca
           DW4/3-1]
 gi|310820620|ref|YP_003952978.1| carD domain-containing protein transcriptional regulator
           [Stigmatella aurantiaca DW4/3-1]
 gi|115364354|gb|EAU63438.1| transcriptional regulator, CarD family [Stigmatella aurantiaca
           DW4/3-1]
 gi|309393692|gb|ADO71151.1| Transcriptional regulator, CarD domain protein [Stigmatella
           aurantiaca DW4/3-1]
          Length = 165

 Score = 97.4 bits (241), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 89/152 (58%), Gaps = 1/152 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M+  F+TG+  VYP  GVG +  I+  EVAG +  F+V+   ++ M + +P+ K   +G+
Sbjct: 1   MQTSFKTGDKAVYPGQGVGEVMGIEHTEVAGQRQSFYVLRILENGMRIMIPINKVGLVGL 60

Query: 70  RKLSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R++     V++   +++ K   V  T W+RR +EY  KI +G +  IAEV+RDL+     
Sbjct: 61  REIISEEDVKQVYSILKEKDISVDSTTWNRRYREYMEKIKTGSVFEIAEVLRDLYLLKGD 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPE 160
            + S+ ER++ ++A + +++E++     SE E
Sbjct: 121 KDLSFGERKMLDTARSLLIKELSLAKDCSEEE 152


>gi|294827601|ref|NP_710430.2| transcriptional regulator [Leptospira interrogans serovar Lai str.
           56601]
 gi|293385445|gb|AAN47448.2| transcriptional regulator [Leptospira interrogans serovar Lai str.
           56601]
          Length = 181

 Score = 97.1 bits (240), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 57/168 (33%), Positives = 91/168 (54%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++VYP HGVG I EI ++ + G K + +V+     KM + +PV KA  + +R + +
Sbjct: 13  KVGDYVVYPIHGVGEILEISKKNILGKKKDCYVLEIQGSKMKVMIPVDKAEQVRIRPIID 72

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +++ + L++         W  R Q    KI SG +  + EV R+L R  S  E S  
Sbjct: 73  KKEIKKVIALLKKDEVDTEEDWKIRYQNNLNKIKSGSIYEVGEVCRNLFRRASGKELSIM 132

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
           ER+LYESA N +  E+A    +++ EA NL+   L+S  S +EK   E
Sbjct: 133 ERKLYESAYNLVKMEVALSKGVTQEEAGNLVSDVLASTLSPSEKKAEE 180


>gi|45656119|ref|YP_000205.1| CarD transcriptional regulator [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
 gi|45599352|gb|AAS68842.1| transcriptional regulator (CarD family) [Leptospira interrogans
           serovar Copenhageni str. Fiocruz L1-130]
          Length = 197

 Score = 97.1 bits (240), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 57/168 (33%), Positives = 91/168 (54%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++VYP HGVG I EI ++ + G K + +V+     KM + +PV KA  + +R + +
Sbjct: 29  KVGDYVVYPIHGVGEILEISKKNILGKKKDCYVLEIQGSKMKVMIPVDKAEQVRIRPIID 88

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +++ + L++         W  R Q    KI SG +  + EV R+L R  S  E S  
Sbjct: 89  KKEIKKVIALLKKDEVDTEEDWKIRYQNNLNKIKSGSIYEVGEVCRNLFRRASGKELSIM 148

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
           ER+LYESA N +  E+A    +++ EA NL+   L+S  S +EK   E
Sbjct: 149 ERKLYESAYNLVKMEVALSKGVTQEEAGNLVSDVLASTLSPSEKKAEE 196


>gi|153005358|ref|YP_001379683.1| CarD family transcriptional regulator [Anaeromyxobacter sp.
           Fw109-5]
 gi|152028931|gb|ABS26699.1| transcriptional regulator, CarD family [Anaeromyxobacter sp.
           Fw109-5]
          Length = 171

 Score = 96.7 bits (239), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 87/153 (56%), Gaps = 1/153 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G+  VYP  GVG +  I+ +EVAG +  F+V+   ++ M + +P+ K   +G+
Sbjct: 9   MAPNFKVGDKAVYPGQGVGEVMGIEHKEVAGQRQSFYVLRILENGMKIMIPMNKVGSVGL 68

Query: 70  RKLSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R++     V R   ++R K   V  T W+RR +EY  KI +G +  IAEV+RDL+   S 
Sbjct: 69  REIIGEKDVRRVYTILREKEVSVDSTTWNRRYREYMDKIKTGSVFEIAEVLRDLYLLRSD 128

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEA 161
            + S+ ER++ ++A + +++E+A      E + 
Sbjct: 129 KDLSFGERKMLDTARSLLIKELAIAKECGEDDV 161


>gi|86157697|ref|YP_464482.1| CarD family transcriptional regulator [Anaeromyxobacter
           dehalogenans 2CP-C]
 gi|197122995|ref|YP_002134946.1| CarD family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|220917784|ref|YP_002493088.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
 gi|85774208|gb|ABC81045.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-C]
 gi|196172844|gb|ACG73817.1| transcriptional regulator, CarD family [Anaeromyxobacter sp. K]
 gi|219955638|gb|ACL66022.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
          Length = 171

 Score = 96.7 bits (239), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 87/149 (58%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+  VYP  GVG +  I+ +EVAG +  F+V+   ++ M + +P+ K   +G+R++ 
Sbjct: 13  FKVGDKAVYPGQGVGEVMGIEHKEVAGQRQSFYVLRILENGMKIMIPMNKVGSVGLREII 72

Query: 74  EAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               V R   ++R K   V  T W+RR +EY  KI +G +  IAEV+RDL+   S  + S
Sbjct: 73  GEKDVRRVYGILREKEVSVDSTTWNRRYREYMDKIKTGSVFEIAEVLRDLYLLRSDKDLS 132

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
           + ER++ ++A + +++E+A   +  E + 
Sbjct: 133 FGERKMLDTARSLLIKELAIAKACDEQDV 161


>gi|116327105|ref|YP_796825.1| transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116332238|ref|YP_801956.1| transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
 gi|116119849|gb|ABJ77892.1| Transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116125927|gb|ABJ77198.1| Transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
          Length = 181

 Score = 96.3 bits (238), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 56/169 (33%), Positives = 92/169 (54%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++VYP HGVG I EI ++ + G K + +V+     KM + +PV KA  + +R + +
Sbjct: 13  KVGDYVVYPIHGVGEILEISKKNILGKKKDCYVLEIQGSKMKVMIPVDKAEQVRIRPIID 72

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +++ + L++         W  R Q    KI SG +  + EV R+L R  S  E S  
Sbjct: 73  KKEIKKVIALLKKDEVDTEEDWKIRYQNNLNKIKSGSIYEVGEVCRNLFRRASGKELSIM 132

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           ER+LYESA N +  E+A    +++ EA NL+   L+S  + +EK   E+
Sbjct: 133 ERKLYESAYNLVKMEVALSKGVTQEEAGNLVSDVLASTLAPSEKKAEED 181


>gi|282883398|ref|ZP_06291990.1| CarD family transcriptional regulator [Peptoniphilus lacrimalis
           315-B]
 gi|300813669|ref|ZP_07093991.1| CarD-like protein [Peptoniphilus sp. oral taxon 836 str. F0141]
 gi|281296754|gb|EFA89258.1| CarD family transcriptional regulator [Peptoniphilus lacrimalis
           315-B]
 gi|300512211|gb|EFK39389.1| CarD-like protein [Peptoniphilus sp. oral taxon 836 str. F0141]
          Length = 160

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 93/154 (60%), Gaps = 1/154 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG GTI  I+++E+ G K E++V+    +K+ + +PV KA ++G+RK+ 
Sbjct: 2   FKIGDKVVYPMHGAGTIVAIEDREILGKKHEYYVLLLPINKLKVMIPVKKADEVGVRKIM 61

Query: 74  EAHFVERALKLVRGKARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           E   +E  L+++  + + K  T W+RR +    KI SG+LI IA V++ L + DS+   S
Sbjct: 62  EISEMEEVLEILSSEEKFKMPTNWNRRYRFNLDKIKSGNLIEIAGVIKSLEKLDSKKSLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             ER++   A   ++ E+A V      E +++++
Sbjct: 122 TGERKILNEARIIIISEMALVFDKDVDEVVSMVD 155


>gi|95929125|ref|ZP_01311870.1| transcriptional regulator, CarD family [Desulfuromonas acetoxidans
           DSM 684]
 gi|95135026|gb|EAT16680.1| transcriptional regulator, CarD family [Desulfuromonas acetoxidans
           DSM 684]
          Length = 162

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/155 (32%), Positives = 88/155 (56%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+  VYPA GVG I  I+ +E +G + +F+V+      M + VP   A  +GMR L 
Sbjct: 3   FSVGDKAVYPAQGVGIIESIETKEFSGEEHDFYVLRICDSDMTIMVPTANAEQVGMRGLV 62

Query: 74  EAHFVERALKLVRGKARVKRTM--WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +   V++   +++    +  ++  WSRR +EY+ KI SGDL+ +A V+R+L+   +  E 
Sbjct: 63  DKAHVQKVYDVLQNTDAMAGSISSWSRRQREYNEKIKSGDLLEVAAVLRELYMIGNGKEL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SY E+++ E A   +V+E+A    + E +  + +E
Sbjct: 123 SYGEKKVLELARRLVVKEVAFAEGVEEDQICSRVE 157


>gi|323703787|ref|ZP_08115425.1| transcriptional regulator, CarD family [Desulfotomaculum
           nigrificans DSM 574]
 gi|323531256|gb|EGB21157.1| transcriptional regulator, CarD family [Desulfotomaculum
           nigrificans DSM 574]
          Length = 158

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 90/153 (58%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+  + ++G+R++ 
Sbjct: 2   FKIGDKVVYPMHGAGVIEAIEEKEVLGEKRKYYILRLPIGDMKVMIPINNSEEVGLREII 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++ + +++GK  V  T W+RR +    KI SGD+  +AEVVR+L   D +   S 
Sbjct: 62  APDEVKQVMGVLQGKTSVMSTNWNRRYRANLEKIKSGDIYEVAEVVRNLLTRDKEKGLSS 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++ E+A   ++ E+     + E +A ++I+
Sbjct: 122 GERKMLENARQILISELVLATELEEDKARSMID 154


>gi|332800107|ref|YP_004461606.1| CarD family transcriptional regulator [Tepidanaerobacter sp. Re1]
 gi|332697842|gb|AEE92299.1| transcriptional regulator, CarD family [Tepidanaerobacter sp. Re1]
          Length = 158

 Score = 95.5 bits (236), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 86/153 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+E+ G K +++++      M + +P+    DIG+R++ 
Sbjct: 2   FNIGDKVVYPMHGAGVIEAIEEKEILGEKQKYYIMRMPIGDMKVMIPLNNIEDIGVRQVV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +     ++RG+     + W+RR +    KI SG++  +AEVVR+L   D +   S 
Sbjct: 62  GDEEISEVFNILRGEKSKMSSNWNRRYRANMDKIRSGNIFQVAEVVRNLSLRDKEKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++ E+A + +V EI    +I E EA+ +IE
Sbjct: 122 GERKMLENAKHILVSEIVLSKNIQEDEALQMIE 154


>gi|134298063|ref|YP_001111559.1| CarD family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134050763|gb|ABO48734.1| transcriptional regulator, CarD family [Desulfotomaculum reducens
           MI-1]
          Length = 158

 Score = 94.7 bits (234), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 49/153 (32%), Positives = 86/153 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+    D+G+R + 
Sbjct: 2   FKIGDKVVYPMHGAGVIEAIEEKEVLGKKRQYYILRLPIGDMKVMIPISNCDDVGLRGII 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   V   L+++ G+  V    W+RR +    KI SGD+  +AEVVR+L   D +   S 
Sbjct: 62  DRDEVSTVLEVLEGQTTVMSGNWNRRYRANLEKIKSGDIYEVAEVVRNLLTRDKEKGLSS 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++ E+A   ++ E+     + E +A +LI+
Sbjct: 122 GERKMLENARQILISELVLAAEMEETKARSLID 154


>gi|320354570|ref|YP_004195909.1| CarD family transcriptional regulator [Desulfobulbus propionicus
           DSM 2032]
 gi|320123072|gb|ADW18618.1| transcriptional regulator, CarD family [Desulfobulbus propionicus
           DSM 2032]
          Length = 159

 Score = 92.8 bits (229), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 44/146 (30%), Positives = 81/146 (55%), Gaps = 1/146 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+  VYPAHGVG I  IK Q + G+   F+V+    + M + +P   + ++G+R + 
Sbjct: 2   FSKGDMAVYPAHGVGLIEAIKTQSIGGIDQSFYVMKILDNDMTIMIPTATSANVGLRAII 61

Query: 74  EAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               V + + +++ +  ++    W+RR +EY  KI +G +  +A V+RDL       + S
Sbjct: 62  SGEDVPKVIDILKERDIKITAQTWNRRYREYMEKIKTGSVFEVAVVLRDLFLLKEDKDLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISE 158
           Y ER++ ++A N +V+E++    + E
Sbjct: 122 YGERKMLDTAKNLLVKELSLAKQMEE 147


>gi|116751073|ref|YP_847760.1| CarD family transcriptional regulator [Syntrophobacter fumaroxidans
           MPOB]
 gi|116700137|gb|ABK19325.1| transcriptional regulator, CarD family [Syntrophobacter
           fumaroxidans MPOB]
          Length = 159

 Score = 92.8 bits (229), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 84/149 (56%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+  VYPAHGVG I  ++ + + G K +F+++    + M + +PV  A  +G+R L 
Sbjct: 2   FKIGDLAVYPAHGVGKIESVETKSIGGKKQDFYIMRILDNDMKIMIPVPNAHTVGLRGLI 61

Query: 74  EAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               + +   +++ +   V    W+RR +EY  KI +G +  +AEV+RDL       E S
Sbjct: 62  GLEDISKVYDILQKREVSVNGGTWNRRYREYMEKIKTGSIYELAEVLRDLTVLKGDKELS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
           + ER++ ++A   +++E++ V  ISE E 
Sbjct: 122 FGERKMLDTARTLLLKELSIVQDISEEEV 150


>gi|301060351|ref|ZP_07201214.1| CarD-like protein [delta proteobacterium NaphS2]
 gi|300445547|gb|EFK09449.1| CarD-like protein [delta proteobacterium NaphS2]
          Length = 159

 Score = 91.3 bits (225), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 83/149 (55%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+  VYPAHGVG I +I+ QE++G K +F+V+    + M + +P      +G+R + 
Sbjct: 2   FQVGDLAVYPAHGVGVIEKIESQEISGCKQDFYVMRILDNDMIIMIPTTNVDHVGLRDII 61

Query: 74  EAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               + +   +++ +   +    W+RR +EY  KI +G +  +AEV RDL       E S
Sbjct: 62  PKTELPKLFSILKKRDVTLDSQTWNRRYREYMEKIKTGSVFEVAEVYRDLLILRYDKELS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
           + ER++ ++A   +V+EI+    I+E + 
Sbjct: 122 FGERKMLDTARTLLVKEISLAKEITESQV 150


>gi|323700581|ref|ZP_08112493.1| transcriptional regulator, CarD family [Desulfovibrio sp. ND132]
 gi|323460513|gb|EGB16378.1| transcriptional regulator, CarD family [Desulfovibrio desulfuricans
           ND132]
          Length = 171

 Score = 91.3 bits (225), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 46/141 (32%), Positives = 79/141 (56%), Gaps = 3/141 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+  E +VYP+ GVG +  ++ QE+ G+K +F+++    + + L VPV  A+++G+R + 
Sbjct: 2   FKVDELVVYPSQGVGRVERVESQEIGGVKADFYIVRILSNNVTLMVPVANAVNVGLRSVC 61

Query: 74  EAHF---VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            A     +  +LK   G        W+RR +EY  K+ SGDL  +A V+++L       E
Sbjct: 62  PADVGQAIFESLKDRTGFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLKELFLIGKDKE 121

Query: 131 KSYSERQLYESALNRMVREIA 151
            S+ ER+L E A+  +  E+A
Sbjct: 122 LSFGERRLLEQAMGLVSMELA 142


>gi|303327050|ref|ZP_07357492.1| transcriptional regulator, CarD family [Desulfovibrio sp. 3_1_syn3]
 gi|302863038|gb|EFL85970.1| transcriptional regulator, CarD family [Desulfovibrio sp. 3_1_syn3]
          Length = 171

 Score = 91.3 bits (225), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 79/148 (53%), Gaps = 3/148 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG I  I  Q + G+  EF+++    + + L VPV  A ++G+R L+
Sbjct: 2   FAPDDLVVYPAQGVGKIERIDRQNIGGIACEFYIVRIRANNITLMVPVNNAANVGLRTLT 61

Query: 74  EAHFVERALKLVRG---KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                +  L+ +RG   K       W+RR +EY  ++ S DL  + EV+R+L       E
Sbjct: 62  PEADAQGILETLRGDTDKTIYTGQNWNRRFREYSERLKSPDLAVVTEVLRELLLISRSKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISE 158
            S+ ER+L E A+  +  E+A V  ++E
Sbjct: 122 LSFGERRLQEQAMGLVTGELAEVLHLTE 149


>gi|302342168|ref|YP_003806697.1| CarD family transcriptional regulator [Desulfarculus baarsii DSM
           2075]
 gi|301638781|gb|ADK84103.1| transcriptional regulator, CarD family [Desulfarculus baarsii DSM
           2075]
          Length = 161

 Score = 91.3 bits (225), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 82/139 (58%), Gaps = 1/139 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+  VYPAHGVG I  ++E+ + G +  F+++   ++ M + VP   A  +G+R + 
Sbjct: 2   FDLGQLAVYPAHGVGRIEAVEEKTIGGAQQCFYILRILENDMIIMVPTANAGAVGLRPII 61

Query: 74  EAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               V + L ++R     ++   W+RR ++Y +KI +G +  +AEV+RDL    S  E S
Sbjct: 62  PTEEVPQVLSILRDHDVIIENQTWNRRYRDYMSKIKTGSVYEVAEVLRDLFILKSDKELS 121

Query: 133 YSERQLYESALNRMVREIA 151
           + ER++ ++A N +V+E++
Sbjct: 122 FGERKMLDTARNLLVKELS 140


>gi|147676622|ref|YP_001210837.1| transcriptional regulator [Pelotomaculum thermopropionicum SI]
 gi|146272719|dbj|BAF58468.1| transcriptional regulator [Pelotomaculum thermopropionicum SI]
          Length = 158

 Score = 90.9 bits (224), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 87/153 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+    ++G+R + 
Sbjct: 2   FKIGDKVVYPMHGAGVIEAIEEKEVLGEKRQYYILRLPVGDMKVMIPITSGEEVGLRGVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   V+R   ++R ++      W+RR +    KI SG++  +AEVVR+L + D +   S 
Sbjct: 62  DREGVQRVFHILRQQSSAMSPNWNRRYRANLEKIKSGNIYEVAEVVRNLVKRDREKGLSS 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++ ESA   ++ E+     + E +A +L++
Sbjct: 122 GERKMLESARQILLSELVLATELEEEKAQSLLD 154


>gi|212716130|ref|ZP_03324258.1| hypothetical protein BIFCAT_01045 [Bifidobacterium catenulatum DSM
           16992]
 gi|212661497|gb|EEB22072.1| hypothetical protein BIFCAT_01045 [Bifidobacterium catenulatum DSM
           16992]
          Length = 198

 Score = 90.9 bits (224), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 58/180 (32%), Positives = 97/180 (53%), Gaps = 4/180 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAAKVEAITERTVKGITREYLQLSVLSSDGLVINVPVDNAKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
            S  E+++   A N +  EI+    + E EA  L++VNL  + ++   EK  +E  ++AA
Sbjct: 122 LSAGEKRMLTKARNILTSEISLSEKLDETEAQRLLDVNLGYEPAQPGDEKHHTEAPEEAA 181


>gi|220904723|ref|YP_002480035.1| CarD family transcriptional regulator [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
 gi|219869022|gb|ACL49357.1| transcriptional regulator, CarD family [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
          Length = 171

 Score = 90.9 bits (224), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 78/148 (52%), Gaps = 3/148 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG I  I  Q + G+  +F+++    + + L VPV  A  +G+R L+
Sbjct: 2   FTPNDLVVYPAQGVGKIESIDSQTIGGIACDFYIVRIQANNVTLMVPVNNAAHVGLRTLT 61

Query: 74  EAHFVERALKLVR---GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                ER L+ +R   GK       W+RR +EY  ++ S +L  + EV+R+L       E
Sbjct: 62  TTEEAERILEELRSSTGKVVHTGQNWNRRFREYSERLKSPELAVVTEVLRELLLIGRTKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISE 158
            S+ ER+L E A+  +  E+A V  + E
Sbjct: 122 LSFGERRLQEQAMGLVTGELAEVLKVEE 149


>gi|46579983|ref|YP_010791.1| CarD family transcriptional regulator [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120602605|ref|YP_967005.1| CarD family transcriptional regulator [Desulfovibrio vulgaris DP4]
 gi|46449399|gb|AAS96050.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120562834|gb|ABM28578.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris DP4]
 gi|311234019|gb|ADP86873.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris
           RCH1]
          Length = 171

 Score = 90.1 bits (222), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 51/151 (33%), Positives = 83/151 (54%), Gaps = 3/151 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   E +VYPA GVG +  I+ QEV G+  EF+++    + + L VPV  A ++G+R L 
Sbjct: 2   FSPDELVVYPAQGVGKVERIERQEVGGVTAEFYIVRILTNNVTLMVPVKNAANVGLRPLC 61

Query: 74  E---AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
               A+ +  +L+   G        W+RR +EY  K+ S DL  +A V+R+L       E
Sbjct: 62  STERANEIMLSLEDRSGFTGYTGQNWNRRYREYSEKLKSPDLGDVAYVLRELLLIGKDKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEA 161
            S+ ER+L E A++ +V E++ V  +++ E 
Sbjct: 122 LSFGERRLLEQAMSLLVVELSHVQGLTQEEV 152


>gi|308274564|emb|CBX31163.1| hypothetical protein N47_E46750 [uncultured Desulfobacterium sp.]
          Length = 183

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 87/163 (53%), Gaps = 2/163 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+  VYPAHGVG I  I+ + V G K +F++I   ++ M + +P      +G+R + 
Sbjct: 18  FHVGDLAVYPAHGVGRIEAIENKIVNGEKHDFYIIKVLENGMVIMIPTWNVDSVGLRDVI 77

Query: 74  EAHFVERALKLVRGK--ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
               V +    ++ K    +    W+RR ++Y  KI +G L  +AEV RDL+      + 
Sbjct: 78  SEGEVPKIYDFMKSKKETPIDTQTWNRRYRDYMDKIKTGSLYDVAEVFRDLYLLKLTKDL 137

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           S+ ER+L+++A   +V+E++   + SE +  + IE    SK +
Sbjct: 138 SFGERKLFDTAQTLLVKELSTARNTSEDKIFSEIESLFISKEN 180


>gi|78045099|ref|YP_361149.1| CarD family transcriptional regulator [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77997214|gb|ABB16113.1| transcriptional regulator, CarD family [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 160

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 85/153 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G  +VYP HG G I EI+E+  A   ++++V++F    M L +PV K   +G+R + 
Sbjct: 2   FKVGAKVVYPMHGAGIIREIEERLAADRVMKYYVLSFWATNMILWLPVEKVERVGLRPVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE+   +++       + W++R + +  KI S D++AIA+VVRDL R +     S 
Sbjct: 62  GKDMVEKVFAVLKEGEEKIHSNWNKRYKNHVDKIKSNDILAIADVVRDLRRREKVKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E++L ESA   +V E+  V    E + + +IE
Sbjct: 122 GEKKLLESARQILVSELILVLEEDEEKVLAMIE 154


>gi|229817858|ref|ZP_04448140.1| hypothetical protein BIFANG_03144 [Bifidobacterium angulatum DSM
           20098]
 gi|229784758|gb|EEP20872.1| hypothetical protein BIFANG_03144 [Bifidobacterium angulatum DSM
           20098]
          Length = 197

 Score = 89.4 bits (220), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 59/180 (32%), Positives = 96/180 (53%), Gaps = 4/180 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAARVEAITERTVRGVTREYLELSVLSADGLVINVPVDNAKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
            S  E+++   A + +  EIA    I E EA  L++VNL    +K   EK  ++  ++AA
Sbjct: 122 LSAGEKRMLTKARSILTSEIALSEKIEESEAQRLLDVNLGYSPAKPGDEKHHTQEPEEAA 181


>gi|225181295|ref|ZP_03734740.1| transcriptional regulator, CarD family [Dethiobacter alkaliphilus
           AHT 1]
 gi|225168075|gb|EEG76881.1| transcriptional regulator, CarD family [Dethiobacter alkaliphilus
           AHT 1]
          Length = 164

 Score = 89.4 bits (220), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 46/144 (31%), Positives = 79/144 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+E+ G +  ++++      M + +P+     IG+R++ 
Sbjct: 2   FNIGDKVVYPMHGAGVIEAIEEKEILGARKRYYIMNIPIGDMKVMIPMDNVDQIGLREVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           + H VE+ L ++R       T W+RR +    KI SGD+  +AEVVR+L   + +   S 
Sbjct: 62  DTHGVEQVLTILRDNHSKMSTNWNRRYRANMEKIKSGDIFQVAEVVRNLMLREREKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSIS 157
            ER++ +SA   +V E+    + S
Sbjct: 122 GERKMLDSAKQILVSELVLAQNTS 145


>gi|296131792|ref|YP_003639039.1| transcriptional regulator, CarD family [Thermincola sp. JR]
 gi|296030370|gb|ADG81138.1| transcriptional regulator, CarD family [Thermincola potens JR]
          Length = 158

 Score = 89.0 bits (219), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+EV G    ++V+      M + +P     D+G+R++ 
Sbjct: 2   FNIGDKVVYPMHGAGIIEAIEEKEVLGEVRSYYVMRLPIGDMKVMIPTSNVKDLGLRQVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   V+R L ++  K  V    W++R +    KI SG++  +AEVVR+L R D +   S 
Sbjct: 62  DEEGVQRVLNILSEKDTVMSANWNKRYRTNMEKIKSGNIFEVAEVVRNLMRRDQEKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
            ER++ E+A   ++ E+     + E
Sbjct: 122 GERKMLENARQILISELVLARGVKE 146


>gi|224368792|ref|YP_002602953.1| transcriptional regulator (CarD family protein) [Desulfobacterium
           autotrophicum HRM2]
 gi|223691508|gb|ACN14791.1| transcriptional regulator (CarD family protein) [Desulfobacterium
           autotrophicum HRM2]
          Length = 153

 Score = 89.0 bits (219), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 45/147 (30%), Positives = 84/147 (57%), Gaps = 1/147 (0%)

Query: 21  VYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVER 80
           VYPAHGVG I  I+ +E+ G  + F+++    + M + +P      +G+R++ +   V  
Sbjct: 3   VYPAHGVGCIESIESKEINGENMNFYMMKIVDNGMVIMIPTANVESVGLREVIKQKDVPE 62

Query: 81  ALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLY 139
             ++++ K   + +  W+RR +EY  KI +G +  IAEV RDL +   + + S+ ER+L 
Sbjct: 63  VYRIMQEKGPDLDKQTWNRRYREYMDKIKTGSIYDIAEVFRDLFQLKLEKDLSFGERKLL 122

Query: 140 ESALNRMVREIAAVNSISEPEAINLIE 166
           ++A N +V+E++   ++ E   +  IE
Sbjct: 123 DTAQNLLVQELSMAKNMDEAAMMTEIE 149


>gi|255325865|ref|ZP_05366957.1| transcriptional regulator, CarD family [Corynebacterium
           tuberculostearicum SK141]
 gi|311740175|ref|ZP_07714007.1| CarD family transcriptional regulator [Corynebacterium
           pseudogenitalium ATCC 33035]
 gi|255297077|gb|EET76402.1| transcriptional regulator, CarD family [Corynebacterium
           tuberculostearicum SK141]
 gi|311304730|gb|EFQ80801.1| CarD family transcriptional regulator [Corynebacterium
           pseudogenitalium ATCC 33035]
          Length = 194

 Score = 88.6 bits (218), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 85/153 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ GE +VYP HG   I +I+ +E+ G  LE+ V+  ++  + ++VP+  A ++G+R + 
Sbjct: 3   YKVGEVVVYPHHGAAVIEDIETREMGGETLEYLVLHINQSDLVVRVPIKNADNVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+   ++R +   +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GKEGLEKVFSVLRDEDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A    + E +A  ++E
Sbjct: 123 GEKRMLGKARTILVGELALAKPVDEKKADTMME 155


>gi|328952413|ref|YP_004369747.1| transcriptional regulator, CarD family [Desulfobacca acetoxidans
           DSM 11109]
 gi|328452737|gb|AEB08566.1| transcriptional regulator, CarD family [Desulfobacca acetoxidans
           DSM 11109]
          Length = 169

 Score = 88.6 bits (218), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 83/139 (59%), Gaps = 1/139 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+  VYPAHGVG I  I+++E++G    F+++    + M + +P   A ++G+R + 
Sbjct: 2   FQLGDLAVYPAHGVGVIESIEDKEISGNHQTFYIMRILDNNMIIMIPTHNASNVGLRGII 61

Query: 74  EAHFVERALKLVRGKAR-VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +   V    +++  K R V+   W+RR ++Y  KI +G L  +AEV+RDL       + S
Sbjct: 62  DGQAVTTIYEILAKKDRVVEHQTWNRRYRDYMEKIKTGSLFHVAEVLRDLTLLKLDKDLS 121

Query: 133 YSERQLYESALNRMVREIA 151
           + ER++ ++A N +V+E++
Sbjct: 122 FGERKMLDTAKNLLVKELS 140


>gi|148272243|ref|YP_001221804.1| putative transcription factor [Clavibacter michiganensis subsp.
           michiganensis NCPPB 382]
 gi|147830173|emb|CAN01106.1| putative transcription factor [Clavibacter michiganensis subsp.
           michiganensis NCPPB 382]
          Length = 164

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 79/148 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TIT +K + + G+  ++  +   + ++ + VPV  A  +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATITAVKTRTIKGVDKKYITLQIHQSELVIDVPVDNAELVGLRDVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           ++  VE    ++RG    +   WSRR +    K+ SGD+  ++EVVRDL R D     S 
Sbjct: 63  DSSGVEAVFDVLRGDVEEEAGNWSRRFKANTEKMGSGDVRRVSEVVRDLWRRDQDSGVSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     ++ EA
Sbjct: 123 GEKRMLSKARQILVSELALAQKSTDEEA 150


>gi|270284727|ref|ZP_05966557.2| transcriptional regulator [Bifidobacterium gallicum DSM 20093]
 gi|270276297|gb|EFA22151.1| transcriptional regulator [Bifidobacterium gallicum DSM 20093]
          Length = 198

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 86/160 (53%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +AH V +  +++R     K   WSRR +    K+ +GD+  IAEVVRDL + D     
Sbjct: 62  IVDAHEVAKVFEILRTPIIEKEMNWSRRYKLNVEKLATGDVNKIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            S  E+++   A + +  EIA    + E EA  L++VNL 
Sbjct: 122 LSAGEKRMLTKARSVLTSEIALSEKLEETEAQRLLDVNLG 161


>gi|149919688|ref|ZP_01908166.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
 gi|149819459|gb|EDM78889.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
          Length = 165

 Score = 88.2 bits (217), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 79/150 (52%), Gaps = 1/150 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q F  G   VYPAHGV  I  ++ + V G  L F+ +      + + VPV KA + GMR 
Sbjct: 5   QRFDIGSTAVYPAHGVADIIGVETKTVGGHDLSFYQLQVRGSGLKIIVPVNKANENGMRP 64

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L+    ++R  +++R     + R  W+RR + +  KI +G +  +AEV RDL    SQ  
Sbjct: 65  LAGPDAIDRTFQILRDHDVPIDRQTWNRRYRNFMDKIRAGAIEGVAEVYRDLALLRSQKT 124

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPE 160
            S+ ER++  +A + +V E+A     SE E
Sbjct: 125 LSHGEREMLRTARDLLVGELAVARETSESE 154


>gi|170781116|ref|YP_001709448.1| hypothetical protein CMS_0684 [Clavibacter michiganensis subsp.
           sepedonicus]
 gi|169155684|emb|CAQ00804.1| conserved hypothetical protein [Clavibacter michiganensis subsp.
           sepedonicus]
          Length = 164

 Score = 88.2 bits (217), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 79/148 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TIT +K + + G+  ++  +   + ++ + VPV  A  +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATITAVKTRTIKGVDKKYITLQIHQSELVIDVPVDNAELVGLRDVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           ++  VE    ++RG    +   WSRR +    K+ SGD+  ++EVVRDL R D     S 
Sbjct: 63  DSSGVEAVFDVLRGDVEEEAGNWSRRFKANTEKMGSGDVRRVSEVVRDLWRRDQDSGVSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     ++ EA
Sbjct: 123 GEKRMLAKARQILVSELALAQKSTDEEA 150


>gi|302390930|ref|YP_003826750.1| CarD family transcriptional regulator [Acetohalobium arabaticum DSM
           5501]
 gi|302203007|gb|ADL11685.1| transcriptional regulator, CarD family [Acetohalobium arabaticum
           DSM 5501]
          Length = 169

 Score = 87.8 bits (216), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 44/138 (31%), Positives = 81/138 (58%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F TG+ IVYP HG GTIT+I+++EV G   +++V+     +M + +P+    DIG+R++ 
Sbjct: 2   FETGDKIVYPNHGAGTITDIEKKEVLGETKKYYVMQLPIGEMRVMIPMDNVDDIGIREVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            +  V+   ++++G+       W+RR +    KI SGD+  +AEVVR+L   D +   S 
Sbjct: 62  SSDRVDDVFQILKGEKSEMSQNWNRRYRANTEKIKSGDIFEVAEVVRNLTLRDIEKGLST 121

Query: 134 SERQLYESALNRMVREIA 151
            E+++  ++   ++ E+ 
Sbjct: 122 GEKKMLSNSRQILISELV 139


>gi|332703818|ref|ZP_08423906.1| transcriptional regulator, CarD family [Desulfovibrio africanus
           str. Walvis Bay]
 gi|332553967|gb|EGJ51011.1| transcriptional regulator, CarD family [Desulfovibrio africanus
           str. Walvis Bay]
          Length = 194

 Score = 87.4 bits (215), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 81/148 (54%), Gaps = 3/148 (2%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           R+  R  F   + +VYPA GVG +  I+ QE+ G   EF+++    + + L VPV  A +
Sbjct: 19  REGTRPVFSPNDLVVYPAQGVGRVERIQRQEIGGASTEFYIVRILSNNVTLMVPVPNARN 78

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTM---WSRRAQEYDAKINSGDLIAIAEVVRDLH 123
           +G+R +  A   E  L+ ++ ++         W+RR +EY  K+ SG L  +A V+++L 
Sbjct: 79  VGLRPVCSATSGEAILESLKDRSDFTGYTGQNWNRRYREYSEKLKSGALEDVAYVLKELL 138

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIA 151
              +  E S+ ER+L E A+N +  E++
Sbjct: 139 LIGNDKELSFGERRLLEQAMNLITLELS 166


>gi|317152592|ref|YP_004120640.1| transcription factor carD [Desulfovibrio aespoeensis Aspo-2]
 gi|316942843|gb|ADU61894.1| transcription factor CarD [Desulfovibrio aespoeensis Aspo-2]
          Length = 171

 Score = 87.4 bits (215), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 47/150 (31%), Positives = 81/150 (54%), Gaps = 5/150 (3%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+  E +VYP+ GVG +  ++ QE+ G+K +F+++    + + L VPV  A ++G+R + 
Sbjct: 2   FKVNELVVYPSQGVGRVERVESQEIGGVKADFYIVRILSNNVTLMVPVANAKNVGLRSVC 61

Query: 74  EAHF---VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                  +  +LK   G        W+RR +EY  K+ SGDL  +A V+++L       E
Sbjct: 62  SLRVGQEIFESLKDRTGFTGYTGQNWNRRYREYSEKLKSGDLSDVAYVLKELFLIGRDKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPE 160
            S+ ER+L E A+  +  E+A   S+  P+
Sbjct: 122 LSFGERRLLEQAMGLVSMELAY--SVDRPQ 149


>gi|228924323|ref|ZP_04087573.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228835349|gb|EEM80740.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 158

 Score = 87.4 bits (215), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 81/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K ++FVI     KM + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISKMQVMIPTGKIVNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYRFLVSELELIKGITE 151


>gi|309812604|ref|ZP_07706349.1| CarD-like protein [Dermacoccus sp. Ellin185]
 gi|308433455|gb|EFP57342.1| CarD-like protein [Dermacoccus sp. Ellin185]
          Length = 160

 Score = 86.7 bits (213), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 82/148 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG  TI EIK +++ G   ++ V+   +  + ++VP      +G+R + 
Sbjct: 3   FKVGETVVYPHHGAATIEEIKVRKIKGEDKQYLVLNVAQGDLTIEVPAENCDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E+  +++R +   + T WSRR +    K+ SGD+I +AEVVRDL R D     S 
Sbjct: 63  DKAGLEKVFEVLRAEHTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     +E +A
Sbjct: 123 GEKRMLAKARQILVSELALAEHTNEDKA 150


>gi|225351869|ref|ZP_03742892.1| hypothetical protein BIFPSEUDO_03471 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225157116|gb|EEG70455.1| hypothetical protein BIFPSEUDO_03471 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 198

 Score = 86.7 bits (213), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 56/180 (31%), Positives = 97/180 (53%), Gaps = 4/180 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAAKVEAITERTVKGITREYLQLSVLSSDGLVINVPVDNAKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
            S  E+++   A + +  EI+    + E EA  L++VNL  + ++   E+  +E  ++AA
Sbjct: 122 LSAGEKRMLTKARSILTSEISLSEHLDEAEAQRLLDVNLGYEPAQPGDEEHHTEAPEEAA 181


>gi|313887993|ref|ZP_07821671.1| CarD-like protein [Peptoniphilus harei ACS-146-V-Sch2b]
 gi|312845948|gb|EFR33331.1| CarD-like protein [Peptoniphilus harei ACS-146-V-Sch2b]
          Length = 160

 Score = 86.7 bits (213), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/154 (34%), Positives = 84/154 (54%), Gaps = 1/154 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVYP HG G I  I+E+E+ G   +++++    + + + VPV  A +IG+R +S
Sbjct: 2   FNIGDKIVYPMHGAGEIVAIEEREILGDVHKYYIMRLPINDLKVMVPVKNAKEIGVRDIS 61

Query: 74  EAHFVERALKLVRGKARVKRTM-WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +A  +E+ LK +  +  V     W+RR +    KI SGDL+ IA+VVR L   D +   S
Sbjct: 62  DADTMEKVLKALSSEEEVSMPKNWNRRYRYNLDKIKSGDLMEIADVVRSLESLDREKSLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             ER++   A   +V E+  V   +  E   LI+
Sbjct: 122 TGERKILNEAKQIIVSEMVLVFEKNVEEVTKLID 155


>gi|258513613|ref|YP_003189835.1| transcriptional regulator, CarD family [Desulfotomaculum
           acetoxidans DSM 771]
 gi|257777318|gb|ACV61212.1| transcriptional regulator, CarD family [Desulfotomaculum
           acetoxidans DSM 771]
          Length = 158

 Score = 86.7 bits (213), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 85/153 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+E+EV G    ++++      M + +P+    D+G+R++ 
Sbjct: 2   FKIGDKVVYPMHGAGVIEAIEEKEVLGEIKHYYILRLPIGNMKVMIPIDHGRDVGLRQVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V+  L+++  K+      W+RR +    KI SG++  +AEVVR+L + D +   S 
Sbjct: 62  TRDDVQMVLRILSDKSTSMPPNWNRRYRANLEKIKSGNIYEVAEVVRNLIKRDKEKGLSS 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++ E+A   ++ E+     + E +A +L++
Sbjct: 122 GERKMLENARQILISELVLATELEEDKAQSLVD 154


>gi|158319511|ref|YP_001512018.1| CarD family transcriptional regulator [Alkaliphilus oremlandii
           OhILAs]
 gi|158139710|gb|ABW18022.1| transcriptional regulator, CarD family [Alkaliphilus oremlandii
           OhILAs]
          Length = 167

 Score = 86.7 bits (213), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 83/153 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG G I  I+E+E+ G + +++++      M + +P+ +  DIG+RK+ 
Sbjct: 2   FNIGEKVVYPIHGAGVIESIEEREILGERRKYYIMKMPIGDMQVMIPLDQIDDIGIRKVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L+++          W+RR +     I +GD+  +A+VVR+L   + +   S 
Sbjct: 62  DVEEIGSVLEILASDTTKMHQNWNRRYRANMDLIKTGDIYEVADVVRNLTLMEKEKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++  +A   ++ EI  V  ISE EA  L+E
Sbjct: 122 GERKMLNNARQILLSEIVLVAEISEEEASKLVE 154


>gi|167629441|ref|YP_001679940.1| transcriptional regulator, card family, putative [Heliobacterium
           modesticaldum Ice1]
 gi|167592181|gb|ABZ83929.1| transcriptional regulator, card family, putative [Heliobacterium
           modesticaldum Ice1]
          Length = 158

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 84/149 (56%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  ++E+EV G K  ++V+      M + VP G+  +IG+R++ 
Sbjct: 2   FAIGDKVVYPMHGAGVIEAVEEREVLGEKRLYYVLRLSLGDMRILVPSGQIAEIGLRQVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +A   ++ + +++ +  V    W RR +    K+ +GD+ A+AEVVR+L R + +   S 
Sbjct: 62  DAIEADQVMSVLQSRKSVMSNNWHRRYRANLDKMKTGDVYAVAEVVRNLIRRNQEKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAI 162
            ER++ E+A   +V E+      + PE I
Sbjct: 122 GERRMLENAKQILVSELVLAYD-TPPEQI 149


>gi|227502085|ref|ZP_03932134.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49725]
 gi|306836888|ref|ZP_07469843.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49726]
 gi|227077144|gb|EEI15107.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49725]
 gi|304567229|gb|EFM42839.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49726]
          Length = 194

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 85/153 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ GE +VYP HG   I +I+ +E+ G +LE+ V+  ++  + ++VP   A ++G+R + 
Sbjct: 3   YKVGEVVVYPHHGAAVIEDIETREMGGEELEYLVLHINQSDLVVRVPKKNADNVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+   ++R +   +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GKEGLEKVFSVLRDEDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A    + + +A  ++E
Sbjct: 123 GEKRMLGKARTILVGELALAQPVDDKKADTMME 155


>gi|218885594|ref|YP_002434915.1| CarD family transcriptional regulator [Desulfovibrio vulgaris str.
           'Miyazaki F']
 gi|218756548|gb|ACL07447.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris str.
           'Miyazaki F']
          Length = 171

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/143 (32%), Positives = 75/143 (52%), Gaps = 3/143 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG +  ++ Q V G+  +F+++    + + L VPV  A ++G+R L 
Sbjct: 2   FAQDQLVVYPAQGVGKVERVESQVVGGVATDFYIVRILGNNVTLMVPVRNAANVGLRSLC 61

Query: 74  EAHFVERALKLVR---GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                   L+ +R   G        W+RR +EY  K+ SGDL  +A V+R+L       E
Sbjct: 62  APELGAEILESLRDRSGFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLRELLLIGRDKE 121

Query: 131 KSYSERQLYESALNRMVREIAAV 153
            S+ ER+L E A+  +  E+A V
Sbjct: 122 LSFGERRLLEQAMGLITLELACV 144


>gi|85859811|ref|YP_462013.1| carD-like transcriptional regulator [Syntrophus aciditrophicus SB]
 gi|85722902|gb|ABC77845.1| carD-like transcriptional regulator [Syntrophus aciditrophicus SB]
          Length = 161

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 44/146 (30%), Positives = 84/146 (57%), Gaps = 1/146 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+  VYPA GVG I  I+ +EV G   +F+++    + M + +P G A  +G+R+L 
Sbjct: 2   FKVGDLAVYPAQGVGVIEAIESREVMGSTQKFYIMKIMSNGMKIMIPTGSAESVGLRELI 61

Query: 74  EAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               V +  ++++ K   + +  W++R +EY  KI +G +  IA V+RDL    +    S
Sbjct: 62  LEDDVPKVYEILKNKDITIDKQTWNKRYREYLEKIKTGSVFEIARVLRDLLILKNDKNLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISE 158
           + ER++ ++A + +++EI+  ++  E
Sbjct: 122 FGERKMMDTAKSLLIKEISIASNAEE 147


>gi|152977078|ref|YP_001376595.1| CarD family transcriptional regulator [Bacillus cereus subsp.
           cytotoxis NVH 391-98]
 gi|152025830|gb|ABS23600.1| transcriptional regulator, CarD family [Bacillus cytotoxicus NVH
           391-98]
          Length = 159

 Score = 85.9 bits (211), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 83/153 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+++EV G   ++ VI      M + +P+ K  D G+R + 
Sbjct: 2   FQIGDKIVYPMHGAGIIEAIEDKEVLGKTRQYCVIHMVISDMQVMIPMDKVQDSGIRYVV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +  AL  V   A  K   W +R      K+ SGD +  AEVVRDL   + +   + 
Sbjct: 62  DQTTLNHALVDVHNGAPDKSLSWKQRYTLNMEKMKSGDFVDGAEVVRDLLHRNKERTLNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   ++ E+A V ++SE +A + ++
Sbjct: 122 SEKQMLDNARRILISEVALVQNVSENQATDFLQ 154


>gi|229191260|ref|ZP_04318247.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|228592177|gb|EEK50009.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
          Length = 158

 Score = 85.9 bits (211), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 82/145 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI     KM + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISKMQVMIPTGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLVSELELIKGITE 151


>gi|224282833|ref|ZP_03646155.1| transcriptional regulator [Bifidobacterium bifidum NCIMB 41171]
 gi|310287288|ref|YP_003938546.1| transcriptional regulator, CarD family [Bifidobacterium bifidum
           S17]
 gi|311064136|ref|YP_003970861.1| transcriptional regulator CarD [Bifidobacterium bifidum PRL2010]
 gi|313139992|ref|ZP_07802185.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
           41171]
 gi|309251224|gb|ADO52972.1| transcriptional regulator, CarD family [Bifidobacterium bifidum
           S17]
 gi|310866455|gb|ADP35824.1| CarD transcriptional regulator [Bifidobacterium bifidum PRL2010]
 gi|313132502|gb|EFR50119.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
           41171]
          Length = 198

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 57/174 (32%), Positives = 90/174 (51%), Gaps = 4/174 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+K E+  +     D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAARVEAITERVVKGVKREYLQLTVLSSDGLVINVPVENAQKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A+ V +  +++R     K   WSRR +    K+ +GD+  IAEVVRDL + D     
Sbjct: 62  IVDANEVAKVFEILRTPIVEKEMNWSRRYKLNVEKLATGDVNKIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSE 182
            S  E+++   A + +  EIA    + E E   L++VNL     K   EK  SE
Sbjct: 122 LSAGEKRMLTRARSILTSEIALSEDLDEAEIQRLLDVNLGFSEPKPGDEKHHSE 175


>gi|171743211|ref|ZP_02919018.1| hypothetical protein BIFDEN_02339 [Bifidobacterium dentium ATCC
           27678]
 gi|283455808|ref|YP_003360372.1| CarD family transcriptional regulator [Bifidobacterium dentium Bd1]
 gi|306823056|ref|ZP_07456432.1| transcriptional regulator [Bifidobacterium dentium ATCC 27679]
 gi|309801155|ref|ZP_07695284.1| CarD-like protein [Bifidobacterium dentium JCVIHMP022]
 gi|171278825|gb|EDT46486.1| hypothetical protein BIFDEN_02339 [Bifidobacterium dentium ATCC
           27678]
 gi|283102442|gb|ADB09548.1| CarD family transcriptional regulator [Bifidobacterium dentium Bd1]
 gi|304553688|gb|EFM41599.1| transcriptional regulator [Bifidobacterium dentium ATCC 27679]
 gi|308222044|gb|EFO78327.1| CarD-like protein [Bifidobacterium dentium JCVIHMP022]
          Length = 198

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 52/160 (32%), Positives = 86/160 (53%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            S  E+++   A + +  EI+    + E EA  L++VNL 
Sbjct: 122 LSAGEKRMLTKARSILTSEISLSEHLEEGEAQRLLDVNLG 161


>gi|262197699|ref|YP_003268908.1| CarD family transcriptional regulator [Haliangium ochraceum DSM
           14365]
 gi|262081046|gb|ACY17015.1| transcriptional regulator, CarD family [Haliangium ochraceum DSM
           14365]
          Length = 162

 Score = 85.5 bits (210), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 79/146 (54%), Gaps = 1/146 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+  VYPA GV  +  I+ +E+      F+V+     +M + VP  KA  +G+R ++
Sbjct: 4   FSIGDKAVYPAQGVAEVVGIENKEINSTICSFYVLKVLDTEMQILVPKDKADQVGLRPVA 63

Query: 74  EAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               VE    ++R +   + +  W+RR + +  KI +G L  +AEV RDL+R  S    S
Sbjct: 64  SDEEVEEVFDILREQDIHIDKQTWNRRYRGFMEKIKTGSLFEVAEVFRDLYRLKSTKTLS 123

Query: 133 YSERQLYESALNRMVREIAAVNSISE 158
           + ER++ ++A N +V+E+A   +  E
Sbjct: 124 FGERRMLDTAKNLIVKELAVARNWDE 149


>gi|317481883|ref|ZP_07940910.1| CarD-like/TRCF domain-containing protein [Bifidobacterium sp.
           12_1_47BFAA]
 gi|316916674|gb|EFV38069.1| CarD-like/TRCF domain-containing protein [Bifidobacterium sp.
           12_1_47BFAA]
          Length = 197

 Score = 85.5 bits (210), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 58/180 (32%), Positives = 91/180 (50%), Gaps = 5/180 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R +
Sbjct: 3   YKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVRDI 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
             A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 63  VSASEVAKVFGILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS---SKSSKTEKSTSENQDKAA 188
           S  E+++   A   +  EIA    I E EA  L++VNL    ++    +  T+E +D AA
Sbjct: 123 SAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEDAAA 182


>gi|169830398|ref|YP_001716380.1| CarD family transcriptional regulator [Candidatus Desulforudis
           audaxviator MP104C]
 gi|169637242|gb|ACA58748.1| transcriptional regulator, CarD family [Candidatus Desulforudis
           audaxviator MP104C]
          Length = 158

 Score = 85.5 bits (210), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 85/153 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+E+E+ G + +++V+      M + VP     +IG+R++ 
Sbjct: 2   FKIGDKVVYPMHGAGVIEAIEEKEILGERQQYYVLRLPVGNMKVMVPTANGPNIGLRQVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++   +++  +      W+RR +    KI SG++  +AEVVR+L R + +   S 
Sbjct: 62  GQEEVQKVFGILKDVSTQMPGNWNRRYRANLEKIKSGNIYEVAEVVRNLARREREKGLSS 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++ ESA   ++ E+     + E +A +++E
Sbjct: 122 GEKRMLESARQILISELVLATEVEEDKARSMLE 154


>gi|229073467|ref|ZP_04206599.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228709655|gb|EEL61697.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
          Length = 158

 Score = 85.5 bits (210), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYRFLVSELELIKGITE 151


>gi|298530964|ref|ZP_07018365.1| transcriptional regulator, CarD family [Desulfonatronospira
           thiodismutans ASO3-1]
 gi|298508987|gb|EFI32892.1| transcriptional regulator, CarD family [Desulfonatronospira
           thiodismutans ASO3-1]
          Length = 177

 Score = 85.1 bits (209), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 49/156 (31%), Positives = 84/156 (53%), Gaps = 3/156 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYPA GVG + +I+EQ++ G K   +++    + + L VPV  A ++G+R +S
Sbjct: 2   FSVGELVVYPAQGVGRVEKIEEQDLGGAKAVLYIVRILSNNVTLMVPVNNADNVGLRPVS 61

Query: 74  EAHFVERALKLVRGKARV---KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                +  L  +  ++         W+RR +EY  K+ S DL  +A V+++L       E
Sbjct: 62  GKGQGQEILSFLEDRSDFTGYSGQNWNRRYREYSDKLKSKDLQDVAYVLKELFLISRDKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            S+ ER+L E A+  +  E++   SI + EA + +E
Sbjct: 122 LSFGERRLMEQAMGLISMELSYALSIDQEEAKSRVE 157


>gi|311896848|dbj|BAJ29256.1| putative CarD family transcriptional regulator [Kitasatospora setae
           KM-6054]
          Length = 160

 Score = 85.1 bits (209), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 87/158 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + L+VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVQQGDLTLRVPAENAEFVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   S 
Sbjct: 63  GQEGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAENTNEDKAETLLDEVLAS 160


>gi|297563240|ref|YP_003682214.1| CarD family transcriptional regulator [Nocardiopsis dassonvillei
           subsp. dassonvillei DSM 43111]
 gi|296847688|gb|ADH69708.1| transcriptional regulator, CarD family [Nocardiopsis dassonvillei
           subsp. dassonvillei DSM 43111]
          Length = 160

 Score = 85.1 bits (209), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 85/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G    + V+  DK  + ++VP   A D+G+R + 
Sbjct: 3   FKVGDTVVYPHHGAARIEAIETRNIKGEDRIYLVLRVDKGDLTVRVPAANAEDVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A     +E +A  L++  L++
Sbjct: 123 GEKRMLAKARQILVSELALAEKTNEDKAEALLDEVLTT 160


>gi|296268490|ref|YP_003651122.1| CarD family transcriptional regulator [Thermobispora bispora DSM
           43833]
 gi|296091277|gb|ADG87229.1| transcriptional regulator, CarD family [Thermobispora bispora DSM
           43833]
          Length = 163

 Score = 84.7 bits (208), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 50/158 (31%), Positives = 85/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I  + + G +  + V+  DK  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAARIEAITTRTINGQEKTYLVLKVDKGDLTVQVPAENAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +ER   ++R     + T WSRR +    K+ SGD+  +AEVVRDL+R D +   S 
Sbjct: 63  GQEGLERVFDVLRMPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLYRRDKERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAENTNEDKAEALLDEVLNS 160


>gi|332976449|gb|EGK13297.1| CarD family transcriptional regulator [Desmospora sp. 8437]
          Length = 162

 Score = 84.7 bits (208), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 42/157 (26%), Positives = 81/157 (51%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M + F+ G+ IVYP HG G I  ++E+E+ G K  +++I      + + +P  +  D+G+
Sbjct: 1   MGRLFQVGDKIVYPLHGAGVIDAVEEKEILGKKQRYYIIHMSLGNVQIMIPADRIDDMGL 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R + +   +E    L           W++R +    K+ +GD+    EV+RDL + + + 
Sbjct: 61  RHIVDPDTMENVFLLFNDDPSASSGSWNQRFRMNMDKMKTGDIFKTTEVIRDLAQINKEK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
                E++L ++A   ++ E+  V  I E +AI L++
Sbjct: 121 SLGTGEKKLLDNAKQILISELVLVKEIEEEQAIQLLD 157


>gi|297572193|ref|YP_003697967.1| CarD family transcripitonal regulator [Arcanobacterium haemolyticum
           DSM 20595]
 gi|296932540|gb|ADH93348.1| transcriptional regulator, CarD family [Arcanobacterium
           haemolyticum DSM 20595]
          Length = 181

 Score = 84.7 bits (208), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 53/175 (30%), Positives = 88/175 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I +I E+ + G K  +  +   +  M ++VP      +G+R +S
Sbjct: 3   FKVGETVVYPHHGAAYIEDISEKMMRGEKRLYLTLRIIQGDMVIQVPADSIEQVGLRDVS 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +ER   ++R +   + + WSRR +    K+ SGD+  +AEVVRDL R +S    S 
Sbjct: 63  NDEQLERVFAVLREENVEEPSNWSRRYKANGEKLTSGDVNKVAEVVRDLTRRNSDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKAA 188
            E+++   A   +  E+A    IS+ EA  L+   L   +   + S S    ++A
Sbjct: 123 GEKRMLAQARGILGSEVALGRGISDEEAAELLNEILGEFTPSPDSSESAGTPESA 177


>gi|162449975|ref|YP_001612342.1| putative transcription factor [Sorangium cellulosum 'So ce 56']
 gi|161160557|emb|CAN91862.1| putative transcription factor [Sorangium cellulosum 'So ce 56']
          Length = 168

 Score = 84.7 bits (208), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 47/155 (30%), Positives = 86/155 (55%), Gaps = 3/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F+ G+  VYPA GV  +  I+E+++AG +  F+V+   D D+  + VPV  A  +G+R++
Sbjct: 9   FKVGDKAVYPAQGVAEVVNIEEKDIAGNRQRFYVLRILDTDRKIM-VPVSNASAVGLRQV 67

Query: 73  SEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                +     ++R +        W+RR + +  KI +G +  +AEV+RDL+R  +  + 
Sbjct: 68  ISEQEIREIFDILRERTIAFDNQTWNRRYRGFMDKIKTGSIYDVAEVLRDLYRLKTDKQL 127

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           S+ ER++ ++A   +V+EIA     +E +    IE
Sbjct: 128 SFGERRMLDTARTLIVKEIAIARGQTEEQVKTEIE 162


>gi|315657561|ref|ZP_07910443.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
 gi|315492033|gb|EFU81642.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
          Length = 160

 Score = 84.7 bits (208), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 81/148 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG  TI EI  + + G++ E+  +   +  + +++P      +G+R + 
Sbjct: 3   FKVGETVVYPHHGAATIEEIITRVIGGVEREYLKLRVAQGDLTIQIPSENVEMVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E   +++R K   + + WSRR +    KI +GD++ +AEVVRDL R DS    S 
Sbjct: 63  DEAGLEHVFEVLRAKKTDEPSNWSRRYKANVEKIATGDVVKVAEVVRDLSRRDSNRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     +E +A
Sbjct: 123 GEKRMLSKARQILVSELALAEKTNEEDA 150


>gi|218898141|ref|YP_002446552.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|218543299|gb|ACK95693.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
          Length = 153

 Score = 84.7 bits (208), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 81/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R ++
Sbjct: 2   FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 62  DILALKHIIHIFQHEKSCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTLNT 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 122 SEKKLLDDAYKFLVSELELIKGITE 146


>gi|228943459|ref|ZP_04105903.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228976286|ref|ZP_04136757.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228783390|gb|EEM31498.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228816239|gb|EEM62420.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
          Length = 158

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 82/145 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI     KM + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISKMQVMIPKGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   ++ E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLISELELIKGITE 151


>gi|72163306|ref|YP_290963.1| CarD family transcriptional regulator [Thermobifida fusca YX]
 gi|71917038|gb|AAZ56940.1| transcriptional regulator, CarD family [Thermobifida fusca YX]
          Length = 160

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 83/153 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G +  + V+  DK  + ++VP   A ++G+R + 
Sbjct: 3   FKVGDTVVYPHHGAARIEAIETRTIKGEEKTYLVLKVDKGDLTVRVPADNAEEVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A     +E +A  L++
Sbjct: 123 GEKRMLAKARQILVSELALAEKTNEDKAEALLD 155


>gi|301167408|emb|CBW26990.1| putative transcriptional regulator [Bacteriovorax marinus SJ]
          Length = 176

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 45/143 (31%), Positives = 79/143 (55%), Gaps = 3/143 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G++ V P HGVG + +I+E+EV G KL F++I    + M + VP     + G+R+L 
Sbjct: 21  FNIGDYAVCPGHGVGQVCDIEEKEVGGDKLSFYIIKIIANGMTVMVPTNS--ENGIRELV 78

Query: 74  EAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               +    +L++     V  + W+RR +EY  KI +G L+ IA+V+R L    ++   S
Sbjct: 79  GNEEINEVYELLQDHDVEVDNSTWNRRYREYMTKIKTGSLLEIADVLRALFLLRAKKNLS 138

Query: 133 YSERQLYESALNRMVREIAAVNS 155
           + E+++ E   + + +EI+  N 
Sbjct: 139 FGEKKMLEQCRDLLAQEISLSNG 161


>gi|298345944|ref|YP_003718631.1| putative transcription factor CarD [Mobiluncus curtisii ATCC 43063]
 gi|304390353|ref|ZP_07372306.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|315654533|ref|ZP_07907439.1| CarD family transcriptional regulator [Mobiluncus curtisii ATCC
           51333]
 gi|298236005|gb|ADI67137.1| possible transcription factor CarD [Mobiluncus curtisii ATCC 43063]
 gi|304326109|gb|EFL93354.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|315490997|gb|EFU80616.1| CarD family transcriptional regulator [Mobiluncus curtisii ATCC
           51333]
          Length = 160

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 81/148 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG  TI EI  + + G++ E+  +   +  + +++P      +G+R + 
Sbjct: 3   FKVGETVVYPHHGAATIEEIITRVIGGVEREYLKLRVAQGDLTIQIPSENVEMVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E   +++R K   + + WSRR +    KI +GD++ +AEVVRDL R DS    S 
Sbjct: 63  DEAGLEHVFEVLRAKKTDEPSNWSRRYKANVEKIATGDVVKVAEVVRDLSRRDSNRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     +E +A
Sbjct: 123 GEKRMLTKARQILVSELALAEKTNEEDA 150


>gi|311114871|ref|YP_003986092.1| CarD family transcriptional regulator [Gardnerella vaginalis ATCC
           14019]
 gi|310946365|gb|ADP39069.1| CarD family transcriptional regulator [Gardnerella vaginalis ATCC
           14019]
          Length = 235

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 84/159 (52%), Gaps = 2/159 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   + EI E+ V G+  ++  ++    D + + VPV     +G+R 
Sbjct: 39  GYQVGDMVVYPRHGAARVEEISERTVKGITRQYLRLVVLSSDGLEINVPVDNVKKVGVRD 98

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 99  IVGAKEVAKVFEILRTPILEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDVDEHG 158

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
            S  E+++   A + ++ EIA    I E +A  L+ VNL
Sbjct: 159 LSAGEKRMLARARSILISEIALSEKIDEEQAERLLNVNL 197


>gi|228901595|ref|ZP_04065773.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228908832|ref|ZP_04072664.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228850842|gb|EEM95664.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228858007|gb|EEN02489.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score = 84.3 bits (207), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 81/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTLNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLVSELELIKGITE 151


>gi|75760996|ref|ZP_00741000.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74491513|gb|EAO54725.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 167

 Score = 84.3 bits (207), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 81/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R ++
Sbjct: 16  FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRPVT 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 76  DILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTLNT 135

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 136 SEKKLLDDAYKFLVSELELIKGITE 160


>gi|154487498|ref|ZP_02028905.1| hypothetical protein BIFADO_01353 [Bifidobacterium adolescentis
           L2-32]
 gi|154084016|gb|EDN83061.1| hypothetical protein BIFADO_01353 [Bifidobacterium adolescentis
           L2-32]
          Length = 198

 Score = 84.3 bits (207), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 53/165 (32%), Positives = 87/165 (52%), Gaps = 2/165 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVGAKEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
            S  E+++   A + +  EIA    + E EA  L++VNL  ++ +
Sbjct: 122 LSAGEKRMLTKARSILTSEIALSEHLDENEAQRLLDVNLGYEAPR 166


>gi|308235377|ref|ZP_07666114.1| CarD-like protein [Gardnerella vaginalis ATCC 14018]
          Length = 198

 Score = 84.3 bits (207), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 52/160 (32%), Positives = 84/160 (52%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   + EI E+ V G+  ++  ++    D + + VPV     +G+R 
Sbjct: 2   GYQVGDMVVYPRHGAARVEEISERTVKGITRQYLRLVVLSSDGLEINVPVDNVKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVGAKEVAKVFEILRTPILEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            S  E+++   A + ++ EIA    I E +A  L+ VNL 
Sbjct: 122 LSAGEKRMLARARSILISEIALSEKIDEEQAERLLNVNLG 161


>gi|89893187|ref|YP_516674.1| hypothetical protein DSY0441 [Desulfitobacterium hafniense Y51]
 gi|219666460|ref|YP_002456895.1| CarD family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|89332635|dbj|BAE82230.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219536720|gb|ACL18459.1| transcriptional regulator, CarD family [Desulfitobacterium
           hafniense DCB-2]
          Length = 158

 Score = 84.3 bits (207), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 42/137 (30%), Positives = 78/137 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+EV G   +++V+      M + +P+     +G+R + 
Sbjct: 2   FDIGDRVVYPMHGAGIIEAIEEREVLGESHQYYVMNIPVGNMKVYIPLKNVNQLGIRGVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            +  V + LK++  ++ +    W+RR +    +I SGD+ ++AEVVR L + D +   S 
Sbjct: 62  SSEEVPQVLKILENESTLPALAWNRRYRANMDRIKSGDIYSVAEVVRSLSQRDREKGLST 121

Query: 134 SERQLYESALNRMVREI 150
            E+++Y++A   +V E+
Sbjct: 122 GEKKMYDNAYQILVSEL 138


>gi|119025686|ref|YP_909531.1| transcriptional regulator [Bifidobacterium adolescentis ATCC 15703]
 gi|118765270|dbj|BAF39449.1| possible transcriptional regulator [Bifidobacterium adolescentis
           ATCC 15703]
          Length = 198

 Score = 84.3 bits (207), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 53/160 (33%), Positives = 84/160 (52%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVGAKEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            S  E+++   A + +  EIA    + E EA  L++VNL 
Sbjct: 122 LSAGEKRMLTKARSILTSEIALSEHLDENEAQRLLDVNLG 161


>gi|297243682|ref|ZP_06927613.1| CarD-like transcriptional regulator [Gardnerella vaginalis AMD]
 gi|296888433|gb|EFH27174.1| CarD-like transcriptional regulator [Gardnerella vaginalis AMD]
          Length = 208

 Score = 84.0 bits (206), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 53/161 (32%), Positives = 85/161 (52%), Gaps = 2/161 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   + EI E+ V G+  ++  ++    D + + VPV     +G+R +
Sbjct: 13  YQVGDMVVYPRHGAARVEEISERTVKGVTRQYLRLVVLSSDGLEINVPVDNVKKVGVRDI 72

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
             A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 73  VGAQEVAKVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEHGL 132

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A + ++ EIA    I E EA  L++VNL  K
Sbjct: 133 SAGEKRMLARARSILISEIALSEKIDEIEAERLLDVNLGYK 173


>gi|283783080|ref|YP_003373834.1| CarD-like protein [Gardnerella vaginalis 409-05]
 gi|283440982|gb|ADB13448.1| CarD-like protein [Gardnerella vaginalis 409-05]
          Length = 198

 Score = 84.0 bits (206), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 53/164 (32%), Positives = 86/164 (52%), Gaps = 2/164 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   + EI E+ V G+  ++  ++    D + + VPV     +G+R +
Sbjct: 3   YQVGDMVVYPRHGAARVEEISERTVKGVTRQYLRLVVLSSDGLEINVPVDNVKKVGVRDI 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
             A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 63  VGAQEVAKVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           S  E+++   A + ++ EIA    I E EA  L++VNL  K  +
Sbjct: 123 SAGEKRMLARARSILISEIALSEKIDEIEAERLLDVNLGYKEPQ 166


>gi|302331432|gb|ADL21626.1| Transcriptional regulator [Corynebacterium pseudotuberculosis 1002]
          Length = 193

 Score = 84.0 bits (206), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 82/152 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+++E+ G  LEF V+  ++  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAVIEAIEQREMNGETLEFLVLHINQSDLVVRVPSKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  DDEGLQKVFGFLREIDVEEAGNWSRRFKANQGRLASGDVNKVAEVVRDLWRRDQGRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E+++   A   +V E+A   +I E +A  L+
Sbjct: 123 GEKRMLAKARQVLVGELALAENIDENKADELL 154


>gi|298253496|ref|ZP_06977286.1| CarD-like transcriptional regulator [Gardnerella vaginalis 5-1]
 gi|297532263|gb|EFH71151.1| CarD-like transcriptional regulator [Gardnerella vaginalis 5-1]
          Length = 215

 Score = 84.0 bits (206), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 53/164 (32%), Positives = 86/164 (52%), Gaps = 2/164 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   + EI E+ V G+  ++  ++    D + + VPV     +G+R +
Sbjct: 20  YQVGDMVVYPRHGAARVEEISERTVKGVTRQYLRLVVLSSDGLEINVPVDNVKKVGVRDI 79

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
             A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 80  VGAQEVAKVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEHGL 139

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           S  E+++   A + ++ EIA    I E EA  L++VNL  K  +
Sbjct: 140 SAGEKRMLARARSILISEIALSEKIDEIEAERLLDVNLGYKEPQ 183


>gi|206973195|ref|ZP_03234117.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|229191421|ref|ZP_04318406.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|206732079|gb|EDZ49279.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|228592103|gb|EEK49937.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
          Length = 158

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R + 
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRPVI 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYRFLVSELELIKGITE 151


>gi|260892305|ref|YP_003238402.1| transcriptional regulator, CarD family [Ammonifex degensii KC4]
 gi|260864446|gb|ACX51552.1| transcriptional regulator, CarD family [Ammonifex degensii KC4]
          Length = 159

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/154 (33%), Positives = 88/154 (57%), Gaps = 1/154 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIGMRKL 72
           F+ G+ +VYP HG G I  I+E+E+ G K E++V+ F   + M + VP+    +IG+R++
Sbjct: 2   FKVGDKVVYPMHGAGIIEAIEEKEILGQKREYYVLRFPIGNNMKVMVPIDNCQEIGLRRV 61

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   V+  LKL+R         W+ R +    KI SG++ A+AEVVR+L R + +   S
Sbjct: 62  IDKSEVQNVLKLLRSSCTAMPANWNHRYRANLEKIKSGNIYAVAEVVRNLARRERERGLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             E+++ E+A   ++ E+     + E EA  L++
Sbjct: 122 SGEKRMLENAKQILISELVLAMEMKEEEARQLLD 155


>gi|227876780|ref|ZP_03994889.1| transcription factor CarD [Mobiluncus mulieris ATCC 35243]
 gi|269976308|ref|ZP_06183304.1| CarD family transcriptional regulator [Mobiluncus mulieris 28-1]
 gi|306817728|ref|ZP_07451470.1| CarD family transcriptional regulator [Mobiluncus mulieris ATCC
           35239]
 gi|307701599|ref|ZP_07638616.1| CarD-like protein [Mobiluncus mulieris FB024-16]
 gi|227842677|gb|EEJ52877.1| transcription factor CarD [Mobiluncus mulieris ATCC 35243]
 gi|269935637|gb|EEZ92175.1| CarD family transcriptional regulator [Mobiluncus mulieris 28-1]
 gi|304649542|gb|EFM46825.1| CarD family transcriptional regulator [Mobiluncus mulieris ATCC
           35239]
 gi|307613278|gb|EFN92530.1| CarD-like protein [Mobiluncus mulieris FB024-16]
          Length = 160

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 85/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EI  + + G++ E+  +   +  + +++P      +G+R + 
Sbjct: 3   FTVGETVVYPHHGAAVIEEITTRVIGGVEREYLKLRVAQADLTIQIPSENVEMVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E   +++R     + + WSRR +    KI +GD++ +AEVVRDL R DS+   S 
Sbjct: 63  DKEGLEHVFEVLRTTKTEEPSNWSRRYKANVEKIATGDVVKVAEVVRDLSRRDSKKGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A     +E +A N ++  L+S
Sbjct: 123 GEKRMLSKARQILVSELALAEKTNEEDASNRLDEVLAS 160


>gi|23465567|ref|NP_696170.1| transcriptional regulator [Bifidobacterium longum NCC2705]
 gi|23326233|gb|AAN24806.1| possible transcriptional regulator [Bifidobacterium longum NCC2705]
          Length = 197

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 57/180 (31%), Positives = 91/180 (50%), Gaps = 5/180 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R +
Sbjct: 3   YKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVRDI 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
             A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 63  VSASEVAKVFDILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS---SKSSKTEKSTSENQDKAA 188
           S  E+++   A   +  EIA    I E EA  L++VNL    ++    +  T+E ++ AA
Sbjct: 123 SAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEAAA 182


>gi|302544415|ref|ZP_07296757.1| CarD family transcriptional regulator [Streptomyces hygroscopicus
           ATCC 53653]
 gi|307326973|ref|ZP_07606163.1| transcriptional regulator, CarD family [Streptomyces violaceusniger
           Tu 4113]
 gi|302462033|gb|EFL25126.1| CarD family transcriptional regulator [Streptomyces himastatinicus
           ATCC 53653]
 gi|306887271|gb|EFN18267.1| transcriptional regulator, CarD family [Streptomyces violaceusniger
           Tu 4113]
          Length = 160

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 87/158 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   S 
Sbjct: 63  GQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   S +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAESTNEDKAEALLDEVLAS 160


>gi|227505965|ref|ZP_03936014.1| CarD family transcriptional regulator [Corynebacterium striatum
           ATCC 6940]
 gi|227197487|gb|EEI77535.1| CarD family transcriptional regulator [Corynebacterium striatum
           ATCC 6940]
          Length = 195

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 82/153 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I +I+ +E+ G  LE+ V+  ++  + ++VP      +G+R + 
Sbjct: 3   FKVGEVVVYPHHGAARIADIEHREMGGETLEYLVLQINQSDLVVRVPSKNVELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GKEGLEKVFSVLREIDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A  + + E +A  ++E
Sbjct: 123 GEKRMLAKARQILVGELALASPVDEKKADTMLE 155


>gi|46190223|ref|ZP_00121736.2| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Bifidobacterium longum DJO10A]
 gi|189439614|ref|YP_001954695.1| transcriptional_regulator [Bifidobacterium longum DJO10A]
 gi|213692627|ref|YP_002323213.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. infantis ATCC 15697]
 gi|227546164|ref|ZP_03976213.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           ATCC 55813]
 gi|312133013|ref|YP_004000352.1| transcriptional regulator [Bifidobacterium longum subsp. longum
           BBMN68]
 gi|322688825|ref|YP_004208559.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           157F]
 gi|322690813|ref|YP_004220383.1| transcriptional regulator [Bifidobacterium longum subsp. longum JCM
           1217]
 gi|189428049|gb|ACD98197.1| Transcriptional_regulator [Bifidobacterium longum DJO10A]
 gi|213524088|gb|ACJ52835.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. infantis ATCC 15697]
 gi|227213145|gb|EEI81017.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           ATCC 55813]
 gi|291517113|emb|CBK70729.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. longum F8]
 gi|311774000|gb|ADQ03488.1| transcriptional regulator [Bifidobacterium longum subsp. longum
           BBMN68]
 gi|320455669|dbj|BAJ66291.1| putative transcriptional regulator [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|320458778|dbj|BAJ69399.1| putative transcriptional regulator [Bifidobacterium longum subsp.
           infantis ATCC 15697]
 gi|320460161|dbj|BAJ70781.1| putative transcriptional regulator [Bifidobacterium longum subsp.
           infantis 157F]
          Length = 197

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 57/180 (31%), Positives = 91/180 (50%), Gaps = 5/180 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R +
Sbjct: 3   YKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVRDI 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
             A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 63  VSASEVAKVFGILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS---SKSSKTEKSTSENQDKAA 188
           S  E+++   A   +  EIA    I E EA  L++VNL    ++    +  T+E ++ AA
Sbjct: 123 SAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEAAA 182


>gi|51246583|ref|YP_066467.1| transcription factor [Desulfotalea psychrophila LSv54]
 gi|50877620|emb|CAG37460.1| related to transcription factor [Desulfotalea psychrophila LSv54]
          Length = 165

 Score = 83.2 bits (204), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 75/146 (51%), Gaps = 1/146 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL- 72
           F  G+  VYPAHGVG I  ++ Q VAG    F+V+    + M + +P   +  +G+R + 
Sbjct: 8   FVAGDMAVYPAHGVGVIKSVETQTVAGTDQSFYVMEIMGNNMTIMIPTASSEKVGLRAIV 67

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           SE    E    L      +    W+RR ++Y  KI +G +  +A V+RDL       + S
Sbjct: 68  SEEQVSEVVTILEDRDVELGSQTWNRRYRDYMEKIKTGSVHEVAAVLRDLFLLSVDKDLS 127

Query: 133 YSERQLYESALNRMVREIAAVNSISE 158
           Y ER++ ++A   +V+E++    I E
Sbjct: 128 YGERKMLDTAKGLLVKELSLAKKIEE 153


>gi|296453869|ref|YP_003661012.1| CarD family transcriptional regulator [Bifidobacterium longum
           subsp. longum JDM301]
 gi|296183300|gb|ADH00182.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. longum JDM301]
          Length = 197

 Score = 83.2 bits (204), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 57/180 (31%), Positives = 91/180 (50%), Gaps = 5/180 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R +
Sbjct: 3   YKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNARKVGVRDI 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
             A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 63  VSASEVAKVFGILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS---SKSSKTEKSTSENQDKAA 188
           S  E+++   A   +  EIA    I E EA  L++VNL    ++    +  T+E ++ AA
Sbjct: 123 SAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEAAA 182


>gi|50955384|ref|YP_062672.1| transcriptional regulator, CarD-like regulator [Leifsonia xyli
           subsp. xyli str. CTCB07]
 gi|50951866|gb|AAT89567.1| transcriptional regulator, CarD-like regulator [Leifsonia xyli
           subsp. xyli str. CTCB07]
          Length = 160

 Score = 83.2 bits (204), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 85/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TITE+K++ + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATITEVKKRTIKGEEKLYLKLNVTQGDLTIEVPADNVDLVGVRDVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I ++EVVRDL R D     S 
Sbjct: 63  GREGLDRVFEVLRAPFTEEPTNWSRRYKANLEKLASGDVIKVSEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   ++ E+A      + +A +L++  L+S
Sbjct: 123 GEKRMLAKARQILISELALAEKTDDEKASSLLDEVLAS 160


>gi|300859178|ref|YP_003784161.1| putative transcription factor [Corynebacterium pseudotuberculosis
           FRC41]
 gi|300686632|gb|ADK29554.1| putative transcription factor [Corynebacterium pseudotuberculosis
           FRC41]
 gi|302206868|gb|ADL11210.1| Transcriptional regulator [Corynebacterium pseudotuberculosis C231]
 gi|308277120|gb|ADO27019.1| Transcriptional regulator [Corynebacterium pseudotuberculosis I19]
          Length = 193

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 82/152 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+++E+ G  LEF V+  ++  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAVIEAIEQREMNGETLEFLVLHINQSDLVVRVPSKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  DDEGLQKVFGFLREIDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E+++   A   +V E+A   +I E +A  L+
Sbjct: 123 GEKRMLAKARQVLVGELALAENIDENKADELL 154


>gi|227834038|ref|YP_002835745.1| putative transcription factor [Corynebacterium aurimucosum ATCC
           700975]
 gi|262183476|ref|ZP_06042897.1| putative transcription factor [Corynebacterium aurimucosum ATCC
           700975]
 gi|227455054|gb|ACP33807.1| putative transcription factor [Corynebacterium aurimucosum ATCC
           700975]
          Length = 194

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 82/153 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   IT I+ +E+ G +LE+ V+  ++  + ++VP      +G+R + 
Sbjct: 3   FKVGEVVVYPHHGAAKITAIETREMGGEELEYLVLQINQSDLVVRVPSKNVEMVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GKEGLEKVFSVLREVDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E++    + E +A  ++E
Sbjct: 123 GEKRMLAKARQILVGELSLAKPVDEKKADTMME 155


>gi|228905766|ref|ZP_04069681.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228853883|gb|EEM98626.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R + 
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRPVI 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + +   +   K   W +R +    K+ +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFHHEESCKLLPWKQRHKVNTDKVKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYRFLVSELELIKGITE 151


>gi|300780458|ref|ZP_07090314.1| CarD family transcriptional regulator [Corynebacterium genitalium
           ATCC 33030]
 gi|300534568|gb|EFK55627.1| CarD family transcriptional regulator [Corynebacterium genitalium
           ATCC 33030]
          Length = 197

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I +I+++E+ G  L+F V+   +  + ++VPV  A  +G+R + 
Sbjct: 3   FKVGEVVVYPHHGAARIADIEQREMGGETLDFLVLNILQSDLSVRVPVKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  NEDGLRKVFSVLRETDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQGRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
            E+++   A   +V E+A    I E +A ++
Sbjct: 123 GEKRMLGKARQILVGELALAEPIDEAKADDM 153


>gi|256824253|ref|YP_003148213.1| CarD family transcriptional regulator [Kytococcus sedentarius DSM
           20547]
 gi|256687646|gb|ACV05448.1| transcriptional regulator, CarD family [Kytococcus sedentarius DSM
           20547]
          Length = 160

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 84/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I E+K+++V G ++ +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAALIEEVKQRKVKGKEMTYLKLKVAQGDLTIEVPAENCDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +A  +E+   ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R +     S 
Sbjct: 63  DAEGLEKVFGVLRAENCEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E  A   ++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEKTDEERAEATLDEVLAS 160


>gi|310826140|ref|YP_003958497.1| transcriptional regulator [Eubacterium limosum KIST612]
 gi|308737874|gb|ADO35534.1| transcriptional regulator [Eubacterium limosum KIST612]
          Length = 157

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/153 (28%), Positives = 85/153 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  G+ IVYP HG G + +I+E+E+      ++++    + M + +PV KA ++G+R + 
Sbjct: 2   YEIGDKIVYPMHGAGVVKDIEEKEIFDTTQMYYLMEIVSEGMEILIPVDKADEVGVRDIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            +  +E+ L  +   +      WS+R Q+    + SGD+  +A+VV++L   D +   S 
Sbjct: 62  TSDVIEKMLDSLEEPSDQMNGNWSKRYQDNMDILKSGDIFDVAKVVKNLTLLDRKKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++  SA N ++ E+  V   S+ E++ +IE
Sbjct: 122 GEKKMLTSARNFLISEMVLVQGRSKEESLQVIE 154


>gi|228966014|ref|ZP_04127081.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228793684|gb|EEM41220.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
          Length = 158

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/145 (29%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTLNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L +     +V E+  +  I+E
Sbjct: 127 SEKKLLDDVYKFLVSELELIKGITE 151


>gi|75758584|ref|ZP_00738703.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74493930|gb|EAO57027.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 167

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R + 
Sbjct: 16  FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRPVI 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + +   +   K   W +R +    K+ +G++   AEVVRDL R   +   + 
Sbjct: 76  DILALKHIIHIFHHEESCKLLPWKQRHKVNTDKVKTGEIQEGAEVVRDLMRMKKEKALNT 135

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 136 SEKKLLDDAYRFLVSELELIKGITE 160


>gi|158522831|ref|YP_001530701.1| CarD family transcriptional regulator [Desulfococcus oleovorans
           Hxd3]
 gi|158511657|gb|ABW68624.1| transcriptional regulator, CarD family [Desulfococcus oleovorans
           Hxd3]
          Length = 188

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/156 (28%), Positives = 80/156 (51%), Gaps = 3/156 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ +VYPAHGVG I  I+ + +   + +F+++   +  M + +P      +G+R + 
Sbjct: 20  YQPGDLVVYPAHGVGRIETIESRNIGDTRQDFYIMKILETNMVIMIPTQNLTAVGIRNVI 79

Query: 74  EAHFVERALKLVRGKARV---KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
               V +   ++R +          W+RR +EY  KI +G L  +AEV RDL       +
Sbjct: 80  CKKEVSKIYNIIRSQEECGAGDNQTWNRRYKEYMDKIKTGSLYEVAEVFRDLFLLKMTKD 139

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            S+ ER+L ++A   +V+E++      E   I+ IE
Sbjct: 140 LSFGERKLLDTAQGLLVKELSIAKGAEEKTVISEIE 175


>gi|319948870|ref|ZP_08022983.1| CarD family transcriptional regulator [Dietzia cinnamea P4]
 gi|319437472|gb|EFV92479.1| CarD family transcriptional regulator [Dietzia cinnamea P4]
          Length = 164

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/160 (31%), Positives = 85/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG  TI  I+ + V G + E+ V+   +  + +KVP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAATIQAIEMRTVRGTEKEYLVLKVSQGDLTVKVPAENAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++  +++R +   + T WSRR +    K+ SGD+  +AEVVRDL R D     S 
Sbjct: 63  DQAGLDKVFEVLRTEHAEEPTNWSRRYKANGEKLASGDVNKVAEVVRDLWRRDLDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A      E  A  L++  L S +
Sbjct: 123 GEKRMLAKARQVLVGELALAERSDEERADALLDEVLGSAA 162


>gi|311741767|ref|ZP_07715578.1| CarD family transcriptional regulator [Aeromicrobium marinum DSM
           15272]
 gi|311314773|gb|EFQ84679.1| CarD family transcriptional regulator [Aeromicrobium marinum DSM
           15272]
          Length = 161

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 85/150 (56%), Gaps = 1/150 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRK 71
            F  GE +VYP HG   I +I+ +++ G + ++ V+    ++ + ++VP      +G+R 
Sbjct: 2   AFTVGETVVYPNHGAAVIEDIETRKIKGEERDYLVLRIIAQNDLVVRVPACNLDLVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A  +ER   ++R +   + T WSRR +    K++SGD++ +AEVVRDL R D +   
Sbjct: 62  VVDADGLERVFSVLRAEHVEEPTNWSRRYKANLEKLHSGDVLKVAEVVRDLWRRDHERGL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
           S  E+++   A   +V E+A   + +E +A
Sbjct: 122 SAGEKRMLAKARQILVSELALAENTNEDKA 151


>gi|302379533|ref|ZP_07268018.1| CarD-like protein [Finegoldia magna ACS-171-V-Col3]
 gi|302312440|gb|EFK94436.1| CarD-like protein [Finegoldia magna ACS-171-V-Col3]
          Length = 160

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 83/148 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G ITE++ +EV G+K ++F++     +M + +PV K  D+G+R ++
Sbjct: 2   FKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYFILKMPMGEMKISIPVDKINDMGIRFVA 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           E   +     +++ +     + W++R +E   K+  GD+   A V + L+  DS    S 
Sbjct: 62  EEEIIHSLRDILKNQEVDFPSNWNQRYKENLEKLRIGDIKETAVVYKGLYELDSSKGLSM 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++  ++   ++ EIA+  ++   EA
Sbjct: 122 IEKKVLNTSRKMLISEIASGLNLKPSEA 149


>gi|271962514|ref|YP_003336710.1| carD family transcriptional regulator [Streptosporangium roseum DSM
           43021]
 gi|270505689|gb|ACZ83967.1| CarD family transcriptional regulator [Streptosporangium roseum DSM
           43021]
          Length = 160

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/158 (31%), Positives = 83/158 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I  + + G +  + V+  DK  + ++VP   A  +G+R + 
Sbjct: 3   FQVGDTVVYPHHGAARIEAITTRTIKGEERTYLVLKVDKGDLTVQVPADNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +ER   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLERVFDVLRMPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEKTNEDKAEALLDEVLNS 160


>gi|333026128|ref|ZP_08454192.1| putative transcriptional factor regulator [Streptomyces sp. Tu6071]
 gi|332745980|gb|EGJ76421.1| putative transcriptional factor regulator [Streptomyces sp. Tu6071]
          Length = 160

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 87/158 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIDAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   S 
Sbjct: 63  GQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|320009411|gb|ADW04261.1| transcriptional regulator, CarD family [Streptomyces flavogriseus
           ATCC 33331]
          Length = 160

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 87/158 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   S 
Sbjct: 63  GQEGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|302390636|ref|YP_003826457.1| transcriptional regulator, CarD family [Thermosediminibacter oceani
           DSM 16646]
 gi|302201264|gb|ADL08834.1| transcriptional regulator, CarD family [Thermosediminibacter oceani
           DSM 16646]
          Length = 158

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 87/153 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+E+ G K +++V+      M + +P+    +IG+R++ 
Sbjct: 2   FNIGDKVVYPMHGAGIIEAIEEKEILGEKQKYYVMRMPFGNMRVMIPINSVKEIGVRQIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++ LK++RG+       W+ R +    KI SG++  +AEVVR+L   + +   S 
Sbjct: 62  SDEEIDQVLKILRGEKSKMPANWNHRYRANMEKIKSGNIFQVAEVVRNLGLREKEKGLSA 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER+++E+A   +V EIA   +I E  A  +IE
Sbjct: 122 GERRMFENAKQILVSEIALSKNIDEKSAHEMIE 154


>gi|326203337|ref|ZP_08193202.1| transcriptional regulator, CarD family [Clostridium papyrosolvens
           DSM 2782]
 gi|325986595|gb|EGD47426.1| transcriptional regulator, CarD family [Clostridium papyrosolvens
           DSM 2782]
          Length = 159

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 80/151 (52%), Gaps = 6/151 (3%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR--- 70
           +  G+ IVYP HG G I  I+E+E+ G K  ++V+      + + +P     DIG+R   
Sbjct: 2   YNVGDKIVYPMHGAGVIESIEEKEILGKKCSYYVMKIPIGDLKVMIPTNNITDIGIRGVI 61

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +SEA  V   LK   G+  +    W++R +E   KI SGD+  +A+VVR L + + +  
Sbjct: 62  SVSEADNVFNFLK--DGQHEIPSN-WNKRYRENMVKIKSGDIFEVADVVRSLMQREKEKG 118

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEA 161
            S  ER++  SA   ++ E+  V  I++ E 
Sbjct: 119 LSTGERKMLSSAKQILISELVLVKGINQHEV 149


>gi|169824929|ref|YP_001692540.1| CarD family transcriptional regulator [Finegoldia magna ATCC 29328]
 gi|167831734|dbj|BAG08650.1| transcriptional regulator CarD family [Finegoldia magna ATCC 29328]
          Length = 160

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 83/148 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G ITE++ +EV G+K ++F++     +M + +PV K  D+G+R ++
Sbjct: 2   FKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYFILKMPMGEMKISIPVDKINDMGIRFVA 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           E   +     +++ +     + W++R +E   K+  GD+   A V + L+  DS    S 
Sbjct: 62  EEEIIHSLRDILKNQEVDFPSNWNQRYKENLEKLRIGDIKETAIVYKGLYELDSSKGLSM 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++  ++   ++ EIA+  ++   EA
Sbjct: 122 IEKKVLNTSRKMLISEIASGLNLKPSEA 149


>gi|89096669|ref|ZP_01169561.1| transcriptional regulator, CarD family protein [Bacillus sp. NRRL
           B-14911]
 gi|89088684|gb|EAR67793.1| transcriptional regulator, CarD family protein [Bacillus sp. NRRL
           B-14911]
          Length = 160

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 83/153 (54%), Gaps = 4/153 (2%)

Query: 10  MRQG----FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           MR G    F+  +++VYP HGVG I  I+E+EV G K +++VI      M + +P GK +
Sbjct: 1   MRYGGDYLFQIDDNVVYPMHGVGIIKAIEEKEVLGEKQQYYVIKMLVGNMEVMIPAGKIV 60

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
           + G+R +++   +++ + + +     +   W +R +    KI +G +    EVVRDL R 
Sbjct: 61  NSGIRPVTDIIALKQLMNIFQNGETDRLLPWKQRFKVNTDKIKTGKIQECTEVVRDLMRM 120

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISE 158
             +   + SERQ+  +A   ++ E+  +  I+E
Sbjct: 121 KKEKALNTSERQMLNNAHEILISELGLMKGITE 153


>gi|152964866|ref|YP_001360650.1| CarD family transcriptional regulator [Kineococcus radiotolerans
           SRS30216]
 gi|151359383|gb|ABS02386.1| transcriptional regulator, CarD family [Kineococcus radiotolerans
           SRS30216]
          Length = 160

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 83/158 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G    + V+   +  + ++VP      +G+R + 
Sbjct: 3   FTVGETVVYPHHGAALIEEIKTRTIKGEDKLYLVLKVAQGDLTIEVPADNVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R   ++R     + T WSRR +    K+ SGD++ +AEVVRDL R D     S 
Sbjct: 63  GREGLDRVFSVLRTPYAEEPTNWSRRYKANLEKLASGDVVKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A +L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAENTNEDKAESLLDEVLAS 160


>gi|21222627|ref|NP_628406.1| transcriptional factor regulator [Streptomyces coelicolor A3(2)]
 gi|29830513|ref|NP_825147.1| CarD-like transcriptional regulator [Streptomyces avermitilis
           MA-4680]
 gi|182437804|ref|YP_001825523.1| putative CarD-like transcriptional regulator [Streptomyces griseus
           subsp. griseus NBRC 13350]
 gi|239930480|ref|ZP_04687433.1| putative CarD-like transcriptional regulator [Streptomyces
           ghanaensis ATCC 14672]
 gi|239942338|ref|ZP_04694275.1| putative CarD-like transcriptional regulator [Streptomyces
           roseosporus NRRL 15998]
 gi|239988803|ref|ZP_04709467.1| putative CarD-like transcriptional regulator [Streptomyces
           roseosporus NRRL 11379]
 gi|254387144|ref|ZP_05002415.1| transcriptional factor regulator [Streptomyces sp. Mg1]
 gi|254388532|ref|ZP_05003766.1| transcriptional factor regulator [Streptomyces clavuligerus ATCC
           27064]
 gi|256786303|ref|ZP_05524734.1| putative CarD-like transcriptional regulator [Streptomyces lividans
           TK24]
 gi|282860513|ref|ZP_06269579.1| transcriptional regulator, CarD family [Streptomyces sp. ACTE]
 gi|289770194|ref|ZP_06529572.1| transcriptional factor regulator [Streptomyces lividans TK24]
 gi|290959414|ref|YP_003490596.1| transcriptional regulator [Streptomyces scabiei 87.22]
 gi|291438841|ref|ZP_06578231.1| transcriptional factor regulator [Streptomyces ghanaensis ATCC
           14672]
 gi|291445795|ref|ZP_06585185.1| transcriptional factor regulator [Streptomyces roseosporus NRRL
           15998]
 gi|294630053|ref|ZP_06708613.1| CarD family transcriptional regulator [Streptomyces sp. e14]
 gi|294814053|ref|ZP_06772696.1| Transcriptional regulator, CarD family [Streptomyces clavuligerus
           ATCC 27064]
 gi|295838029|ref|ZP_06824962.1| CarD family transcriptional regulator [Streptomyces sp. SPB74]
 gi|297193588|ref|ZP_06910986.1| transcriptional regulator [Streptomyces pristinaespiralis ATCC
           25486]
 gi|297200594|ref|ZP_06917991.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
 gi|302520127|ref|ZP_07272469.1| transcriptional regulator [Streptomyces sp. SPB78]
 gi|302535866|ref|ZP_07288208.1| transcriptional regulator [Streptomyces sp. C]
 gi|302552344|ref|ZP_07304686.1| transcriptional regulator [Streptomyces viridochromogenes DSM
           40736]
 gi|302559957|ref|ZP_07312299.1| CarD family transcriptional regulator [Streptomyces griseoflavus
           Tu4000]
 gi|318058492|ref|ZP_07977215.1| transcriptional regulator [Streptomyces sp. SA3_actG]
 gi|318075598|ref|ZP_07982930.1| transcriptional regulator [Streptomyces sp. SA3_actF]
 gi|326442457|ref|ZP_08217191.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|326778439|ref|ZP_08237704.1| transcriptional regulator, CarD family [Streptomyces cf. griseus
           XylebKG-1]
 gi|329936179|ref|ZP_08285972.1| transcriptional regulator [Streptomyces griseoaurantiacus M045]
 gi|7242753|emb|CAB77326.1| putative transcriptional factor regulator [Streptomyces coelicolor
           A3(2)]
 gi|29607625|dbj|BAC71682.1| putative CarD-like transcriptional regulator [Streptomyces
           avermitilis MA-4680]
 gi|178466320|dbj|BAG20840.1| putative CarD-like transcriptional regulator [Streptomyces griseus
           subsp. griseus NBRC 13350]
 gi|194345960|gb|EDX26926.1| transcriptional factor regulator [Streptomyces sp. Mg1]
 gi|197699155|gb|EDY46088.1| CarD family transcriptional regulator [Streptomyces sp. SPB74]
 gi|197702253|gb|EDY48065.1| transcriptional factor regulator [Streptomyces clavuligerus ATCC
           27064]
 gi|197709720|gb|EDY53754.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
 gi|197718134|gb|EDY62042.1| transcriptional regulator [Streptomyces pristinaespiralis ATCC
           25486]
 gi|260648940|emb|CBG72054.1| putative transcriptional regulator [Streptomyces scabiei 87.22]
 gi|282564249|gb|EFB69785.1| transcriptional regulator, CarD family [Streptomyces sp. ACTE]
 gi|289700393|gb|EFD67822.1| transcriptional factor regulator [Streptomyces lividans TK24]
 gi|291341736|gb|EFE68692.1| transcriptional factor regulator [Streptomyces ghanaensis ATCC
           14672]
 gi|291348742|gb|EFE75646.1| transcriptional factor regulator [Streptomyces roseosporus NRRL
           15998]
 gi|292833386|gb|EFF91735.1| CarD family transcriptional regulator [Streptomyces sp. e14]
 gi|294326652|gb|EFG08295.1| Transcriptional regulator, CarD family [Streptomyces clavuligerus
           ATCC 27064]
 gi|297158399|gb|ADI08111.1| putative transcriptional regulator [Streptomyces bingchenggensis
           BCW-1]
 gi|302429022|gb|EFL00838.1| transcriptional regulator [Streptomyces sp. SPB78]
 gi|302444761|gb|EFL16577.1| transcriptional regulator [Streptomyces sp. C]
 gi|302469962|gb|EFL33055.1| transcriptional regulator [Streptomyces viridochromogenes DSM
           40736]
 gi|302477575|gb|EFL40668.1| CarD family transcriptional regulator [Streptomyces griseoflavus
           Tu4000]
 gi|315455531|emb|CBY85030.1| hypothetical protein [Streptomyces sp. ATCC 55098]
 gi|326658772|gb|EGE43618.1| transcriptional regulator, CarD family [Streptomyces cf. griseus
           XylebKG-1]
 gi|328884013|emb|CCA57252.1| CarD transcriptional regulator [Streptomyces venezuelae ATCC 10712]
 gi|329304289|gb|EGG48169.1| transcriptional regulator [Streptomyces griseoaurantiacus M045]
          Length = 160

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 87/158 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   S 
Sbjct: 63  GQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|188584806|ref|YP_001916351.1| transcriptional regulator, CarD family [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|179349493|gb|ACB83763.1| transcriptional regulator, CarD family [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 161

 Score = 82.0 bits (201), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 87/160 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  ++E+EV G K  ++++      M + +P  +   IG+R++ 
Sbjct: 2   FKKGDKVVYPMHGAGVIEGVEEREVLGKKHMYYIMKIPVGDMKVMIPKERVDAIGLREIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           + + V++ L +++ +       W++R +    KI SGD+  +AEV+R+L   D +   S 
Sbjct: 62  DKNSVKKVLAILKAEETNVNHNWNQRYRANLEKIRSGDIYQVAEVIRNLVFLDDEKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++ E+A   +V E+     I E +A  +I   L + S
Sbjct: 122 GEKKMLENAKQILVSELVLAKDIEEEQAHEIINDTLLTTS 161


>gi|296118942|ref|ZP_06837515.1| transcriptional regulator, CarD family [Corynebacterium
           ammoniagenes DSM 20306]
 gi|295968040|gb|EFG81292.1| transcriptional regulator, CarD family [Corynebacterium
           ammoniagenes DSM 20306]
          Length = 195

 Score = 82.0 bits (201), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ +E+ G  LE+ V+  ++  + ++VP      +G+R + 
Sbjct: 3   FKVGEVVVYPHHGAAKIEAIEHREMGGEMLEYLVLQINQSDLVVRVPSKNVEQVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GKEGLEKVFSVLRETDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A    + E +A  +++
Sbjct: 123 GEKRMLAKARQILVGELALAQPVDEKKADTMMD 155


>gi|239981206|ref|ZP_04703730.1| putative CarD-like transcriptional regulator [Streptomyces albus
           J1074]
 gi|291453071|ref|ZP_06592461.1| transcriptional factor regulator [Streptomyces albus J1074]
 gi|291356020|gb|EFE82922.1| transcriptional factor regulator [Streptomyces albus J1074]
          Length = 160

 Score = 82.0 bits (201), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 87/158 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRQIKGVDKNYLVLKVAQGDLTVRVPADNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   S 
Sbjct: 63  GQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIRVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|269124964|ref|YP_003298334.1| CarD family transcriptional regulator [Thermomonospora curvata DSM
           43183]
 gi|268309922|gb|ACY96296.1| transcriptional regulator, CarD family [Thermomonospora curvata DSM
           43183]
          Length = 160

 Score = 82.0 bits (201), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 81/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   I  I+ + + G    + V+  DK  + ++VPV    ++G+R + 
Sbjct: 3   FTVGDTVVYPHHGAARIEAIETRTIKGEDKTYLVLKVDKGDLTVRVPVENVEEVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLEKVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A     +E +A  L++
Sbjct: 123 GEKRMLAKARQILVSELALAEKTNEDKAEALLD 155


>gi|320095399|ref|ZP_08027078.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           178 str. F0338]
 gi|319977670|gb|EFW09334.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           178 str. F0338]
          Length = 171

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 77/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG  TI EI  + + G +  +  +  ++  + ++VP      +G+R + 
Sbjct: 3   FEIGQTVVYPHHGAATIEEITTRSIRGAEKTYLKLRVNQGDLTIEVPADNVDLVGVRDIV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E  L ++R     + T WSRR +    KI +GD++ +AEVVRDL R D   + S 
Sbjct: 63  DEDGLEEVLSVLRAPYVEEPTNWSRRFKANQEKIATGDIVKVAEVVRDLTRRDDLKKLST 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +  E+A    I + +A
Sbjct: 123 GEKRMLTKARGILTSELALARGIDKADA 150


>gi|220930938|ref|YP_002507846.1| transcriptional regulator, CarD family [Halothermothrix orenii H
           168]
 gi|219992248|gb|ACL68851.1| transcriptional regulator, CarD family [Halothermothrix orenii H
           168]
          Length = 176

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 42/153 (27%), Positives = 81/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG GTI  I+ + + G + +++++      M + +PV K  +IG+R + 
Sbjct: 12  FKVGDKVVYPNHGAGTIVGIETKNILGEEKKYYIMKLPIGDMKVMIPVEKVEEIGVRNII 71

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +    +  LKL++G        W+RR +    K+ +GD+  + EVVR+L   D +   S 
Sbjct: 72  DEEEADNVLKLLKGDKSKMSQNWNRRYRANMEKLKTGDIYEVGEVVRNLTIRDHEKGLST 131

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++  +A   ++ E+     + E E   +I+
Sbjct: 132 GEKKMLSNARQILISELVLAKDMDEKEVEEIID 164


>gi|25029078|ref|NP_739132.1| putative transcription factor [Corynebacterium efficiens YS-314]
 gi|23494365|dbj|BAC19332.1| putative transcription factor [Corynebacterium efficiens YS-314]
          Length = 200

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 82/152 (53%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G+ +VYP HG   IT ++++E+ G  +++ V+  ++  + ++VP   A  +G+
Sbjct: 1   MGMDFKVGDTVVYPHHGAAMITALEQRELNGETMDYLVLKINQSDLVVRVPAKNAELVGV 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R +     +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D   
Sbjct: 61  RDVVGEEGLQKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDR 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEA 161
             S  E+++   A   +V E+A   ++ E +A
Sbjct: 121 GLSAGEKRMLAKARQVLVGELALAETVDEAKA 152


>gi|294786789|ref|ZP_06752043.1| transcriptional regulator, CarD family [Parascardovia denticolens
           F0305]
 gi|294485622|gb|EFG33256.1| transcriptional regulator, CarD family [Parascardovia denticolens
           F0305]
          Length = 230

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 55/179 (30%), Positives = 94/179 (52%), Gaps = 4/179 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGM-KLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   I EI E+ + G+ ++   +     D + + VP      +G+R++
Sbjct: 3   YKVGDTVVYPRHGAARIEEITERTLRGVTRIYLRLTVLSSDGLEISVPADAVDKVGVREV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL-HRTDSQPEK 131
                V +  +++R     ++T WSRR +    KI +GD+  IAEVVRDL  R D +   
Sbjct: 63  VNGVAVAKVFEILRTPIVEEKTNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDDDEHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
           S  E+++   A N +  EIA    I + EA  L++VNL  +  +   EK  ++  ++AA
Sbjct: 123 SAGEKRMLSKARNILTSEIALSEKIDDEEAQRLLDVNLGYQDPEPGDEKHHAQAPEEAA 181


>gi|315226414|ref|ZP_07868202.1| CarD family transcriptional regulator [Parascardovia denticolens
           DSM 10105]
 gi|315120546|gb|EFT83678.1| CarD family transcriptional regulator [Parascardovia denticolens
           DSM 10105]
          Length = 260

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 57/188 (30%), Positives = 98/188 (52%), Gaps = 9/188 (4%)

Query: 10  MRQG-----FRTGEHIVYPAHGVGTITEIKEQEVAGM-KLEFFVIAFDKDKMCLKVPVGK 63
           +R+G     ++ G+ +VYP HG   I EI E+ + G+ ++   +     D + + VP   
Sbjct: 24  LREGCLYMEYKVGDTVVYPRHGAARIEEITERTLRGVTRIYLRLTVLSSDGLEISVPADA 83

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL- 122
              +G+R++     V +  +++R     ++T WSRR +    KI +GD+  IAEVVRDL 
Sbjct: 84  VDKVGVREVVNGVAVAKVFEILRTPIVEEKTNWSRRYKLNVEKIATGDVNKIAEVVRDLS 143

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKST 180
            R D +   S  E+++   A N +  EIA    I + EA  L++VNL  +  +   EK  
Sbjct: 144 QRDDDEHGLSAGEKRMLSKARNILTSEIALSEKIDDEEAQRLLDVNLGYQDPEPGDEKHH 203

Query: 181 SENQDKAA 188
           ++  ++AA
Sbjct: 204 AQAPEEAA 211


>gi|329946263|ref|ZP_08293857.1| CarD-like protein [Actinomyces sp. oral taxon 170 str. F0386]
 gi|328527555|gb|EGF54550.1| CarD-like protein [Actinomyces sp. oral taxon 170 str. F0386]
          Length = 160

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 84/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R + 
Sbjct: 3   YEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVELIGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E+  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    S 
Sbjct: 63  DETGLEKVFEVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E EA + ++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAQKTPEDEAESRLDEVLAS 160


>gi|325066494|ref|ZP_08125167.1| CarD family transcriptional regulator [Actinomyces oris K20]
 gi|326772504|ref|ZP_08231788.1| transcriptional regulator, CarD family [Actinomyces viscosus C505]
 gi|326637136|gb|EGE38038.1| transcriptional regulator, CarD family [Actinomyces viscosus C505]
          Length = 160

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 84/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R + 
Sbjct: 3   YEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVELIGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E+  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    S 
Sbjct: 63  DETGLEKVFEVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E EA + ++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAQKTPEEEAESRLDEVLAS 160


>gi|163939058|ref|YP_001643942.1| CarD family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|163861255|gb|ABY42314.1| transcriptional regulator, CarD family [Bacillus weihenstephanensis
           KBAB4]
          Length = 153

 Score = 81.6 bits (200), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 82/145 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R ++
Sbjct: 2   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  +++ +     K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 62  DILALKHIIQIFQHGESDKLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 122 SEKKMLDNAHEFLISELGLIKGITE 146


>gi|108760592|ref|YP_633761.1| transcriptional regulator CarD [Myxococcus xanthus DK 1622]
 gi|1022328|emb|CAA91224.1| carD [Myxococcus xanthus]
 gi|108464472|gb|ABF89657.1| transcriptional regulator CarD [Myxococcus xanthus DK 1622]
          Length = 316

 Score = 81.6 bits (200), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 51/165 (30%), Positives = 86/165 (52%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +VYP  GV  ++ I  +EVAG KL F  +  ++D   + VP GK + IG+RK++ A 
Sbjct: 13  GDRVVYPNQGVCRVSAIDVKEVAGQKLTFVTMRREEDGAVVMVPEGKVLAIGVRKVASAE 72

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
            VE     +R  +      W +RA+    ++  G ++ +AEVV+ L            ER
Sbjct: 73  DVEAIFTFLRSDSDKADLDWKQRARTNLDRMTQGGIMGLAEVVKGLQVLSELRPLPTKER 132

Query: 137 QLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTS 181
           +LY++A + +V E+AA    +E  A + I++ L     +  K T+
Sbjct: 133 ELYDNARHLLVTEVAAALGTAEVNAEDAIDIVLFPPGRERPKRTA 177


>gi|229132055|ref|ZP_04260918.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|228651455|gb|EEL07427.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
          Length = 158

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 82/145 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  +++ +     K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIQIFQHGESDKLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIKGITE 151


>gi|269217464|ref|ZP_06161318.1| transcriptional regulator, CarD family [Actinomyces sp. oral taxon
           848 str. F0332]
 gi|269213085|gb|EEZ79425.1| transcriptional regulator, CarD family [Actinomyces sp. oral taxon
           848 str. F0332]
          Length = 163

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 84/153 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  GE +VYP HG   I ++  +++ G +  +  +   +  + ++VP     D+G+R +S
Sbjct: 3   YTIGETVVYPHHGAARIEDVFTRKIRGEEKTYLKLRVVQGDLEIQVPADMLEDVGVRDVS 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++   ++R +   + + WSRR +    K+ SGD+I +AEVVRDL R D+    S 
Sbjct: 63  DDEQLKQVFTVLRAEQIEEPSNWSRRYKANSEKLTSGDVIKVAEVVRDLTRRDADRHLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +  E+A    +SE EA+ L++
Sbjct: 123 GEKRMLSQARQILGSEVALARQVSEGEALELLD 155


>gi|283853058|ref|ZP_06370314.1| transcriptional regulator, CarD family [Desulfovibrio sp. FW1012B]
 gi|283571525|gb|EFC19529.1| transcriptional regulator, CarD family [Desulfovibrio sp. FW1012B]
          Length = 170

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 44/141 (31%), Positives = 76/141 (53%), Gaps = 3/141 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG +  I+ Q + G   +FF++    + + L VPV  A ++G+R L 
Sbjct: 2   FSEEQLVVYPAQGVGRVERIETQVIGGASADFFIVRILSNNVTLMVPVKNAANVGLRPLC 61

Query: 74  EAHFVERALKLVRGKARVKRTM---WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            A   +  ++ ++ ++         W+RR +EY  K+ SGDL  +A V+++L       E
Sbjct: 62  TAEEGQAIIETLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLGDVAYVLKELLLIGQNKE 121

Query: 131 KSYSERQLYESALNRMVREIA 151
            S+ ER+L E A + +  E+A
Sbjct: 122 LSFGERRLLEQATSLLTLELA 142


>gi|297568584|ref|YP_003689928.1| transcriptional regulator, CarD family [Desulfurivibrio
           alkaliphilus AHT2]
 gi|296924499|gb|ADH85309.1| transcriptional regulator, CarD family [Desulfurivibrio
           alkaliphilus AHT2]
          Length = 165

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/154 (30%), Positives = 83/154 (53%), Gaps = 1/154 (0%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A  + FR G+  VYPAHGVG I  I+ ++V  ++  F+V+ F +  M + +P      +G
Sbjct: 3   ATLEMFRVGDMAVYPAHGVGKIESIESRKVGELEQSFYVMRFIESNMTVMIPTTTCDTVG 62

Query: 69  MRKLSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           +R +  A  V++   ++  +    +   W++R +EY  KI +G +  IA V+RDL     
Sbjct: 63  LRNIISADDVQQVFAILNQRDVETESQPWNQRYREYTNKIKTGSIFEIAAVLRDLLLLRG 122

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEA 161
             + S+ ER++ ++A   +V+EIA    I E + 
Sbjct: 123 DKDLSFGERKMVDTAKTLLVKEIALAKQIQEEQV 156


>gi|115372710|ref|ZP_01460016.1| hmga-type transcription factor [Stigmatella aurantiaca DW4/3-1]
 gi|115370191|gb|EAU69120.1| hmga-type transcription factor [Stigmatella aurantiaca DW4/3-1]
          Length = 361

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 55/176 (31%), Positives = 90/176 (51%), Gaps = 2/176 (1%)

Query: 7   RDAMRQGFR--TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           R  M +G +   G+ +VYP  GV  I+ I+ +EVAG KL F  +  ++D   + VP  K 
Sbjct: 33  RGDMPEGLQLSVGDRVVYPNQGVCLISAIEVKEVAGQKLTFVTMRREEDGAVVMVPQAKV 92

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             IG+RK++    VE+    +R  +      W +RA+    ++  G ++ +AEVV+ L  
Sbjct: 93  QAIGVRKVAGPAEVEQIYAFLRSDSDKADLDWKQRARTNLDRMTQGGILGLAEVVKGLQV 152

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
                     ER+LY++A + +V E+AA  SI E  A + I++ L     +  K T
Sbjct: 153 LSELRPLPTKERELYDNARHLLVTEVAAALSIPEVNAEDSIDIVLFPPGKERPKRT 208


>gi|332981599|ref|YP_004463040.1| CarD family transcriptional regulator [Mahella australiensis 50-1
           BON]
 gi|332699277|gb|AEE96218.1| transcriptional regulator, CarD family [Mahella australiensis 50-1
           BON]
          Length = 162

 Score = 81.3 bits (199), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 81/154 (52%), Gaps = 1/154 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            + G+ +VYP HG G +  I+E+E+ G+  +++++      + + +P+  A DIG+R + 
Sbjct: 2   LQIGDKVVYPMHGAGVVEAIEEKEILGVTQKYYILKLPVCDVKIMIPLSSADDIGIRHII 61

Query: 74  EAHFVERALK-LVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +    +R L  L +       T W+RR +    KI SGD+  +A+VVR L   + Q   S
Sbjct: 62  DEDESKRVLAALSQNNQDGDNTNWNRRYRINMDKIKSGDIYEVADVVRSLMIREKQKGLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             ER++  SA   +V E+A  NS    E   LIE
Sbjct: 122 AGERKMLNSAKQILVSELALANSTGTDEIERLIE 155


>gi|227547934|ref|ZP_03977983.1| CarD family transcriptional regulator [Corynebacterium
           lipophiloflavum DSM 44291]
 gi|227079945|gb|EEI17908.1| CarD family transcriptional regulator [Corynebacterium
           lipophiloflavum DSM 44291]
          Length = 204

 Score = 81.3 bits (199), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 79/148 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I +I+E+E+ G  L+F V+   +  + ++VPV  +  +G+R + 
Sbjct: 3   FKVGEVVVYPHHGAARIADIEEREMGGETLDFLVLKILQSDLEVRVPVKNSELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  NEAGLRKVFSVLRETDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQGKGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A    + E +A
Sbjct: 123 GEKRMLGKARQILVGELALATPVDEAKA 150


>gi|239916921|ref|YP_002956479.1| transcriptional regulator, CarD family [Micrococcus luteus NCTC
           2665]
 gi|289706880|ref|ZP_06503221.1| CarD-like transcriptional regulator [Micrococcus luteus SK58]
 gi|239838128|gb|ACS29925.1| transcriptional regulator, CarD family [Micrococcus luteus NCTC
           2665]
 gi|289556430|gb|EFD49780.1| CarD-like transcriptional regulator [Micrococcus luteus SK58]
          Length = 160

 Score = 81.3 bits (199), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 79/148 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAARIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +A  +E  ++++R +   + T WSRR +    K+ SGD+  +AEVVRDL R D     S 
Sbjct: 63  DAEGLEHVMEVLRAEHVEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A    ++E EA
Sbjct: 123 GEKRMLSKARQVLVSELALAKKVTEEEA 150


>gi|259505930|ref|ZP_05748832.1| transcription factor [Corynebacterium efficiens YS-314]
 gi|259166411|gb|EEW50965.1| transcription factor [Corynebacterium efficiens YS-314]
          Length = 198

 Score = 81.3 bits (199), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 81/148 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   IT ++++E+ G  +++ V+  ++  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAMITALEQRELNGETMDYLVLKINQSDLVVRVPAKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLQKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A   ++ E +A
Sbjct: 123 GEKRMLAKARQVLVGELALAETVDEAKA 150


>gi|291456490|ref|ZP_06595880.1| transcriptional regulator, CarD family [Bifidobacterium breve DSM
           20213]
 gi|291381767|gb|EFE89285.1| transcriptional regulator, CarD family [Bifidobacterium breve DSM
           20213]
          Length = 197

 Score = 81.3 bits (199), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 81/159 (50%), Gaps = 2/159 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R +
Sbjct: 3   YQVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVRDI 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK- 131
                V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D      
Sbjct: 63  VSGSEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +  EIA    I E EA  L++VNL 
Sbjct: 123 SAGEKRMLTKARAILTSEIALSEKIDETEAQRLLDVNLG 161


>gi|254234156|ref|ZP_04927480.1| hypothetical protein TBCG_03510 [Mycobacterium tuberculosis C]
 gi|124603824|gb|EAY61787.1| hypothetical protein TBCG_03510 [Mycobacterium tuberculosis C]
          Length = 174

 Score = 81.3 bits (199), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 46/173 (26%), Positives = 92/173 (53%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           + +  +R + +  F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP
Sbjct: 2   LAWSNERGSNQMIFKVGDTVVYPHHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVP 61

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
              A  +G+R +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVR
Sbjct: 62  AENAEYVGVRDVVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVR 121

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           DL R D +   S  E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 122 DLWRRDQERGLSAGEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 174


>gi|324327548|gb|ADY22808.1| transcriptional regulator, CarD family protein [Bacillus
           thuringiensis serovar finitimus YBT-020]
          Length = 158

 Score = 81.3 bits (199), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEIAGKKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|229162478|ref|ZP_04290439.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
 gi|228620957|gb|EEK77822.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
          Length = 158

 Score = 81.3 bits (199), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|42782726|ref|NP_979973.1| CarD family transcriptional regulator [Bacillus cereus ATCC 10987]
 gi|42738652|gb|AAS42581.1| transcriptional regulator, CarD family [Bacillus cereus ATCC 10987]
          Length = 158

 Score = 81.3 bits (199), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 43/147 (29%), Positives = 80/147 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E+AG K +++VI      M L +P G+ +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEIAGEKQQYYVIKMLGSNMELMIPAGRILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITAIAHILDVFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPE 160
           SE+++ ++A   ++ E+  +  I+E +
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITESQ 153


>gi|125975421|ref|YP_001039331.1| CarD family transcriptional regulator [Clostridium thermocellum
           ATCC 27405]
 gi|256005283|ref|ZP_05430249.1| transcriptional regulator, CarD family [Clostridium thermocellum
           DSM 2360]
 gi|281419382|ref|ZP_06250397.1| transcriptional regulator, CarD family [Clostridium thermocellum
           JW20]
 gi|125715646|gb|ABN54138.1| transcriptional regulator, CarD family [Clostridium thermocellum
           ATCC 27405]
 gi|255990719|gb|EEU00835.1| transcriptional regulator, CarD family [Clostridium thermocellum
           DSM 2360]
 gi|281407002|gb|EFB37265.1| transcriptional regulator, CarD family [Clostridium thermocellum
           JW20]
 gi|316939546|gb|ADU73580.1| transcriptional regulator, CarD family [Clostridium thermocellum
           DSM 1313]
          Length = 158

 Score = 81.3 bits (199), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 43/153 (28%), Positives = 82/153 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  G+ IVYP HG G I  I+E+E+ G K  ++V+     +M + +P+     IG+R++ 
Sbjct: 2   YNIGDKIVYPMHGAGVIESIEEREILGKKQSYYVVKIPIGEMKVLIPIKNVDGIGIREVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                ++   +++ KA    T W++R +E  +KI SG++  +A+VVR L   D     S 
Sbjct: 62  SEEDADKVFLILKNKALPSNTNWNKRYRENMSKIKSGNIFEVADVVRCLMLRDKLKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++  SA   ++ E+    +++  E   +I+
Sbjct: 122 GEKKMLNSAKQILISELVLAKNMNPMEIEGMID 154


>gi|323359180|ref|YP_004225576.1| CarD family transcriptional regulator [Microbacterium testaceum
           StLB037]
 gi|323275551|dbj|BAJ75696.1| transcriptional regulator, similar to M. xanthus CarD
           [Microbacterium testaceum StLB037]
          Length = 160

 Score = 80.9 bits (198), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 81/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TI E+KE+ + G   ++  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATIIEVKERVIKGETKKYLKLNVTQGDLVIEVPADNVDLVGVRDVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R   ++R     + T WSRR +    K+ SGD+I ++EVVRDL R D     S 
Sbjct: 63  GKEGLDRVFDVLRAPFTEEPTNWSRRYKANLEKLASGDVIKVSEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E  A  +++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEKTDEDRASVVLDEVLAS 160


>gi|108801703|ref|YP_641900.1| CarD family transcriptional regulator [Mycobacterium sp. MCS]
 gi|119870854|ref|YP_940806.1| CarD family transcriptional regulator [Mycobacterium sp. KMS]
 gi|126437690|ref|YP_001073381.1| CarD family transcriptional regulator [Mycobacterium sp. JLS]
 gi|108772122|gb|ABG10844.1| transcriptional regulator, CarD family [Mycobacterium sp. MCS]
 gi|119696943|gb|ABL94016.1| transcriptional regulator, CarD family [Mycobacterium sp. KMS]
 gi|126237490|gb|ABO00891.1| transcriptional regulator, CarD family [Mycobacterium sp. JLS]
          Length = 162

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 87/160 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   ++ + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAENVEDEKATIILDEALAAAS 162


>gi|84498455|ref|ZP_00997225.1| transcriptional regulator, CarD-like regulator [Janibacter sp.
           HTCC2649]
 gi|84381198|gb|EAP97082.1| transcriptional regulator, CarD-like regulator [Janibacter sp.
           HTCC2649]
          Length = 160

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 84/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I EI ++ + G++  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FKVGETVVYPHHGAARIEEINKRTIKGVERLYLKLKVAQGDLVIEVPAENCDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E+  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D     S 
Sbjct: 63  DKAGLEKVFEVLRAPFAEEPTNWSRRFKANLEKLASGDVIKVAEVVRDLWRRDKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 123 GEKRMLSKARQILVSELALAEKTDEEKAETILDEVLAS 160


>gi|229106940|ref|ZP_04237040.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|229118992|ref|ZP_04248336.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228664467|gb|EEL19964.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228676495|gb|EEL31241.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
          Length = 158

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 81/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIMHIFQHGESDKLLPWKQRYKVNTDKIKTGEIQDGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIKGITE 151


>gi|328950177|ref|YP_004367512.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
 gi|328450501|gb|AEB11402.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
          Length = 163

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 49/145 (33%), Positives = 78/145 (53%), Gaps = 3/145 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYPA G G I E+ E+EV G + +++V+    D   + VPVG   + G+R   
Sbjct: 2   FQVGDAVVYPAQGAGRIVEVVEREVMGSRKQYYVVQLLSDAARIMVPVGAVREAGLRPPL 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            A  +ER  + +     +  ++W  R +E    + SGD   +A +V  L+R D     + 
Sbjct: 62  AAAELERLWQALAEDLPLP-SVWMPRYREEQRLLASGDPFKLAALVGTLYRRDQAKPLAS 120

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SER+LYE AL  +  E+A   S+SE
Sbjct: 121 SERRLYEDALTALASEVAL--SLSE 143


>gi|120406288|ref|YP_956117.1| CarD family transcriptional regulator [Mycobacterium vanbaalenii
           PYR-1]
 gi|119959106|gb|ABM16111.1| transcriptional regulator, CarD family [Mycobacterium vanbaalenii
           PYR-1]
          Length = 162

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 86/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVSQGDLTVRVPADNAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   +  + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAENTDDAKASTILDEVLAAAS 162


>gi|313902845|ref|ZP_07836242.1| transcriptional regulator, CarD family [Thermaerobacter
           subterraneus DSM 13965]
 gi|313466965|gb|EFR62482.1| transcriptional regulator, CarD family [Thermaerobacter
           subterraneus DSM 13965]
          Length = 166

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 80/158 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+E+EV G +  ++++      M L +P   A   G+R + 
Sbjct: 2   FQVGDRVVYPMHGAGVIEAIEEREVLGERHRYYILRLPVGDMRLMIPTASAPQSGLRPVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            A  V   L+ +        + W+ R +E+  K+ SGD++ +A VVR+L         S 
Sbjct: 62  PADQVPAVLEALCEPVPPLDSNWNHRYREHADKLRSGDILEVAVVVRNLSARQKARGLSG 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            ER+L + A   +V E+A    +   EA  L+E +L +
Sbjct: 122 GERRLLDQARQILVSELALAGGMGRDEADALVERHLGA 159


>gi|258404969|ref|YP_003197711.1| transcriptional regulator, CarD family [Desulfohalobium retbaense
           DSM 5692]
 gi|257797196|gb|ACV68133.1| transcriptional regulator, CarD family [Desulfohalobium retbaense
           DSM 5692]
          Length = 174

 Score = 80.9 bits (198), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 45/141 (31%), Positives = 74/141 (52%), Gaps = 3/141 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG +  I+ QE+ G + +F+++    + + L VPV  A ++G+R + 
Sbjct: 2   FSEKQLVVYPAQGVGEVERIESQEIGGTRADFYIVRILSNNVTLMVPVANAENVGLRSVC 61

Query: 74  ---EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
              E   V   LK            W+RR +EY  K+ SG+L  ++ V+++L       E
Sbjct: 62  GADEGRLVLEGLKDRSDFMGYSGQNWNRRYREYSEKLKSGELDDVSYVLKELILIGRDKE 121

Query: 131 KSYSERQLYESALNRMVREIA 151
            S+ ER+L E A+  +  EIA
Sbjct: 122 LSFGERRLLEQAMTLITMEIA 142


>gi|227496787|ref|ZP_03927058.1| transcription factor CarD [Actinomyces urogenitalis DSM 15434]
 gi|226833703|gb|EEH66086.1| transcription factor CarD [Actinomyces urogenitalis DSM 15434]
          Length = 164

 Score = 80.9 bits (198), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 45/137 (32%), Positives = 74/137 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R + 
Sbjct: 3   FEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVDYIGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +A  +E+   ++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    S 
Sbjct: 63  DAAGLEKVFDVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGLSA 122

Query: 134 SERQLYESALNRMVREI 150
            E+++   A   +V E+
Sbjct: 123 GEKRMLSKARQILVSEL 139


>gi|212703168|ref|ZP_03311296.1| hypothetical protein DESPIG_01209 [Desulfovibrio piger ATCC 29098]
 gi|212673434|gb|EEB33917.1| hypothetical protein DESPIG_01209 [Desulfovibrio piger ATCC 29098]
          Length = 172

 Score = 80.5 bits (197), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 45/143 (31%), Positives = 75/143 (52%), Gaps = 3/143 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL- 72
           F + + +VYPA GVG I  I  Q + G   +F+++    + + L VPV  A ++G+R L 
Sbjct: 2   FTSEQLVVYPAQGVGQIERIDSQNIGGSACDFYIVRIRANSITLMVPVKNASNVGLRTLV 61

Query: 73  --SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
              EA  +  AL+    +       W+RR +EY  ++ S DL  +A V+R+L       +
Sbjct: 62  STKEAEHIWEALRNNPQQTVHTGQNWNRRFREYSERLKSPDLSIVANVLRELLLIGRTKD 121

Query: 131 KSYSERQLYESALNRMVREIAAV 153
            S+ ER+L E A++ +  E+  V
Sbjct: 122 LSFGERRLLEQAMSLVTGELGEV 144


>gi|51894260|ref|YP_076951.1| transcriptional regulator [Symbiobacterium thermophilum IAM 14863]
 gi|51857949|dbj|BAD42107.1| transcriptional regulator [Symbiobacterium thermophilum IAM 14863]
          Length = 159

 Score = 80.5 bits (197), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 82/153 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+++EV G +  ++V+      M + VP       G+R + 
Sbjct: 2   FQVGDKVVYPMHGAGIIEAIEDREVLGERKRYYVLRLPVADMQVLVPCDGPQSTGLRAVM 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                ++ L+++R +       W+ R +    KI SGD++A+AEVVR L + + +   S 
Sbjct: 62  SEQVFQQVLEVLRSRPTQAEKNWNHRYRMNMEKIRSGDVLALAEVVRTLSQREREKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++ +SA   ++ EI  +  +   +A +L++
Sbjct: 122 GERKMLDSARQILLSEIVLIRGLELEQASSLLD 154


>gi|300934651|ref|ZP_07149907.1| putative transcription factor [Corynebacterium resistens DSM 45100]
          Length = 199

 Score = 80.5 bits (197), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 43/153 (28%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+++E  G K+++ V+  ++  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAVIEGIEQREFKGEKVDYLVLRINQGDLSVRVPAANAEKVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLRKVFSVLRETDVEEAGNWSRRYKANQERLTSGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A    + + +   L+E
Sbjct: 123 GEKRMLAKARQILVGELALAEGVDDKKTDALLE 155


>gi|228922354|ref|ZP_04085661.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228837409|gb|EEM82743.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 158

 Score = 80.5 bits (197), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITE 151


>gi|310823503|ref|YP_003955861.1| transcriptional regulator CarD [Stigmatella aurantiaca DW4/3-1]
 gi|27651196|emb|CAD60088.1| HMGA-type transcription factor [Stigmatella aurantiaca DW4/3-1]
 gi|309396575|gb|ADO74034.1| Transcriptional regulator CarD [Stigmatella aurantiaca DW4/3-1]
          Length = 305

 Score = 80.5 bits (197), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 54/173 (31%), Positives = 89/173 (51%), Gaps = 2/173 (1%)

Query: 10  MRQGFR--TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           M +G +   G+ +VYP  GV  I+ I+ +EVAG KL F  +  ++D   + VP  K   I
Sbjct: 1   MPEGLQLSVGDRVVYPNQGVCLISAIEVKEVAGQKLTFVTMRREEDGAVVMVPQAKVQAI 60

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           G+RK++    VE+    +R  +      W +RA+    ++  G ++ +AEVV+ L     
Sbjct: 61  GVRKVAGPAEVEQIYAFLRSDSDKADLDWKQRARTNLDRMTQGGILGLAEVVKGLQVLSE 120

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
                  ER+LY++A + +V E+AA  SI E  A + I++ L     +  K T
Sbjct: 121 LRPLPTKERELYDNARHLLVTEVAAALSIPEVNAEDSIDIVLFPPGKERPKRT 173


>gi|258591297|emb|CBE67594.1| CarD-like transcriptional regulator [NC10 bacterium 'Dutch
           sediment']
          Length = 162

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 81/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +RTG  +VYP HGVG I  I+ +EV G    F+V+    + M + VP   A  +G+R++ 
Sbjct: 3   YRTGTKVVYPTHGVGWIEAIENKEVGGGPQAFYVVRIIGNGMTILVPTKNAKRVGLREVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           EA  + + L +++       + W+RR ++   +I +G L  +A V+R L     +   S+
Sbjct: 63  EASEIPKILAILKKNDLEISSNWNRRFKDNLERIRTGSLFEVALVLRKLVLLQKERSLSF 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+ + E+    +V EI+  + I +  A  L+E
Sbjct: 123 GEKTMLENVRRLIVSEISHASGIDQERAKVLVE 155


>gi|78357172|ref|YP_388621.1| CarD family transcriptional regulator [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
 gi|78219577|gb|ABB38926.1| transcriptional regulator, CarD family [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
          Length = 171

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 43/141 (30%), Positives = 77/141 (54%), Gaps = 3/141 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG +  ++ Q V G + EF+++    + + L VPV  A+++G+R L 
Sbjct: 2   FVPDQLVVYPAQGVGKVERLESQVVGGAEAEFYIVRILSNNVTLMVPVKNAVNVGLRALC 61

Query: 74  EAHFVERALKLVRGKARVKRTM---WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            A   ++ L  ++ ++         W+RR +EY  K+ SG L  +A V+++L       E
Sbjct: 62  SAEEGQKILDSLQDRSDFTGYTGQNWNRRYREYSEKLKSGSLEDVAYVLKELLLIGKDKE 121

Query: 131 KSYSERQLYESALNRMVREIA 151
            S+ ER+L E ++  +  E+A
Sbjct: 122 LSFGERRLLEQSMGLITLELA 142


>gi|325474975|gb|EGC78161.1| transcriptional regulator [Treponema denticola F0402]
          Length = 209

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 51/165 (30%), Positives = 79/165 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   E +VYP  GVGTIT+I ++E+AG  ++++VI      M + VP+    ++G+R++ 
Sbjct: 7   FSAKEVVVYPGQGVGTITDITKKEIAGEVIDYYVIYLSDSDMTVLVPITGIDNLGIRRIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                E ALK +          W  R Q       SG ++    VVR L++     E   
Sbjct: 67  TKAEAEAALKFLSEDFEPIPIDWKARYQMNMDLFKSGKILDTGSVVRSLYQRSKTKELPI 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
            ER+LY+SA      EIAA   +++ E    I ++L       EK
Sbjct: 127 QERKLYDSAYRIFQDEIAAALKMTKTEVEAAIHLHLEPLGGPIEK 171


>gi|42527792|ref|NP_972890.1| transcriptional regulator, putative [Treponema denticola ATCC
           35405]
 gi|41818620|gb|AAS12809.1| transcriptional regulator, putative [Treponema denticola ATCC
           35405]
          Length = 208

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 51/165 (30%), Positives = 79/165 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   E +VYP  GVGTIT+I ++E+AG  ++++VI      M + VP+    ++G+R++ 
Sbjct: 7   FSAKEVVVYPGQGVGTITDITKKEIAGEVIDYYVIYLSDSDMTVLVPITGIDNLGIRRIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                E ALK +          W  R Q       SG ++    VVR L++     E   
Sbjct: 67  TKAEAEAALKFLSEDFEPIPIDWKARYQMNMDLFKSGKILDTGSVVRSLYQRSKTKELPI 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
            ER+LY+SA      EIAA   +++ E    I ++L       EK
Sbjct: 127 QERKLYDSAYRIFQDEIAAALKMTKTEVEAAIHLHLEPLGGPIEK 171


>gi|269957734|ref|YP_003327523.1| CarD family transcriptional regulator [Xylanimonas cellulosilytica
           DSM 15894]
 gi|269306415|gb|ACZ31965.1| transcriptional regulator, CarD family [Xylanimonas cellulosilytica
           DSM 15894]
          Length = 160

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 83/158 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAALIEEIKVRTIRGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D+    S 
Sbjct: 63  DQQGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLSRRDADRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 123 GEKRMLSKARQILVSELALAEHTEEDKAEAILDEVLAS 160


>gi|295694809|ref|YP_003588047.1| transcriptional regulator, CarD family [Bacillus tusciae DSM 2912]
 gi|295410411|gb|ADG04903.1| transcriptional regulator, CarD family [Bacillus tusciae DSM 2912]
          Length = 165

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 43/137 (31%), Positives = 75/137 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+EV G    ++++      + + VP+ +   +G+R++ 
Sbjct: 2   FNVGDRVVYPMHGAGVIESIEEREVLGKTGRYYIMRMPVGDIKVMVPIEQTGAVGLREVV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +A  V + L ++  +   +   W+RR ++   KI SGD  AIA+VVR L   D     S 
Sbjct: 62  DAEGVHKILDILFDEGTQETAAWNRRYRDNMDKIKSGDAFAIADVVRQLAWLDRHKGLST 121

Query: 134 SERQLYESALNRMVREI 150
            E+++YE A   ++ E+
Sbjct: 122 GEKRMYEMARQILLSEL 138


>gi|163941254|ref|YP_001646138.1| CarD family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|229012829|ref|ZP_04169997.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
 gi|229061220|ref|ZP_04198570.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|229134451|ref|ZP_04263264.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|229168365|ref|ZP_04296090.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|163863451|gb|ABY44510.1| transcriptional regulator, CarD family [Bacillus weihenstephanensis
           KBAB4]
 gi|228615191|gb|EEK72291.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|228649072|gb|EEL05094.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|228718091|gb|EEL69731.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|228748431|gb|EEL98288.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
          Length = 158

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M + +P+GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGEKRQYYVIKMSASNMEVMIPMGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DIKALTNIIDIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|240172169|ref|ZP_04750828.1| transcriptional regulator, CarD family protein [Mycobacterium
           kansasii ATCC 12478]
 gi|296166638|ref|ZP_06849065.1| CarD family transcriptional regulator [Mycobacterium
           parascrofulaceum ATCC BAA-614]
 gi|295898010|gb|EFG77589.1| CarD family transcriptional regulator [Mycobacterium
           parascrofulaceum ATCC BAA-614]
          Length = 162

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 86/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 162


>gi|145222036|ref|YP_001132714.1| CarD family transcriptional regulator [Mycobacterium gilvum
           PYR-GCK]
 gi|315446222|ref|YP_004079101.1| CarD family transcriptional regulator [Mycobacterium sp. Spyr1]
 gi|145214522|gb|ABP43926.1| transcriptional regulator, CarD family [Mycobacterium gilvum
           PYR-GCK]
 gi|315264525|gb|ADU01267.1| transcriptional regulator, CarD family [Mycobacterium sp. Spyr1]
          Length = 162

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 86/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   +  + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAENTDDAKASTILDEVLAAAS 162


>gi|320532511|ref|ZP_08033328.1| CarD-like transcriptional regulator [Actinomyces sp. oral taxon 171
           str. F0337]
 gi|320135273|gb|EFW27404.1| CarD-like transcriptional regulator [Actinomyces sp. oral taxon 171
           str. F0337]
          Length = 160

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 83/158 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R + 
Sbjct: 3   YEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVELIGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E+  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+      
Sbjct: 63  DETGLEKVFEVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGLPA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E EA + ++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAQKTPEEEAESRLDEVLAS 160


>gi|303234185|ref|ZP_07320831.1| CarD-like protein [Finegoldia magna BVS033A4]
 gi|302494726|gb|EFL54486.1| CarD-like protein [Finegoldia magna BVS033A4]
          Length = 160

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 82/148 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G ITE++ +EV G+K ++F++     +M + +PV K  D+G+R ++
Sbjct: 2   FKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYFILKMPMGEMKISIPVDKINDMGIRFVA 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           E   +     +++ +     + W++R +    K+  GD+   A V + L+  DS    S 
Sbjct: 62  EEEIIHSLRDILKNQEVDFPSNWNQRYKGNLEKLRIGDIKETAVVYKGLYELDSSKGLSM 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++  ++   ++ EIA+  ++   EA
Sbjct: 122 IEKKVLNTSRKMLISEIASGLNLKPSEA 149


>gi|229018847|ref|ZP_04175694.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
 gi|229025088|ref|ZP_04181515.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228736198|gb|EEL86766.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228742468|gb|EEL92621.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
          Length = 158

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M + +P+GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGEKQQYYVIKMSASNMEVMIPMGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  TLKALTHIIDVFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|294790738|ref|ZP_06755896.1| transcriptional regulator, CarD family [Scardovia inopinata F0304]
 gi|294458635|gb|EFG26988.1| transcriptional regulator, CarD family [Scardovia inopinata F0304]
          Length = 219

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 81/159 (50%), Gaps = 2/159 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   I EI E+ + G+   +  +     D + + VP      +G+R++
Sbjct: 3   YKVGDTVVYPRHGAARIEEISERTLRGVTRTYLRLTVLSSDGLEISVPADSVEKVGVREI 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL-HRTDSQPEK 131
                V +  +++R     ++T WSRR +    KI +GD+  IAEVVRDL  R D     
Sbjct: 63  VNGVAVAKVFEILRTPIVEEKTNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDDDDHGL 122

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +  EIA    I + EA  L++VNL 
Sbjct: 123 SAGEKRMLSKARGILTSEIALSEGIDDDEAQRLLDVNLG 161


>gi|326941362|gb|AEA17258.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           chinensis CT-43]
          Length = 153

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+EV+G K +++VI      M L +P G+ ++  +R ++
Sbjct: 2   FQIGDNIVYPMQGAGIIKAIEEKEVSGEKQQYYVIKMSASNMELMIPAGRILNSNIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 62  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 122 SEKKMLDNAYEFLISELGLIEGITE 146


>gi|229002840|ref|ZP_04160720.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|228758404|gb|EEM07571.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
          Length = 158

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVLIPTGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ E+A   ++ E+  +  I+E
Sbjct: 127 SEKKMLENAHEFLISELGLIKGITE 151


>gi|170783048|ref|YP_001711382.1| putative transcription factor regulator [Clavibacter michiganensis
           subsp. sepedonicus]
 gi|169157618|emb|CAQ02816.1| putative transcription factor regulator [Clavibacter michiganensis
           subsp. sepedonicus]
          Length = 160

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 83/158 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TI E+K++ + G++  +  +  ++  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATIIEVKKRVIRGVEKLYLKLDVNQGGLQIEVPAENVDMVGVRDVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE    ++R +   + T WSRR +    K+ SGD++ +AEVVRDL R +     S 
Sbjct: 63  GREGVESVFAVLRAEFTEEPTNWSRRYKANLEKLASGDVLKVAEVVRDLWRRNQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+ + + A   +V E+A      E  A  L++  L+S
Sbjct: 123 GEKSMLQKARGILVGELALAEKTDEEHASTLLDEVLAS 160


>gi|291297677|ref|YP_003508955.1| CarD family transcriptional regulator [Stackebrandtia nassauensis
           DSM 44728]
 gi|290566897|gb|ADD39862.1| transcriptional regulator, CarD family [Stackebrandtia nassauensis
           DSM 44728]
          Length = 161

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 84/153 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I  ++ + + G++ E+ V+  ++  + ++VP G    +G+R++ 
Sbjct: 3   FSVGETVVYPHHGAALIEAVETRTIKGVEQEYLVLRVEQGDLTVRVPAGNVELVGVREVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            A  +     ++R     + T WSRR +    K+ SG+ + +AEVVRDL R D +   S 
Sbjct: 63  GAEGLTEVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRDRERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A + +V E+A   + ++ +A  L++
Sbjct: 123 GEKRMLTKARDILVGEVALAEASTKDDAEVLLD 155


>gi|229007995|ref|ZP_04165557.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228753269|gb|EEM02745.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
          Length = 167

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R ++
Sbjct: 16  FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVLIPTGKILSSSIRPVT 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 76  DILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 135

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ E+A   ++ E+  +  I+E
Sbjct: 136 SEKKMLENAHEFLISELGLIKGITE 160


>gi|228940730|ref|ZP_04103293.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228973650|ref|ZP_04134232.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228980206|ref|ZP_04140520.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228779564|gb|EEM27817.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228786111|gb|EEM34108.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228818974|gb|EEM65036.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
          Length = 158

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+EV+G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEVSGEKQQYYVIKMSASNMELMIPAGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITE 151


>gi|224992000|ref|YP_002646689.1| putative transcription factor [Mycobacterium bovis BCG str. Tokyo
           172]
 gi|224775115|dbj|BAH27921.1| putative transcription factor [Mycobacterium bovis BCG str. Tokyo
           172]
          Length = 162

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 86/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPRHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 162


>gi|15610719|ref|NP_218100.1| transcription factor [Mycobacterium tuberculosis H37Rv]
 gi|15843196|ref|NP_338233.1| hypothetical protein MT3689 [Mycobacterium tuberculosis CDC1551]
 gi|31794760|ref|NP_857253.1| putative transcription factor [Mycobacterium bovis AF2122/97]
 gi|41406573|ref|NP_959409.1| hypothetical protein MAP0475 [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|118464023|ref|YP_879850.1| CarD family transcriptional regulator [Mycobacterium avium 104]
 gi|118619338|ref|YP_907670.1| transcriptional regulatory protein [Mycobacterium ulcerans Agy99]
 gi|121639503|ref|YP_979727.1| putative transcription factor [Mycobacterium bovis BCG str. Pasteur
           1173P2]
 gi|148663447|ref|YP_001284970.1| putative transcription factor [Mycobacterium tuberculosis H37Ra]
 gi|148824789|ref|YP_001289543.1| transcription factor [Mycobacterium tuberculosis F11]
 gi|167967112|ref|ZP_02549389.1| hypothetical transcription factor [Mycobacterium tuberculosis
           H37Ra]
 gi|183985051|ref|YP_001853342.1| transcriptional regulatory protein [Mycobacterium marinum M]
 gi|215405632|ref|ZP_03417813.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           02_1987]
 gi|215413503|ref|ZP_03422180.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           94_M4241A]
 gi|215429084|ref|ZP_03427003.1| transcriptional regulatory protein [Mycobacterium tuberculosis T92]
 gi|215432556|ref|ZP_03430475.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           EAS054]
 gi|215447917|ref|ZP_03434669.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|218755367|ref|ZP_03534163.1| transcriptional regulatory protein [Mycobacterium tuberculosis GM
           1503]
 gi|219559660|ref|ZP_03538736.1| transcriptional regulatory protein [Mycobacterium tuberculosis T17]
 gi|253800624|ref|YP_003033625.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|254366146|ref|ZP_04982190.1| hypothetical transcription factor [Mycobacterium tuberculosis str.
           Haarlem]
 gi|254552692|ref|ZP_05143139.1| transcriptional regulator [Mycobacterium tuberculosis '98-R604
           INH-RIF-EM']
 gi|254773528|ref|ZP_05215044.1| transcriptional regulatory protein [Mycobacterium avium subsp.
           avium ATCC 25291]
 gi|254822710|ref|ZP_05227711.1| transcriptional regulatory protein [Mycobacterium intracellulare
           ATCC 13950]
 gi|260184500|ref|ZP_05761974.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|260198625|ref|ZP_05766116.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|260202771|ref|ZP_05770262.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289441013|ref|ZP_06430757.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289445177|ref|ZP_06434921.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|289555847|ref|ZP_06445057.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|289571825|ref|ZP_06452052.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289572236|ref|ZP_06452463.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289747420|ref|ZP_06506798.1| transcription factor [Mycobacterium tuberculosis 02_1987]
 gi|289752298|ref|ZP_06511676.1| transcriptional regulator [Mycobacterium tuberculosis T92]
 gi|289755712|ref|ZP_06515090.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|289759741|ref|ZP_06519119.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|289763762|ref|ZP_06523140.1| transcription factor [Mycobacterium tuberculosis GM 1503]
 gi|294993703|ref|ZP_06799394.1| transcriptional regulator [Mycobacterium tuberculosis 210]
 gi|297636258|ref|ZP_06954038.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
 gi|297733251|ref|ZP_06962369.1| transcriptional regulator [Mycobacterium tuberculosis KZN R506]
 gi|298527062|ref|ZP_07014471.1| transcriptional regulator [Mycobacterium tuberculosis 94_M4241A]
 gi|306777937|ref|ZP_07416274.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|306778466|ref|ZP_07416803.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|306786490|ref|ZP_07424812.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|306790855|ref|ZP_07429177.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|306791178|ref|ZP_07429480.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|306795963|ref|ZP_07434265.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|306801211|ref|ZP_07437879.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|306805423|ref|ZP_07442091.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|306969715|ref|ZP_07482376.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|306974055|ref|ZP_07486716.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|307081764|ref|ZP_07490934.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|307086380|ref|ZP_07495493.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
 gi|313660581|ref|ZP_07817461.1| transcriptional regulator [Mycobacterium tuberculosis KZN V2475]
 gi|3261556|emb|CAA17859.1| POSSIBLE TRANSCRIPTION FACTOR [Mycobacterium tuberculosis H37Rv]
 gi|13883549|gb|AAK48047.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]
 gi|31620357|emb|CAD95800.1| PUTATIVE TRANSCRIPTION FACTOR [Mycobacterium bovis AF2122/97]
 gi|41394922|gb|AAS02792.1| hypothetical protein MAP_0475 [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|118165310|gb|ABK66207.1| transcriptional regulator, CarD family protein [Mycobacterium avium
           104]
 gi|118571448|gb|ABL06199.1| conserved transcriptional regulatory protein [Mycobacterium
           ulcerans Agy99]
 gi|121495151|emb|CAL73637.1| Putative transcription factor [Mycobacterium bovis BCG str. Pasteur
           1173P2]
 gi|134151658|gb|EBA43703.1| hypothetical transcription factor [Mycobacterium tuberculosis str.
           Haarlem]
 gi|148507599|gb|ABQ75408.1| putative transcription factor [Mycobacterium tuberculosis H37Ra]
 gi|148723316|gb|ABR07941.1| hypothetical transcription factor [Mycobacterium tuberculosis F11]
 gi|183178377|gb|ACC43487.1| conserved transcriptional regulatory protein [Mycobacterium marinum
           M]
 gi|253322127|gb|ACT26730.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|289413932|gb|EFD11172.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289418135|gb|EFD15336.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|289440479|gb|EFD22972.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|289536667|gb|EFD41245.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289545579|gb|EFD49227.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289687948|gb|EFD55436.1| transcription factor [Mycobacterium tuberculosis 02_1987]
 gi|289692885|gb|EFD60314.1| transcriptional regulator [Mycobacterium tuberculosis T92]
 gi|289696299|gb|EFD63728.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|289711268|gb|EFD75284.1| transcription factor [Mycobacterium tuberculosis GM 1503]
 gi|289715305|gb|EFD79317.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|298496856|gb|EFI32150.1| transcriptional regulator [Mycobacterium tuberculosis 94_M4241A]
 gi|308213809|gb|EFO73208.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|308328563|gb|EFP17414.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|308328978|gb|EFP17829.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|308332800|gb|EFP21651.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|308340291|gb|EFP29142.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|308343630|gb|EFP32481.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|308348097|gb|EFP36948.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|308352020|gb|EFP40871.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|308352807|gb|EFP41658.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|308356657|gb|EFP45508.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|308360612|gb|EFP49463.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|308364200|gb|EFP53051.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
 gi|323717777|gb|EGB26975.1| transcriptional regulator [Mycobacterium tuberculosis CDC1551A]
 gi|326905422|gb|EGE52355.1| transcriptional regulator [Mycobacterium tuberculosis W-148]
 gi|328460355|gb|AEB05778.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
          Length = 162

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 86/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 162


>gi|288556410|ref|YP_003428345.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
 gi|288547570|gb|ADC51453.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
          Length = 158

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGKKQQYYVIKMSIGNMQVMIPTGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +         W +R +    KI +G L   AEVVRDL +   +   + 
Sbjct: 67  DIIALKNIIHIFQHGESDSLLSWKQRYKVNTDKIKTGKLQECAEVVRDLMQMKKEKTLNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGFIKGITE 151


>gi|228992334|ref|ZP_04152265.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
 gi|228767359|gb|EEM15991.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
          Length = 158

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMEVMIPTGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   + R + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALTRIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKIQEGAEVVRDLMRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIKGITE 151


>gi|229191731|ref|ZP_04318708.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|228591725|gb|EEK49567.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
          Length = 158

 Score = 79.7 bits (195), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPTGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITE 151


>gi|284989246|ref|YP_003407800.1| CarD family transcriptional regulator [Geodermatophilus obscurus
           DSM 43160]
 gi|284062491|gb|ADB73429.1| transcriptional regulator, CarD family [Geodermatophilus obscurus
           DSM 43160]
          Length = 160

 Score = 79.3 bits (194), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/159 (30%), Positives = 82/159 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           GF  GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP   A  +G+R +
Sbjct: 2   GFTVGETVVYPHHGAALIEAIETRVIKGEERAYLVLKVAQGDLTVRVPADNAEIVGVRDV 61

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                + R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D     S
Sbjct: 62  VGQDGLNRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKDRGLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 122 AGEKRMLSKARQILVSELALAEGTNEDKAEVLLDEVLAS 160


>gi|118470459|ref|YP_890299.1| CarD family transcriptional regulator [Mycobacterium smegmatis str.
           MC2 155]
 gi|118171746|gb|ABK72642.1| transcriptional regulator, CarD family protein [Mycobacterium
           smegmatis str. MC2 155]
          Length = 162

 Score = 79.3 bits (194), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 86/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   +  + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAENTDDAKAETILDEVLAAAS 162


>gi|303246473|ref|ZP_07332752.1| transcriptional regulator, CarD family [Desulfovibrio
           fructosovorans JJ]
 gi|302492183|gb|EFL52058.1| transcriptional regulator, CarD family [Desulfovibrio
           fructosovorans JJ]
          Length = 170

 Score = 79.3 bits (194), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/135 (34%), Positives = 71/135 (52%), Gaps = 9/135 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG +  I+ Q + G   +FF++    + + L VPV  A ++G+R L 
Sbjct: 2   FSEEQLVVYPAQGVGRVERIETQVIGGTSADFFIVRILSNNVTLMVPVANAENVGLRPLC 61

Query: 74  EAHFVERALKLVRG-KARVKRT-----MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
            A   E  L ++   K R   T      W+RR +EY  K+ SGDL  +A V+++L     
Sbjct: 62  TA---EEGLAIIESLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLKELLLIGQ 118

Query: 128 QPEKSYSERQLYESA 142
             E S+ ER+L E A
Sbjct: 119 NKELSFGERRLLEQA 133


>gi|30021746|ref|NP_833377.1| CarD-like transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|206969394|ref|ZP_03230349.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|218230882|ref|YP_002368460.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228953921|ref|ZP_04115959.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|228959831|ref|ZP_04121505.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|229047328|ref|ZP_04192927.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
 gi|229071154|ref|ZP_04204380.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|229080862|ref|ZP_04213379.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|229111070|ref|ZP_04240629.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|229128920|ref|ZP_04257896.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
 gi|229146213|ref|ZP_04274588.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|229151843|ref|ZP_04280042.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|229179932|ref|ZP_04307278.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|296504148|ref|YP_003665848.1| CarD-like transcriptional regulator [Bacillus thuringiensis BMB171]
 gi|29897301|gb|AAP10578.1| CarD-like transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|206736435|gb|EDZ53593.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|218158839|gb|ACK58831.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228603613|gb|EEK61088.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|228631656|gb|EEK88286.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|228637272|gb|EEK93727.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|228654625|gb|EEL10487.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
 gi|228672433|gb|EEL27718.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|228702440|gb|EEL54909.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|228712094|gb|EEL64043.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228724070|gb|EEL75416.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
 gi|228799825|gb|EEM46768.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|228805741|gb|EEM52322.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|296325200|gb|ADH08128.1| CarD-like transcriptional regulator [Bacillus thuringiensis BMB171]
          Length = 158

 Score = 79.3 bits (194), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITE 151


>gi|315186624|gb|EFU20383.1| transcriptional regulator, CarD family [Spirochaeta thermophila DSM
           6578]
          Length = 218

 Score = 79.3 bits (194), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/144 (33%), Positives = 72/144 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+  +H+VYP  GVG +  I+E+E  G  L ++VI      M + VPV KA +IG+R + 
Sbjct: 14  FKVHDHVVYPLQGVGEVVRIEEREFKGEGLLYYVIYIPVSDMTVMVPVHKAAEIGIRPIV 73

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                  AL  +    +   T W  R Q     +  G ++ IA VVR L+      E   
Sbjct: 74  SREEALEALDFISENPQAGPTDWKTRYQMNLDLLKKGSVMDIARVVRALYYRSKIKELPI 133

Query: 134 SERQLYESALNRMVREIAAVNSIS 157
            ER+L+++AL  +V EI+    IS
Sbjct: 134 LERKLFDNALRILVDEISFALEIS 157


>gi|227824939|ref|ZP_03989771.1| transcriptional regulator [Acidaminococcus sp. D21]
 gi|226905438|gb|EEH91356.1| transcriptional regulator [Acidaminococcus sp. D21]
          Length = 162

 Score = 79.3 bits (194), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 79/152 (51%), Gaps = 4/152 (2%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F  G+ ++YP HG   I +++++ + G ++++FV       M + VP G    +G+
Sbjct: 1   MAYMFTVGDKVLYPMHGAAVIRDVEQKVIDGRQIDYFVFDMLLSNMKVMVPAGNVEKVGI 60

Query: 70  RKLSEAHF---VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           R + +      VE  LK  R + R+KR  W+RR   Y  K+ +G +  +A+VVR L   +
Sbjct: 61  RPIVDKSVMPKVEEVLK-ARPENRMKRITWNRRYNMYIDKMKTGSIFEVADVVRTLAVQE 119

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISE 158
              + S  ER+L  +A   ++ E+  V S+ E
Sbjct: 120 EDKKLSTGERRLLSTAKQILLSEVMLVESVDE 151


>gi|126650362|ref|ZP_01722590.1| transcriptional regulator, CarD family protein [Bacillus sp.
           B14905]
 gi|126593012|gb|EAZ86994.1| transcriptional regulator, CarD family protein [Bacillus sp.
           B14905]
          Length = 158

 Score = 79.3 bits (194), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/144 (28%), Positives = 79/144 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G++IVYP HGVG I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FEIGDNIVYPMHGVGIIKAIEEKEISGEKQQYYVIKMLIGNMQIMIPTGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KIN+G +    EVVRDL R   +   + 
Sbjct: 67  DIIALKHIINIFQHGESDRLLPWKQRYKVNTDKINTGKIQECTEVVRDLIRMKKEQGLNS 126

Query: 134 SERQLYESALNRMVREIAAVNSIS 157
           SE+++ ++A   ++ E+  +  I+
Sbjct: 127 SEKKMLDNAHEFLISELVLIKGIT 150


>gi|52142365|ref|YP_084467.1| CarD family transcriptional regulator [Bacillus cereus E33L]
 gi|51975834|gb|AAU17384.1| possible transcriptional regulator, CarD family [Bacillus cereus
           E33L]
          Length = 158

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R + 
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQIMIPKGKILSSNIRPVI 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLVSELELIKGITE 151


>gi|297587316|ref|ZP_06945961.1| CarD family transcriptional regulator [Finegoldia magna ATCC 53516]
 gi|297575297|gb|EFH94016.1| CarD family transcriptional regulator [Finegoldia magna ATCC 53516]
          Length = 160

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/139 (27%), Positives = 78/139 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G ITE++ +EV G+K +++++     +M + +PV K  D+G+R ++
Sbjct: 2   FKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYYILQMPMGEMKISIPVDKINDMGIRFVA 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +     +++       + W++R +E   K+ +GD+   A V + L+  D     S 
Sbjct: 62  QEEIIHSLRDILKNSEVDFPSNWNKRYKENLEKLRTGDIKETAIVYKGLYELDCSKGLSM 121

Query: 134 SERQLYESALNRMVREIAA 152
            E+++  ++   ++ EIA+
Sbjct: 122 IEKKVLNTSRKMLISEIAS 140


>gi|307719573|ref|YP_003875105.1| transcriptional regulatory protein [Spirochaeta thermophila DSM
           6192]
 gi|306533298|gb|ADN02832.1| transcriptional regulatory protein [Spirochaeta thermophila DSM
           6192]
          Length = 217

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 73/148 (49%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+  +H+VYP  GVG +  I+E+E  G  L ++VI      M + VPV KA +IG+R + 
Sbjct: 14  FKVHDHVVYPLQGVGEVVRIEEREFKGEGLLYYVIYIPVSDMTVMVPVHKAAEIGIRPIV 73

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                  AL  +    +   T W  R Q     +  G ++ IA VVR L+      E   
Sbjct: 74  SREEALEALDFISENPQAGPTDWKTRYQMNLDLLKKGSVMDIARVVRALYYRSKIKELPI 133

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            ER+L+++AL  +V EI+    IS  E 
Sbjct: 134 LERKLFDNALRILVDEISFALEISAKEV 161


>gi|229031301|ref|ZP_04187307.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|228730059|gb|EEL81033.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
          Length = 158

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/147 (27%), Positives = 79/147 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P G+ +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSGSNMEVMIPAGRILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITAIAHILNIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPE 160
           SE+++ ++A   ++ E+  +  I+E +
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITESQ 153


>gi|229015358|ref|ZP_04172376.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
 gi|228745937|gb|EEL95922.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
          Length = 158

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 81/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLIRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIKGITE 151


>gi|296138335|ref|YP_003645578.1| transcriptional regulator, CarD family [Tsukamurella paurometabola
           DSM 20162]
 gi|296026469|gb|ADG77239.1| transcriptional regulator, CarD family [Tsukamurella paurometabola
           DSM 20162]
          Length = 162

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 86/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + +KVP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIEIKTIGGREREYLVLKVAQGDLTVKVPAENAEVVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   +  + +A +L++  L++ S
Sbjct: 123 GEKRMLTKARQILVGELALAEATDDGKAESLLDEALAAAS 162


>gi|304439404|ref|ZP_07399316.1| CarD family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304372186|gb|EFM25780.1| CarD family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 160

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 43/141 (30%), Positives = 82/141 (58%), Gaps = 1/141 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  G+ +VYP HG G I +I+++E+ G    ++++     +M + VPV +A +IG+R + 
Sbjct: 2   YSIGDKVVYPMHGAGVIVDIEKKEILGEIRNYYILKMPIQEMKVMVPVEQAEEIGVRPIY 61

Query: 74  EAHFVERALKLVRGKARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               ++  L+ ++   ++   + W+RR +    KI +GD++ IA+VVR L R D++   S
Sbjct: 62  GTEEMKEVLETLQSDKKLDMPSNWNRRFRFSTEKIKTGDIVEIAKVVRCLVRMDNEKNLS 121

Query: 133 YSERQLYESALNRMVREIAAV 153
             ER+L  +A   +V E+A +
Sbjct: 122 TGERKLLNNAKKIIVSEMALI 142


>gi|269796457|ref|YP_003315912.1| CarD family transcriptional regulator [Sanguibacter keddieii DSM
           10542]
 gi|269098642|gb|ACZ23078.1| transcriptional regulator, CarD family [Sanguibacter keddieii DSM
           10542]
          Length = 160

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 81/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G    +  +   +  + ++VP      +G+R + 
Sbjct: 3   FTVGETVVYPHHGAALIEEIKTRTIRGEDKLYLKLKVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    S 
Sbjct: 63  GQEGLDRVFEVLRAPYTEEPTNWSRRYKANVEKIASGDVIKVAEVVRDLSRRDADRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 123 GEKRMLARARQILVSELALAEHTEEEKAEAILDEVLAS 160


>gi|229075538|ref|ZP_04208525.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|229098087|ref|ZP_04229035.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|229104182|ref|ZP_04234854.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|229117105|ref|ZP_04246484.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228666273|gb|EEL21736.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228679199|gb|EEL33404.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|228685278|gb|EEL39208.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|228707517|gb|EEL59703.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
          Length = 158

 Score = 79.0 bits (193), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI    + M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSANNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|317126037|ref|YP_004100149.1| CarD family transcriptional regulator [Intrasporangium calvum DSM
           43043]
 gi|315590125|gb|ADU49422.1| transcriptional regulator, CarD family [Intrasporangium calvum DSM
           43043]
          Length = 160

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I EI  + + G    +  +   +  + ++VP      +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEEINTRTIKGEDKLYLKLKVAQGDLTIEVPAENCDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D     S 
Sbjct: 63  GQEGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E +A ++++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEKTDEDKAESILDEVLAS 160


>gi|88855757|ref|ZP_01130420.1| transcriptional regulator, CarD-like regulator [marine
           actinobacterium PHSC20C1]
 gi|88815081|gb|EAR24940.1| transcriptional regulator, CarD-like regulator [marine
           actinobacterium PHSC20C1]
          Length = 160

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 84/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TITE+K++ + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATITEVKKRTIKGEEKIYLKLNVTQGDLTIEVPAENVDLVGVRDVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+I ++EVVRDL R D     S 
Sbjct: 63  GREGLDQVFEVLRAPFTEEPTNWSRRYKANLEKLASGDVIKVSEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   ++ E+A      E +A  +++  L+S
Sbjct: 123 GEKRMLAKARQILISELALAEKTDEEKASLVLDEVLAS 160


>gi|148273673|ref|YP_001223234.1| CarD family transcriptional regulator [Clavibacter michiganensis
           subsp. michiganensis NCPPB 382]
 gi|147831603|emb|CAN02571.1| putative transcriptional regulator, CarD family [Clavibacter
           michiganensis subsp. michiganensis NCPPB 382]
          Length = 160

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 82/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TI E+K++ + G +  +  +  ++  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATIIEVKKRVIRGEEKLYLKLDVNQGGLQIEVPAENVDMVGVRDVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE    ++R +   + T WSRR +    K+ SGD++ +AEVVRDL R +     S 
Sbjct: 63  GREGVESVFAVLRAEFTEEPTNWSRRYKANLEKLASGDVLKVAEVVRDLWRRNQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+ + + A   +V E+A      E  A  L++  L+S
Sbjct: 123 GEKSMLQKARGILVGELALAEKTDEEHASTLLDEVLAS 160


>gi|262200966|ref|YP_003272174.1| transcription factor CarD [Gordonia bronchialis DSM 43247]
 gi|262084313|gb|ACY20281.1| transcription factor CarD [Gordonia bronchialis DSM 43247]
          Length = 162

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 87/160 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   + +I  + + G ++E+ V+      M +++P  K   +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAARVEDIVTRTIKGEQIEYLVLKVADGDMTVQIPSTKLEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T W+RR +    K+ SGD+I +AE+VRDL R +     S 
Sbjct: 63  GQEGLDQVFQVLRAPHTEEPTNWARRFKANQEKLISGDIIKVAEIVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E++   +  + +A ++++  L++ S
Sbjct: 123 GEKRMLTRARRVLVDELSLAQNTDDEKATSILDEVLAAAS 162


>gi|83591305|ref|YP_431314.1| CarD family transcriptional regulator [Moorella thermoacetica ATCC
           39073]
 gi|83574219|gb|ABC20771.1| transcriptional regulator, CarD family [Moorella thermoacetica ATCC
           39073]
          Length = 158

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/153 (26%), Positives = 84/153 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+     +G+R++ 
Sbjct: 2   FKVGDKVVYPMHGAGVIEAIEEREVLGKKRKYYILRLPLGDMKVMIPLESEQAVGLREVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  +K+++         W+RR +    K+ SG++  +AEVV +L R +     S 
Sbjct: 62  DEKEIQEVIKILKEPRSNGSGNWNRRYRANLEKMRSGNIYQLAEVVGNLSRREHDQGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++ E+A   ++ E+A   +  + +  N++E
Sbjct: 122 GERKMLENARQMLISELALARNAEKNQVENMLE 154


>gi|302340584|ref|YP_003805790.1| transcriptional regulator, CarD family [Spirochaeta smaragdinae DSM
           11293]
 gi|301637769|gb|ADK83196.1| transcriptional regulator, CarD family [Spirochaeta smaragdinae DSM
           11293]
          Length = 171

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 43/140 (30%), Positives = 71/140 (50%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+  +H+VYP  GVG IT+I+E+ + G K  ++VI  +   M + +P  K  + G+R +
Sbjct: 12  AFKVNQHVVYPLQGVGIITDIQERVLKGKKTLYYVIYLELSDMTVMIPTDKTDERGIRAI 71

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 E+AL+L+  +       W  R Q     + SG +  IA VVR L+      E  
Sbjct: 72  VPKEEAEKALQLISEEYEPVTADWKMRYQMNLDLLRSGSINDIATVVRALYHRSKVKELP 131

Query: 133 YSERQLYESALNRMVREIAA 152
             ER+LY+ A+  ++ E+  
Sbjct: 132 IQERKLYDDAMKILIDEVTC 151


>gi|228994492|ref|ZP_04154342.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
 gi|228765250|gb|EEM13954.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
          Length = 167

 Score = 78.6 bits (192), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R ++
Sbjct: 16  FQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVLIPTGKILSSSIRPVT 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 76  DILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 135

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 136 SEKKMLDNAHEFLISELGLIKGITE 160


>gi|315924877|ref|ZP_07921094.1| CarD family transcriptional regulator [Pseudoramibacter
           alactolyticus ATCC 23263]
 gi|315621776|gb|EFV01740.1| CarD family transcriptional regulator [Pseudoramibacter
           alactolyticus ATCC 23263]
          Length = 159

 Score = 78.2 bits (191), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 41/157 (26%), Positives = 85/157 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  G+ IVYP HG G I  I+E ++      ++ +    + M + +PV KA ++G+R++ 
Sbjct: 2   YNIGDKIVYPMHGAGVIKNIQEMDIFEKTQMYYKVTIAAEGMEILIPVDKAEEVGLREIP 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E  L+++        + WS+R Q+   ++ SGD+I +A+V R+L   D +   S 
Sbjct: 62  THQDLEAMLQVLSQPEDKMTSNWSKRYQDNMDQMKSGDIIDVAKVTRNLMLLDRRKGLSS 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            ++++  +A N ++ E+  ++   + EA  +IE  ++
Sbjct: 122 GDKKMLMTAKNFLISEMMLIDGKEKEEACKIIETTVA 158


>gi|54022399|ref|YP_116641.1| putative transcriptional regulator [Nocardia farcinica IFM 10152]
 gi|54013907|dbj|BAD55277.1| putative transcriptional regulator [Nocardia farcinica IFM 10152]
          Length = 162

 Score = 78.2 bits (191), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 84/160 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDRVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A      + +A  L++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAEGTDDGKAETLLDEVLAAAS 162


>gi|308176321|ref|YP_003915727.1| CarD transcriptional regulator-like protein [Arthrobacter
           arilaitensis Re117]
 gi|307743784|emb|CBT74756.1| CarD transcriptional regulator-like protein [Arthrobacter
           arilaitensis Re117]
          Length = 161

 Score = 78.2 bits (191), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 84/158 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK +++ G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAAMIEEIKMRKIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R ++    S 
Sbjct: 63  GQEGLDHVFDVLRAEFTEEPTNWSRRYKANVEKLASGDVIKVAEVVRDLWRRENDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   ++ E+A    + E +A +L++  L+S
Sbjct: 123 GEKRMLAKARQVLISELALAKDLDEAKAESLLDEVLAS 160


>gi|42523769|ref|NP_969149.1| putative CarD-like transcriptional regulator [Bdellovibrio
           bacteriovorus HD100]
 gi|39575976|emb|CAE80142.1| putative CarD-like transcriptional regulator [Bdellovibrio
           bacteriovorus HD100]
          Length = 164

 Score = 78.2 bits (191), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 76/145 (52%), Gaps = 1/145 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q F  G++ VYP +GV  +  I+ +E+ G K  F+ +      + + +P       G+R 
Sbjct: 2   QTFDVGDNAVYPGYGVVKVVSIETKEMLGTKTTFYNMQLVDTGLKIMIPTTNVKSAGLRP 61

Query: 72  LSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           +       R + +++ K  ++    W+RR +EY  KI +G +  IAEV+RDL    +  E
Sbjct: 62  IISKSEASRVVGILKEKDIKIDNQTWNRRYREYMEKIKTGSVFEIAEVLRDLFLLKADKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNS 155
            S+ ER++ +SA + +++E+    S
Sbjct: 122 LSFGERKMLDSARSLLLKELTLATS 146


>gi|228909469|ref|ZP_04073294.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228850246|gb|EEM95075.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
          Length = 158

 Score = 78.2 bits (191), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M L +P G+  +  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMELMIPAGRISNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALVHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITE 151


>gi|165870992|ref|ZP_02215643.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167641498|ref|ZP_02399747.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170709170|ref|ZP_02899595.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
 gi|164713203|gb|EDR18729.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167510580|gb|EDR85977.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170125925|gb|EDS94827.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
          Length = 153

 Score = 78.2 bits (191), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 2   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 62  DIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 122 SEKKMLDNAHEFLISELGLIEGITE 146


>gi|315605258|ref|ZP_07880304.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           180 str. F0310]
 gi|315313075|gb|EFU61146.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           180 str. F0310]
          Length = 172

 Score = 78.2 bits (191), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG  TI E+  + + G +  +  +  ++  + ++VP      +G+R + 
Sbjct: 3   FEIGQTVVYPHHGAATIEEVMTRTIRGEERTYLKLRVNQGDLEIQVPAENVDMVGVRDIV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E  L ++R     + T WSRR +    KI +GD++ +AEVVRDL R D   + S 
Sbjct: 63  DEDGLEEVLSVLRAPYVEEPTNWSRRFKANQEKIATGDIVKVAEVVRDLTRRDDLKKLST 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A + +  E+A   +I +  A
Sbjct: 123 GEKRMLTKARSILTSELALARNIEKTAA 150


>gi|154508491|ref|ZP_02044133.1| hypothetical protein ACTODO_00992 [Actinomyces odontolyticus ATCC
           17982]
 gi|293194140|ref|ZP_06609941.1| transcriptional regulator, CarD family [Actinomyces odontolyticus
           F0309]
 gi|153798125|gb|EDN80545.1| hypothetical protein ACTODO_00992 [Actinomyces odontolyticus ATCC
           17982]
 gi|292819782|gb|EFF78793.1| transcriptional regulator, CarD family [Actinomyces odontolyticus
           F0309]
          Length = 172

 Score = 78.2 bits (191), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 85/169 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG  TI E+  + + G +  +  +  ++  + ++VP      +G+R + 
Sbjct: 3   FEIGQTVVYPHHGAATIEEVMTRTIRGEERTYLKLRVNQGDLEIQVPAENVDMVGVRDIV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E  L ++R     + T WSRR +    KI +GD++ +AEVVRDL R D   + S 
Sbjct: 63  DEDGLEEVLSVLRAPYIEEPTNWSRRFKANQEKIATGDIVKVAEVVRDLTRRDDLKKLST 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
            E+++   A   +  E+A   +I +  A   ++  L+    + E+   E
Sbjct: 123 GEKRMLTKARGILTSELALARNIEKSAAAERLDAVLAEGRIEVEEDAVE 171


>gi|184201518|ref|YP_001855725.1| hypothetical protein KRH_18720 [Kocuria rhizophila DC2201]
 gi|183581748|dbj|BAG30219.1| hypothetical protein [Kocuria rhizophila DC2201]
          Length = 161

 Score = 77.8 bits (190), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG  TI EIK + V G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAATIEEIKTRTVKGEEKMYLRLKVTQGDLMIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++ + +++ +   + + WSRR +    K+ SGD++ +AEVVRDL R D     S 
Sbjct: 63  DEDGLKQVIAVLQAQDAEEASNWSRRYKANLEKLASGDVLKVAEVVRDLWRRDRGKGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +  E+A    I E EA
Sbjct: 123 GEKRMLTKARQILTSELALAKKIDEEEA 150


>gi|49479453|ref|YP_037723.1| CarD family transcriptional regulator [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|206976148|ref|ZP_03237057.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217961056|ref|YP_002339624.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|222097108|ref|YP_002531165.1| transcriptional regulator, card family [Bacillus cereus Q1]
 gi|228986740|ref|ZP_04146870.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
 gi|229140266|ref|ZP_04268823.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|49331009|gb|AAT61655.1| transcriptional regulator, CarD family [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|206745602|gb|EDZ57000.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217063672|gb|ACJ77922.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|221241166|gb|ACM13876.1| transcriptional regulator, CarD family [Bacillus cereus Q1]
 gi|228643199|gb|EEK99473.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|228773071|gb|EEM21507.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
          Length = 158

 Score = 77.8 bits (190), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|30263594|ref|NP_845971.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Ames]
 gi|47528992|ref|YP_020341.1| CarD family transcriptional regulator [Bacillus anthracis str.
           'Ames Ancestor']
 gi|49186442|ref|YP_029694.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Sterne]
 gi|52141890|ref|YP_084935.1| CarD family transcriptional regulator [Bacillus cereus E33L]
 gi|65320919|ref|ZP_00393878.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Bacillus anthracis str. A2012]
 gi|167636360|ref|ZP_02394661.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0442]
 gi|170689537|ref|ZP_02880724.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0465]
 gi|177652471|ref|ZP_02934938.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190564601|ref|ZP_03017522.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|196034117|ref|ZP_03101527.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196038188|ref|ZP_03105497.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|196044624|ref|ZP_03111859.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|218904774|ref|YP_002452608.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225865630|ref|YP_002751008.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|227813522|ref|YP_002813531.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
 gi|228928695|ref|ZP_04091731.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228934921|ref|ZP_04097752.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228947260|ref|ZP_04109554.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|229092619|ref|ZP_04223770.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|229123162|ref|ZP_04252368.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|229157223|ref|ZP_04285303.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
 gi|229185880|ref|ZP_04313053.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|229602120|ref|YP_002867837.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0248]
 gi|254686212|ref|ZP_05150071.1| CarD family transcriptional regulator [Bacillus anthracis str.
           CNEVA-9066]
 gi|254726022|ref|ZP_05187804.1| CarD family transcriptional regulator [Bacillus anthracis str.
           A1055]
 gi|254738685|ref|ZP_05196388.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Western North America USA6153]
 gi|254744757|ref|ZP_05202435.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Kruger B]
 gi|254753003|ref|ZP_05205039.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Vollum]
 gi|254759274|ref|ZP_05211300.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Australia 94]
 gi|301055137|ref|YP_003793348.1| CarD family transcriptional regulator [Bacillus anthracis CI]
 gi|30258229|gb|AAP27457.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Ames]
 gi|47504140|gb|AAT32816.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           'Ames Ancestor']
 gi|49180369|gb|AAT55745.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Sterne]
 gi|51975359|gb|AAU16909.1| transcriptional regulator, CarD family [Bacillus cereus E33L]
 gi|167528287|gb|EDR91064.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0442]
 gi|170666494|gb|EDT17270.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0465]
 gi|172082145|gb|EDT67212.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190563918|gb|EDV17882.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|195993191|gb|EDX57149.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196024659|gb|EDX63331.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|196030596|gb|EDX69194.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|218535293|gb|ACK87691.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225788624|gb|ACO28841.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|227004447|gb|ACP14190.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
 gi|228597592|gb|EEK55239.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|228626287|gb|EEK83034.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
 gi|228660255|gb|EEL15889.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|228690772|gb|EEL44548.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|228812507|gb|EEM58834.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|228824821|gb|EEM70622.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228831014|gb|EEM76615.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|229266528|gb|ACQ48165.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0248]
 gi|300377306|gb|ADK06210.1| transcriptional regulator, CarD family [Bacillus cereus biovar
           anthracis str. CI]
          Length = 158

 Score = 77.8 bits (190), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|332669115|ref|YP_004452123.1| CarD family transcriptional regulator [Cellulomonas fimi ATCC 484]
 gi|332338153|gb|AEE44736.1| transcriptional regulator, CarD family [Cellulomonas fimi ATCC 484]
          Length = 160

 Score = 77.8 bits (190), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 81/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G    +  +   +  + ++VP      +G+R + 
Sbjct: 3   FTVGETVVYPHHGAALIEEIKTRTIRGEDKIYLKLKVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D+    S 
Sbjct: 63  GQEGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLSRRDADRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEHTEEEKAEAILDEVLAS 160


>gi|242280390|ref|YP_002992519.1| CarD family transcriptional regulator [Desulfovibrio salexigens DSM
           2638]
 gi|242123284|gb|ACS80980.1| transcriptional regulator, CarD family [Desulfovibrio salexigens
           DSM 2638]
          Length = 171

 Score = 77.8 bits (190), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 42/150 (28%), Positives = 78/150 (52%), Gaps = 3/150 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYP+ GVG +  I+ QE+ G   EF+++    + + L VPV  A ++G+R + 
Sbjct: 2   FELDQLVVYPSQGVGKVERIESQEIGGATAEFYIVRILSNNVTLMVPVMNAHNVGLRAVC 61

Query: 74  EAHFVERALKLVRGKARVKRTM---WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           +        + ++ ++         W+RR +EY  K+ SGDL  +A V+++L       E
Sbjct: 62  DKDAGMEIFESLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLQDVAYVLKELFLIGRDKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPE 160
            S+ ER+L E A+  +  E++    + + E
Sbjct: 122 LSFGERRLLEQAMGLVSMELSFALDLDQEE 151


>gi|150392190|ref|YP_001322239.1| CarD family transcriptional regulator [Alkaliphilus metalliredigens
           QYMF]
 gi|149952052|gb|ABR50580.1| transcriptional regulator, CarD family [Alkaliphilus
           metalliredigens QYMF]
          Length = 159

 Score = 77.8 bits (190), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 77/153 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVYP HG G I  I+E+E+ G K +++++      M + +P+    ++G+R + 
Sbjct: 2   FNIGDKIVYPMHGAGVIEAIEEKEILGKKRKYYIMKMPLGDMQVMIPLDHIEEVGIRSII 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE+   ++          W+RR +     I  GD+ A+AEVVR+L   D +   S 
Sbjct: 62  GLAEVEQVFAVLAADTTKMPQNWNRRYRANMDLIKGGDIYAVAEVVRNLLLRDREKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            ER++  +A   +V E+       E E ++ IE
Sbjct: 122 GERKMLNNAKQILVSEVVLSTDKEEQEVLDWIE 154


>gi|15639502|ref|NP_218952.1| transcription factor (carD) [Treponema pallidum subsp. pallidum
           str. Nichols]
 gi|189025741|ref|YP_001933513.1| transcription factor [Treponema pallidum subsp. pallidum SS14]
 gi|3322803|gb|AAC65499.1| transcription factor (carD) [Treponema pallidum subsp. pallidum
           str. Nichols]
 gi|189018316|gb|ACD70934.1| transcription factor [Treponema pallidum subsp. pallidum SS14]
          Length = 208

 Score = 77.8 bits (190), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 72/153 (47%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            FR  +H+VYP  GVG + EI E+      L ++VI  ++  M + +PV KA ++G+R +
Sbjct: 35  AFRPHDHVVYPGQGVGQVQEISEKTFKNETLLYYVIYLEESDMTVLIPVDKAQELGIRTI 94

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +    ERAL+ +          W  R Q       SG ++  A VVR L+      E  
Sbjct: 95  VKRKEAERALRFLSEDFDPSPLDWKMRYQVNLNLFKSGGILDNAAVVRSLYHRSKVKELP 154

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLI 165
             ER+LY+SA      E+     +  PE   LI
Sbjct: 155 IQERRLYDSAYRIFQDEMCFALGLRPPEVETLI 187


>gi|116669291|ref|YP_830224.1| CarD family transcriptional regulator [Arthrobacter sp. FB24]
 gi|119961222|ref|YP_946691.1| CarD-like transcriptional regulator [Arthrobacter aurescens TC1]
 gi|220911627|ref|YP_002486936.1| CarD family transcripitonal regulator [Arthrobacter
           chlorophenolicus A6]
 gi|116609400|gb|ABK02124.1| transcriptional regulator, CarD family [Arthrobacter sp. FB24]
 gi|119948081|gb|ABM06992.1| putative CarD-like transcriptional regulator [Arthrobacter
           aurescens TC1]
 gi|219858505|gb|ACL38847.1| transcriptional regulator, CarD family [Arthrobacter
           chlorophenolicus A6]
          Length = 160

 Score = 77.8 bits (190), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAAKIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R D     S 
Sbjct: 63  GKEGLEHVFDVLRAEFTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDHDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   ++ E+A      E +A ++++  L+S
Sbjct: 123 GEKRMLAKARQILISELALAEKTDEEKAASVLDEVLAS 160


>gi|291059888|gb|ADD72623.1| transcription factor [Treponema pallidum subsp. pallidum str.
           Chicago]
          Length = 243

 Score = 77.8 bits (190), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 72/154 (46%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            FR  +H+VYP  GVG + EI E+      L ++VI  ++  M + +PV KA ++G+R +
Sbjct: 70  AFRPHDHVVYPGQGVGQVQEISEKTFKNETLLYYVIYLEESDMTVLIPVDKAQELGIRTI 129

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +    ERAL+ +          W  R Q       SG ++  A VVR L+      E  
Sbjct: 130 VKRKEAERALRFLSEDFDPSPLDWKMRYQVNLNLFKSGGILDNAAVVRSLYHRSKVKELP 189

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             ER+LY+SA      E+     +  PE   LI 
Sbjct: 190 IQERRLYDSAYRIFQDEMCFALGLRPPEVETLIH 223


>gi|118478884|ref|YP_896035.1| CarD family transcriptional regulator [Bacillus thuringiensis str.
           Al Hakam]
 gi|118418109|gb|ABK86528.1| transcriptional regulator, CarD family [Bacillus thuringiensis str.
           Al Hakam]
          Length = 167

 Score = 77.8 bits (190), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 16  FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 76  DIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 135

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 136 SEKKMLDNAHEFLISELGLIEGITE 160


>gi|325962196|ref|YP_004240102.1| CarD family transcriptional regulator [Arthrobacter
           phenanthrenivorans Sphe3]
 gi|323468283|gb|ADX71968.1| transcriptional regulator, CarD family [Arthrobacter
           phenanthrenivorans Sphe3]
          Length = 160

 Score = 77.4 bits (189), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 81/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FEVGETVVYPHHGAAKIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R D     S 
Sbjct: 63  GKDGLEHVFDVLRAEFTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDHDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   ++ E+A      E +A ++++  L+S
Sbjct: 123 GEKRMLAKARQILISELALAEKTDEEKAASVLDEVLAS 160


>gi|239907582|ref|YP_002954323.1| hypothetical protein DMR_29460 [Desulfovibrio magneticus RS-1]
 gi|239797448|dbj|BAH76437.1| hypothetical protein [Desulfovibrio magneticus RS-1]
          Length = 170

 Score = 77.4 bits (189), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 42/132 (31%), Positives = 70/132 (53%), Gaps = 3/132 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYPA GVG +  I+ Q + G   +FF++    + + L VPV  A ++G+R L 
Sbjct: 2   FSEEQLVVYPAQGVGRVERIETQVIGGASADFFIVRILSNNVTLMVPVKNAANVGLRPLC 61

Query: 74  EAHFVERALKLVRGKARVKRTM---WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            A      ++ ++ ++         W+RR +EY  K+ SGDL  +A V+++L       E
Sbjct: 62  TAEQGAAIIESLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLKELLLIGQNKE 121

Query: 131 KSYSERQLYESA 142
            S+ ER+L E A
Sbjct: 122 LSFGERRLLEQA 133


>gi|330837541|ref|YP_004412182.1| transcriptional regulator, CarD family [Spirochaeta coccoides DSM
           17374]
 gi|329749444|gb|AEC02800.1| transcriptional regulator, CarD family [Spirochaeta coccoides DSM
           17374]
          Length = 161

 Score = 77.4 bits (189), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 45/147 (30%), Positives = 73/147 (49%), Gaps = 2/147 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+HIVYP  GVG I  I+E+   G    ++VI      M +K+P+ KA ++G+R + 
Sbjct: 3   FSVGDHIVYPLQGVGIIKCIEERNFQGEPQPYYVIHIAISDMIVKIPIAKAAEMGIRAIV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                + A+  +  K       W  R Q     +  G + +IA+VV+ L+      E   
Sbjct: 63  PPSEAQEAIDSISSKYDPLPVDWKTRYQMNVDLLQQGSIASIAQVVQALYHRSKVKELPV 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPE 160
            ER+LY+ AL  ++ E++   S+  PE
Sbjct: 123 QERKLYDGALRLLIDEVSF--SLKRPE 147


>gi|325970599|ref|YP_004246790.1| CarD family transcriptional regulator [Spirochaeta sp. Buddy]
 gi|324025837|gb|ADY12596.1| transcriptional regulator, CarD family [Spirochaeta sp. Buddy]
          Length = 167

 Score = 77.4 bits (189), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 44/138 (31%), Positives = 70/138 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GEH+VYP  GVG I  I+E+   G    ++VI  D   M + +PV K+ ++G+R + 
Sbjct: 10  FAVGEHVVYPLQGVGVIKRIEERTFRGAVTMYYVIYLDISDMTVMIPVEKSKEMGIRPIV 69

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           E    + A+  +  K       W  R Q     +  G + +IA+VV+ L+      E   
Sbjct: 70  EQKEAQSAIDSISSKYEPMPVDWKARYQMNVDLLKQGSIASIAKVVQALYHRSKIKELPV 129

Query: 134 SERQLYESALNRMVREIA 151
            ER+LY++AL  ++ E A
Sbjct: 130 QERKLYDNALRLLIDETA 147


>gi|229197758|ref|ZP_04324477.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
 gi|228585703|gb|EEK43802.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
          Length = 158

 Score = 77.4 bits (189), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSASNMEIMIPEGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIINIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|228998394|ref|ZP_04157985.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|229005881|ref|ZP_04163575.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228755345|gb|EEM04696.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228761315|gb|EEM10270.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
          Length = 158

 Score = 77.4 bits (189), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMEVMIPTGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALTHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKIQEGAEVVRDLMRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIKGITE 151


>gi|220927797|ref|YP_002504706.1| CarD family transcriptional regulator [Clostridium cellulolyticum
           H10]
 gi|219998125|gb|ACL74726.1| transcriptional regulator, CarD family [Clostridium cellulolyticum
           H10]
          Length = 159

 Score = 77.4 bits (189), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 77/148 (52%), Gaps = 6/148 (4%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR--- 70
           +  G+ IVYP HG G I  I+E+E+ G    ++V+      + + +P     DIG+R   
Sbjct: 2   YNVGDKIVYPMHGAGVIESIEEKEILGKTCSYYVMKIPIGDLKVMIPTNNITDIGIRDVI 61

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +SEA  V   LK   G+  +    W++R +E   KI SGD+  +A+VVR L + + +  
Sbjct: 62  SVSEADSVFDFLK--NGQHEIPSN-WNKRYRENMVKIKSGDIFEVADVVRGLMQREKEKG 118

Query: 131 KSYSERQLYESALNRMVREIAAVNSISE 158
            S  ER++  SA   ++ E+     I++
Sbjct: 119 LSTGERKMLSSAKQILISELVLAKGINQ 146


>gi|89894787|ref|YP_518274.1| hypothetical protein DSY2041 [Desulfitobacterium hafniense Y51]
 gi|89334235|dbj|BAE83830.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 174

 Score = 77.4 bits (189), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 88/169 (52%), Gaps = 5/169 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ ++YP +G G I  I+E+EV G+K +++++      M + +PVGKA D+G+R++ 
Sbjct: 2   FQVGDKVLYPMYGAGIIDSIEEKEVLGVKGQYYLLNIPHVNMEIMIPVGKAEDLGIRQVV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEY----DAKINSGDLIAIAEVVRDLHRTDSQP 129
            +  V+  L+    +      M+    + Y      K+ SGD+   +E++RDL R  +  
Sbjct: 62  NSEVVDDVLRFFF-EGDTDPVMFESNNRFYRDINKKKMKSGDIYQESEIIRDLTRKSNLH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           +    +  +  +AL  +  EI  V  I   +A+ +++  ++    + EK
Sbjct: 121 KLGMEDNNMLHTALQLVTSEIVQVKGIEMEKAVEMLQSVINQAKEEKEK 169


>gi|228905590|ref|ZP_04069538.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228854065|gb|EEM98775.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score = 77.4 bits (189), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 80/145 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSIRNMQVMIPTGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIIHIFQHGESDRLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           S++++ ++A   ++ E+  +  I+E
Sbjct: 127 SDKKMLDNAHEFLISELGLIKGITE 151


>gi|225022144|ref|ZP_03711336.1| hypothetical protein CORMATOL_02177 [Corynebacterium matruchotii
           ATCC 33806]
 gi|224945077|gb|EEG26286.1| hypothetical protein CORMATOL_02177 [Corynebacterium matruchotii
           ATCC 33806]
          Length = 235

 Score = 77.4 bits (189), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 77/152 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+++E+ G  LE+ V+   +  + ++VP   A  +G+R + 
Sbjct: 42  FKVGDTVVYPHHGAAVIEAIEQREMGGETLEYLVLQIHQSDLVVRVPSKNAETVGVRDVV 101

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 102 GEAGLRKVFGFLRETDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGKGLSA 161

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E+++   A   +V E+A      E +A  L+
Sbjct: 162 GEKRMLAKARQVLVGELALAEIKDEAKANELL 193


>gi|134097051|ref|YP_001102712.1| transcription regulator CarD [Saccharopolyspora erythraea NRRL
           2338]
 gi|291007008|ref|ZP_06564981.1| transcription regulator CarD [Saccharopolyspora erythraea NRRL
           2338]
 gi|133909674|emb|CAL99786.1| CarD family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
          Length = 162

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 82/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRVIKGEEKQYLVLKVAQGDLTVRVPADNAEIVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDRVFDVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E +A  L++  L++
Sbjct: 123 GEKRMLAKARQILVSELALAEGTDEGKAETLLDEVLAT 160


>gi|15827084|ref|NP_301347.1| transcription factor [Mycobacterium leprae TN]
 gi|221229562|ref|YP_002502978.1| putative transcription factor [Mycobacterium leprae Br4923]
 gi|13092632|emb|CAC29828.1| putative transcription factor [Mycobacterium leprae]
 gi|219932669|emb|CAR70413.1| putative transcription factor [Mycobacterium leprae Br4923]
          Length = 165

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 85/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 6   FKVGDTVVYPHHGAALVEAIETRTINGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRDVV 65

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  ++EVVRDL R D     S 
Sbjct: 66  GQEGLDQVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVSEVVRDLWRRDQDRGLSA 125

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 126 GEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 165


>gi|229173800|ref|ZP_04301340.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
 gi|228609650|gb|EEK66932.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
          Length = 156

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/145 (29%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R + 
Sbjct: 5   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSLSNMQIMIPKGKILSSNIRPVI 64

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   +   + 
Sbjct: 65  DILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEKALNT 124

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 125 SEKKLLDDAYKFLVSELELIKGITE 149


>gi|229087271|ref|ZP_04219415.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-44]
 gi|228696061|gb|EEL48902.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-44]
          Length = 164

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+++EV G   ++ VI      M + +P+ K    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEDKEVLGKTRQYCVIHMVISDMQVMIPMDKVATSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           + + +   L             W +R      K+ +GDL   AEVVRDL R + +   + 
Sbjct: 67  DKNTLNDVLVGFHNGEADSSLSWKQRYTMNMEKMKNGDLSDGAEVVRDLIRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   ++ E+A V ++SE +A + ++
Sbjct: 127 SEKQMLDNARRILISEVALVQNVSENQATDFLQ 159


>gi|219669222|ref|YP_002459657.1| CarD family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|219539482|gb|ACL21221.1| transcriptional regulator, CarD family [Desulfitobacterium
           hafniense DCB-2]
          Length = 174

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/169 (25%), Positives = 88/169 (52%), Gaps = 5/169 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ ++YP +G G I  I+E+EV G+K +++++      M + +PVGKA D+G+R++ 
Sbjct: 2   FQVGDKVLYPMYGAGIIDSIEEKEVLGVKGQYYLLNIPHVNMEIMIPVGKAEDLGIRQVV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEY----DAKINSGDLIAIAEVVRDLHRTDSQP 129
            +  V+  L+    +      M+    + Y      K+ SGD+   +E++RDL R  +  
Sbjct: 62  NSEVVDDVLRFFF-EGDTDPVMFESNNRFYRDINKKKMKSGDIYQESEIIRDLTRKSNLH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           +    +  +  +AL  +  EI  V  +   +A+ +++  ++    + EK
Sbjct: 121 KLGMEDNNMLHTALQLVTSEIVQVKGVEMEKAVEMLQSVINQAKDEKEK 169


>gi|258651110|ref|YP_003200266.1| CarD family transcriptional regulator [Nakamurella multipartita DSM
           44233]
 gi|258554335|gb|ACV77277.1| transcriptional regulator, CarD family [Nakamurella multipartita
           DSM 44233]
          Length = 160

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 82/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I   + + V G++  + V+   +  + +KVP   A  +G+R + 
Sbjct: 3   FNVGETVVYPHHGAALIQATETRTVKGVEKLYLVLKVAQGDLTVKVPADNAEIVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++   +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  DRTGLDHVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A     +E  A  +++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEGTNEVRAEGILDEVLAS 160


>gi|256833291|ref|YP_003162018.1| transcriptional regulator, CarD family [Jonesia denitrificans DSM
           20603]
 gi|256686822|gb|ACV09715.1| transcriptional regulator, CarD family [Jonesia denitrificans DSM
           20603]
          Length = 161

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 80/158 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G    +  +   +  + ++VP      +G+R + 
Sbjct: 3   FTVGETVVYPHHGAALIEEIKTRTIRGEDKTYLKLRVAQGDLVIEVPAENIDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++   +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    S 
Sbjct: 63  GKEGLDEVFEVLRAPYTEEPTNWSRRYKANVEKIASGDVIKVAEVVRDLSRRDTDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 123 GEKRMLSRARQILVSELALAERTEEDKAEAILDEVLAS 160


>gi|305680364|ref|ZP_07403172.1| CarD-like protein [Corynebacterium matruchotii ATCC 14266]
 gi|305659895|gb|EFM49394.1| CarD-like protein [Corynebacterium matruchotii ATCC 14266]
          Length = 196

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 77/152 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+++E+ G  LE+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAVIEAIEQREMGGETLEYLVLQIHQSDLVVRVPSKNAETVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEAGLRKVFGFLRETDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGKGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E+++   A   +V E+A      E +A  L+
Sbjct: 123 GEKRMLAKARQVLVGELALAEIKDEAKANELL 154


>gi|229030844|ref|ZP_04186866.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|228730493|gb|EEL81451.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
          Length = 158

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/145 (29%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R + 
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSLSNMQIMIPKGKILSSNIRPVI 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   +   + 
Sbjct: 67  DILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLVSELELIKGITE 151


>gi|218898740|ref|YP_002447151.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228902146|ref|ZP_04066310.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228966545|ref|ZP_04127598.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|218545939|gb|ACK98333.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228793267|gb|EEM40817.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228857572|gb|EEN02068.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+  +  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRISNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALVHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITE 151


>gi|229080349|ref|ZP_04212874.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|228703018|gb|EEL55479.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
          Length = 156

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/145 (29%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R + 
Sbjct: 5   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQIMIPKGKILSSNIRPVI 64

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   +   + 
Sbjct: 65  DILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEKALNT 124

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 125 SEKKLLDDAYKFLVSELELIKGITE 149


>gi|47567932|ref|ZP_00238639.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
 gi|47555410|gb|EAL13754.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
          Length = 158

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIIDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|229174309|ref|ZP_04301842.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
 gi|228609166|gb|EEK66455.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
          Length = 158

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 40/147 (27%), Positives = 78/147 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+ G K +++VI      M + +P G+ +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEITGEKQQYYVIKMSGSNMEVMIPAGRILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITAIAHILDIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPE 160
           SE+++ ++A   ++ E+  +  I+E +
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITESQ 153


>gi|218781211|ref|YP_002432529.1| CarD family transcriptional regulator [Desulfatibacillum
           alkenivorans AK-01]
 gi|218762595|gb|ACL05061.1| transcriptional regulator, CarD family [Desulfatibacillum
           alkenivorans AK-01]
          Length = 177

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 84/160 (52%), Gaps = 3/160 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   +  VYPAHGVG I  ++ + + G K  F+++   ++ M + +P      +G+R++ 
Sbjct: 19  FSVNDLAVYPAHGVGRIEAVETRTIGGEKQSFYIMRILENDMVIMIPTQNVESVGLREVI 78

Query: 74  EAHFVERALKLVRGKARVK--RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
               V +   ++ G+  +      W+RR ++Y  KI +G L  +A V RDL+      + 
Sbjct: 79  RKGDVSQVYAIL-GEKEIPPDNQTWNRRYRDYMEKIKTGSLFEVAGVFRDLYLLKVTKDL 137

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S+ ER+L ++A   +++E++   S +E   ++ IE  L S
Sbjct: 138 SFGERKLLDTAQTLLLKELSIAKSCTEEVIMSEIESLLES 177


>gi|75761918|ref|ZP_00741841.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74490589|gb|EAO53882.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 167

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+  +  +R ++
Sbjct: 16  FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRISNSNIRPVT 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 76  DITALVHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 135

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 136 SEKKMLDNAYEFLISELGLIEGITE 160


>gi|331699819|ref|YP_004336058.1| CarD family transcriptional regulator [Pseudonocardia dioxanivorans
           CB1190]
 gi|326954508|gb|AEA28205.1| transcriptional regulator, CarD family [Pseudonocardia
           dioxanivorans CB1190]
          Length = 164

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 84/161 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRTIKGEERKYLVLKVAQGDLTVRVPAENAEVVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+++   A   +V E+A      E  A  L++  L++ ++
Sbjct: 123 GEKRMLAKARQILVSELALAEGTDEERAEVLLDEVLATAAT 163


>gi|229073067|ref|ZP_04206256.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228710053|gb|EEL62038.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
          Length = 158

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/145 (29%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R + 
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQIMIPKGKILSSNIRPVI 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   +   + 
Sbjct: 67  DILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLVSELELIKGITE 151


>gi|111225860|ref|YP_716654.1| putative CarD-like transcriptional regulator [Frankia alni ACN14a]
 gi|111153392|emb|CAJ65148.1| putative CarD-like transcriptional regulator [Frankia alni ACN14a]
          Length = 160

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 77/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP      +G+R + 
Sbjct: 3   FQVGETVVYPHHGAALIDAIETRVIKGEERLYLVLKVAQGDLTVRVPADNVGMVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +ER  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQDGLERVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     +E +A
Sbjct: 123 GEKRMLSKARQILVSELALAEGTNEDKA 150


>gi|19553858|ref|NP_601860.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]
 gi|62391499|ref|YP_226901.1| CarD-like transcriptional regulator [Corynebacterium glutamicum
           ATCC 13032]
 gi|21325433|dbj|BAC00055.1| Transcriptional regulators, similar to M. xanthus CarD
           [Corynebacterium glutamicum ATCC 13032]
 gi|41326841|emb|CAF20685.1| CarD-like transcriptional regulator [Corynebacterium glutamicum
           ATCC 13032]
          Length = 198

 Score = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 80/148 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I+ ++++E+ G  +++ V+  +   + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAIISALEQREMNGETVDYLVLQINHSDLVVRVPAKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLQKVFSVLREIDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A   ++ + +A
Sbjct: 123 GEKRMLSKARQVLVGELALAETVDDEKA 150


>gi|229119116|ref|ZP_04248445.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228664336|gb|EEL19848.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
          Length = 158

 Score = 76.6 bits (187), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K  ++VI      M + +P GK +   +R + 
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKELSGKKQLYYVIKMSISNMQVMIPTGKILSSNIRPVI 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   +++ +     +   W +R +    KI +G++   AEV+RDL R   +   + 
Sbjct: 67  DILALTHIIQIFQHGESDELLPWKQRHKVNTDKIKTGEIQKGAEVIRDLIRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLVSELELIKGITE 151


>gi|86742930|ref|YP_483330.1| CarD family transcriptional regulator [Frankia sp. CcI3]
 gi|158312226|ref|YP_001504734.1| CarD family transcriptional regulator [Frankia sp. EAN1pec]
 gi|288923580|ref|ZP_06417692.1| transcriptional regulator, CarD family [Frankia sp. EUN1f]
 gi|289642338|ref|ZP_06474486.1| transcriptional regulator, CarD family [Frankia symbiont of Datisca
           glomerata]
 gi|86569792|gb|ABD13601.1| transcriptional regulator, CarD family [Frankia sp. CcI3]
 gi|158107631|gb|ABW09828.1| transcriptional regulator, CarD family [Frankia sp. EAN1pec]
 gi|288345079|gb|EFC79496.1| transcriptional regulator, CarD family [Frankia sp. EUN1f]
 gi|289507870|gb|EFD28821.1| transcriptional regulator, CarD family [Frankia symbiont of Datisca
           glomerata]
          Length = 160

 Score = 76.6 bits (187), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 77/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP      +G+R + 
Sbjct: 3   FQVGETVVYPHHGAALIDAIETRVIKGEEKLYLVLKVAQGDLTVRVPADNVGMVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +ER  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQDGLERVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     +E +A
Sbjct: 123 GEKRMLSKARQILVSELALAEGTNEDKA 150


>gi|296392879|ref|YP_003657763.1| CarD family transcriptional regulator [Segniliparus rotundus DSM
           44985]
 gi|296180026|gb|ADG96932.1| transcriptional regulator, CarD family [Segniliparus rotundus DSM
           44985]
          Length = 162

 Score = 76.6 bits (187), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/160 (29%), Positives = 83/160 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   +  I+ + + G++ E+ V+      + ++VP   A  IG+R + 
Sbjct: 3   FKIGDTVVYPHHGAALVEAIEVRTIKGVEKEYLVLKVGHGDLTVRVPAENAEYIGIRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  SDEGLDKVFNVLRDVHTEEPTNWSRRYKANIEKLASGDVHKVAEVVRDLWRREQGRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E++L   A   +V E+A   S  + +A  L++  L+  S
Sbjct: 123 GEKRLLAKARQVLVGELALAESSDDAKAEGLLDEVLAQAS 162


>gi|68535372|ref|YP_250077.1| putative transcription factor [Corynebacterium jeikeium K411]
 gi|68262971|emb|CAI36459.1| putative transcription factor [Corynebacterium jeikeium K411]
          Length = 196

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 77/152 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   I  I+++E  G  +++ V+  ++  + ++VP   A  +G+R + 
Sbjct: 3   FAVGDTVVYPHHGAAVIEGIEQREFKGETVDYLVLRINQGDLSVRVPAANAEKVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLRKVFSVLRETDVEEAGNWSRRYKANQERLTSGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E+++   A   +V E+A    + + +   L+
Sbjct: 123 GEKRMLAKARQILVGELALAEGVDDKKTDTLL 154


>gi|163839171|ref|YP_001623576.1| transcriptional regulator [Renibacterium salmoninarum ATCC 33209]
 gi|162952647|gb|ABY22162.1| transcriptional regulator [Renibacterium salmoninarum ATCC 33209]
          Length = 301

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 80/158 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 144 FEIGETVVYPHHGAAKIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRDVV 203

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R D     S 
Sbjct: 204 GKEGLEHVFDVLRAEFTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDHDRGLSA 263

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   ++ E+A      E +A  +++  L+S
Sbjct: 264 GEKRMLAKARQILISELALAEKTDEEKAATVLDEVLAS 301


>gi|296128524|ref|YP_003635774.1| transcriptional regulator, CarD family [Cellulomonas flavigena DSM
           20109]
 gi|296020339|gb|ADG73575.1| transcriptional regulator, CarD family [Cellulomonas flavigena DSM
           20109]
          Length = 160

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 44/138 (31%), Positives = 72/138 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EIK + + G +  +  +      + ++VP      +G+R + 
Sbjct: 3   FTVGETVVYPHHGAAKIEEIKSRTIRGEEKIYLKLKVAHGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D+    S 
Sbjct: 63  GQEGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLQSGDVIKVAEVVRDLSRRDADRGLSA 122

Query: 134 SERQLYESALNRMVREIA 151
            E+++   A   +V E+A
Sbjct: 123 GEKRMLAKARQILVSELA 140


>gi|228916274|ref|ZP_04079844.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|228843472|gb|EEM88550.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
          Length = 158

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGEILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITE 151


>gi|326383079|ref|ZP_08204768.1| transcription factor CarD [Gordonia neofelifaecis NRRL B-59395]
 gi|326198215|gb|EGD55400.1| transcription factor CarD [Gordonia neofelifaecis NRRL B-59395]
          Length = 162

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 87/160 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   + +I  + + G ++E+ V+      M +++P  K   +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAARVEDIVIRTIKGEEIEYLVLKVADGDMTVQIPSSKLEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T W+RR +    K+ SGD+I +AE+VRDL R +     S 
Sbjct: 63  GQEGLDQVFQVLRAPHTEEPTNWARRFKANQEKLISGDIIKVAEIVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E++     ++ +A ++++  L++ S
Sbjct: 123 GEKRMLTRARRVLVDELSLAQHTNDEKADSMLDEILAAAS 162


>gi|145296658|ref|YP_001139479.1| hypothetical protein cgR_2565 [Corynebacterium glutamicum R]
 gi|140846578|dbj|BAF55577.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 198

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 80/148 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I+ ++++E+ G  +++ V+  +   + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAIISALEQREMNGETVDYLVLQINHSDLVVRVPAKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLQKVFSVLREIDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A   ++ + +A
Sbjct: 123 GEKRMLSKARQVLVGELALAETVDDVKA 150


>gi|284028991|ref|YP_003378922.1| CarD family transcriptional regulator [Kribbella flavida DSM 17836]
 gi|283808284|gb|ADB30123.1| transcriptional regulator, CarD family [Kribbella flavida DSM
           17836]
          Length = 161

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 46/159 (28%), Positives = 85/159 (53%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I +I+ +++ G    + V+    ++ + ++VP      +G+R +
Sbjct: 3   FTVGETVVYPNHGAAVIEDIETRQIKGEDKTYLVLRIVAQNDLVVRVPACNLDLVGVRDV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +ER   ++R     + T WSRR +    K++SGD++ +AEVVRDL R +     S
Sbjct: 63  VDQAGLERVFDVLRAPHTEEPTNWSRRYKANLEKLHSGDVMKVAEVVRDLWRRERDRGLS 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A     +E +A  +++  L+S
Sbjct: 123 AGEKRMLAKARQILVSELALAEHTNEDKAEAILDEVLAS 161


>gi|228993464|ref|ZP_04153374.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
 gi|228999501|ref|ZP_04159079.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|229007057|ref|ZP_04164684.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228754206|gb|EEM03624.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228760212|gb|EEM09180.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|228766286|gb|EEM14930.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
          Length = 164

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 83/153 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+++EV G   ++ VI      M + +P+ K  + G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEDKEVLGKIRQYCVIHMVISDMQVMIPMDKVENSGIRYVV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           + + +   L  +          W +R      K+ +G+L+  AEVVRDL R + +   + 
Sbjct: 67  DKNTLNDVLVDIHNGEADHSLSWKQRYTMNMEKMKNGNLLDGAEVVRDLIRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   ++ E+A V ++SE +A  +++
Sbjct: 127 SEKQMLDNARRILISEVALVQNVSENQATYILQ 159


>gi|28493316|ref|NP_787477.1| transcriptional regulator [Tropheryma whipplei str. Twist]
 gi|28572573|ref|NP_789353.1| transcription regulator CarD [Tropheryma whipplei TW08/27]
 gi|28410705|emb|CAD67091.1| putative CarD-family transcriptional regulator [Tropheryma whipplei
           TW08/27]
 gi|28476357|gb|AAO44446.1| transcriptional regulator [Tropheryma whipplei str. Twist]
          Length = 160

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 82/153 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG  +I EIK++ + G ++ +  +      + ++VP  K   +G+R + 
Sbjct: 3   FKVGQTVVYPHHGTASILEIKKRVIRGEEVTYLKLHVSDGDLMIEVPAEKIEAVGLRGVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           ++    R ++++R     + T WSRR +    KI SGD+  + EVVRDL R +     S 
Sbjct: 63  DSDGARRVVEVLRENLVDEPTNWSRRYKSNLEKIASGDVTKVTEVVRDLSRREKTRVLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A     ++ +A  L++
Sbjct: 123 GEKRMLTRARGILVAELALARHTNQEDAEALLD 155


>gi|312194274|ref|YP_004014335.1| CarD family transcriptional regulator [Frankia sp. EuI1c]
 gi|311225610|gb|ADP78465.1| transcriptional regulator, CarD family [Frankia sp. EuI1c]
          Length = 160

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 77/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP      +G+R + 
Sbjct: 3   FQVGETVVYPHHGAALIDAIETRVIKGEEKLYLVLKVAQGDLTVRVPADNIGMVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +ER  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   S 
Sbjct: 63  GQDGLERVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A     +E +A
Sbjct: 123 GEKRMLSKARQILVSELALAEGTNEDKA 150


>gi|284048085|ref|YP_003398424.1| transcriptional regulator, CarD family [Acidaminococcus fermentans
           DSM 20731]
 gi|283952306|gb|ADB47109.1| transcriptional regulator, CarD family [Acidaminococcus fermentans
           DSM 20731]
          Length = 159

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 77/148 (52%), Gaps = 4/148 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ ++YP HG   I  ++++++ G  + +FV+      M + +P      IG+R + 
Sbjct: 2   FTVGDKVLYPMHGAAVIKNVEQKQIDGHPVNYFVLKMLLSDMKVLIPEVNVDKIGLRPIV 61

Query: 74  EAHF---VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                  VE  LK  R + ++KR  W+RR   Y  K+ +GD+  +A+VVR L   +++ +
Sbjct: 62  NKAILPKVEDVLK-ARPENKMKRITWNRRYNMYVDKMKTGDIFEVADVVRTLAVQETEKK 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISE 158
            S  ER+L  +A   ++ E   V S+ E
Sbjct: 121 LSAGERRLLTTAKQILLSEFMLVESVDE 148


>gi|317507825|ref|ZP_07965526.1| CarD/TRCF domain-containing protein [Segniliparus rugosus ATCC
           BAA-974]
 gi|316253867|gb|EFV13236.1| CarD/TRCF domain-containing protein [Segniliparus rugosus ATCC
           BAA-974]
          Length = 162

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/160 (29%), Positives = 84/160 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   +  I+ + + G++ E+ V+   +  + ++VP   A  IG+R + 
Sbjct: 3   FKIGDTVVYPHHGAALVEAIEVRTIKGVEKEYLVLKVGQGDLTVRVPAENAEYIGIRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  SDEGLDKVFNVLRDVHTEEPTNWSRRYKANIEKLASGDVHKVAEVVRDLWRREQGRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E++L   A   +V E+A   S  + +A  L++  L+  S
Sbjct: 123 GEKRLLAKARQVLVGELALAESSDDEKAECLLDEVLAEAS 162


>gi|169627671|ref|YP_001701320.1| putative CarD-like transcriptional regulator [Mycobacterium
           abscessus ATCC 19977]
 gi|169239638|emb|CAM60666.1| Putative CarD-like transcriptional regulator [Mycobacterium
           abscessus]
          Length = 162

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 85/160 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++   +++R     + T WSRR +    K+ SGD+  +AEVVRDL R + +   S 
Sbjct: 63  GREGLDTVFQVLRAPHTEEPTNWSRRFKANQEKLASGDVKKVAEVVRDLWRREQERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A   + +  +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAENTNAAKADTILDEVLAAAS 162


>gi|312144273|ref|YP_003995719.1| transcriptional regulator, CarD family [Halanaerobium sp.
           'sapolanicus']
 gi|311904924|gb|ADQ15365.1| transcriptional regulator, CarD family [Halanaerobium sp.
           'sapolanicus']
          Length = 166

 Score = 75.9 bits (185), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/147 (27%), Positives = 75/147 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ +VYP HG GTI  I+ + +   K +++++     +M + +PV K   IG+R + 
Sbjct: 2   YKIGDKVVYPNHGAGTIVGIETKTILDEKKKYYIMKLPIGEMKVMIPVDKIDKIGIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                    KL+ G+       W+RR +    K+ +GD+  +AEVVR+L   D +   S 
Sbjct: 62  SEEKANDVFKLLNGEKSKMSQNWNRRYRANQEKLKTGDIFEVAEVVRNLSIRDREKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPE 160
            E+++  +A   ++ E+     + E E
Sbjct: 122 GEKKMLSNARKILISELVLAKDMDEEE 148


>gi|326332061|ref|ZP_08198346.1| transcriptional regulator, CarD family [Nocardioidaceae bacterium
           Broad-1]
 gi|325950199|gb|EGD42254.1| transcriptional regulator, CarD family [Nocardioidaceae bacterium
           Broad-1]
          Length = 161

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 46/159 (28%), Positives = 87/159 (54%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I +I+ + + G + ++ V+    +  + ++VP      +G+R +
Sbjct: 3   FTVGETVVYPNHGAAVIEDIEMRTIKGEERQYLVLRIIAQQDLVVRVPANNLELVGVRDV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++R  +++R +   + T WSRR +    K++SGD++ +AEVVRDL R +     S
Sbjct: 63  VDKDGLDRVFEVLRAEHVEEPTNWSRRYKANLEKLHSGDVMKVAEVVRDLWRRERDRGLS 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 123 AGEKRMLAKARQILVSELALCEHTNEDKAEVLLDEVLAS 161


>gi|183601479|ref|ZP_02962849.1| possible transcriptional regulator [Bifidobacterium animalis subsp.
           lactis HN019]
 gi|219683979|ref|YP_002470362.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           AD011]
 gi|241191021|ref|YP_002968415.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           Bl-04]
 gi|241196427|ref|YP_002969982.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           DSM 10140]
 gi|183219085|gb|EDT89726.1| possible transcriptional regulator [Bifidobacterium animalis subsp.
           lactis HN019]
 gi|219621629|gb|ACL29786.1| possible transcriptional regulator [Bifidobacterium animalis subsp.
           lactis AD011]
 gi|240249413|gb|ACS46353.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           Bl-04]
 gi|240250981|gb|ACS47920.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           DSM 10140]
 gi|295794010|gb|ADG33545.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           V9]
          Length = 198

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 52/160 (32%), Positives = 84/160 (52%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   + EI ++ V G+  E+  ++    D + + VPV     +G+R 
Sbjct: 2   GYKVGDMVVYPRHGAARVEEILQRTVKGVTREYLKLSVLSSDDLEIFVPVDNLKKVGVRD 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   V R  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 62  IVDGDEVSRVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEHG 121

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            S  E+++   A + +  EIA    +SE E   L++VNL 
Sbjct: 122 LSAGEKRMLTKARSILTSEIALSEELSEEETQRLLDVNLG 161


>gi|260905792|ref|ZP_05914114.1| transcriptional regulator, CarD family protein [Brevibacterium
           linens BL2]
          Length = 160

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 43/138 (31%), Positives = 73/138 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG  TI +IK++ + G +  +  +      + ++VP      +G+R + 
Sbjct: 3   FEVGDTVVYPHHGAATIQDIKKRTIKGEEKLYLKLQVAHGDLVIEVPAENCDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE+   ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R +     S 
Sbjct: 63  GEEGVEKVFNVLRAEFVEEPTNWSRRYKANLEKLQSGDVIKVAEVVRDLWRREQDRGLST 122

Query: 134 SERQLYESALNRMVREIA 151
            E+++   A   +V E+A
Sbjct: 123 GEKRMLSKARQILVSELA 140


>gi|260578403|ref|ZP_05846317.1| transcription factor [Corynebacterium jeikeium ATCC 43734]
 gi|258603425|gb|EEW16688.1| transcription factor [Corynebacterium jeikeium ATCC 43734]
          Length = 196

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 77/152 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   I  I+++E  G  +++ V+  ++  + ++VP   A  +G+R + 
Sbjct: 3   FAVGDTVVYPHHGAAVIEGIEQREFKGETVDYLVLRINQGDLSVRVPAANAEKVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLRKVFSVLRETDVEEAGNWSRRYKANQERLTSGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E+++   A   +V E+A    + + +   L+
Sbjct: 123 GEKRMLAKARQILVGELALAEGVDDKKTDALL 154


>gi|229077167|ref|ZP_04209871.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|229100763|ref|ZP_04231596.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|228682650|gb|EEL36695.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|228706186|gb|EEL58471.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
          Length = 158

 Score = 75.5 bits (184), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R + 
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQVMIPTGKILSSNIRPVI 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   +++ +     +   W +R +    KI +G++   AEV+RDL R   +   + 
Sbjct: 67  DILALTHIIQIFQHGESDELLPWKQRHKVNTDKIKTGEIQEGAEVIRDLIRMKKEKALNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L + A   +V E+  +  I+E
Sbjct: 127 SEKKLLDDAYKFLVSELELIKGITE 151


>gi|256374519|ref|YP_003098179.1| CarD family transcriptional regulator [Actinosynnema mirum DSM
           43827]
 gi|255918822|gb|ACU34333.1| transcriptional regulator, CarD family [Actinosynnema mirum DSM
           43827]
          Length = 162

 Score = 75.5 bits (184), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 84/160 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRVIKGEEKKYLVLKVAQGDLTVRVPADNAEIVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDKVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A      E +A  L++  L++ S
Sbjct: 123 GEKRMLAKARQILVSELALAEGTDEDKAEVLLDEVLATAS 162


>gi|111021431|ref|YP_704403.1| CarD family transcriptional regulator [Rhodococcus jostii RHA1]
 gi|226363787|ref|YP_002781569.1| hypothetical protein ROP_43770 [Rhodococcus opacus B4]
 gi|110820961|gb|ABG96245.1| probable transcriptional regulator, CarD family protein
           [Rhodococcus jostii RHA1]
 gi|226242276|dbj|BAH52624.1| hypothetical protein [Rhodococcus opacus B4]
          Length = 162

 Score = 75.5 bits (184), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 83/160 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A        +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAEGTDSDKAETILDEVLAAAS 162


>gi|256397245|ref|YP_003118809.1| CarD family transcriptional regulator [Catenulispora acidiphila DSM
           44928]
 gi|256363471|gb|ACU76968.1| transcriptional regulator, CarD family [Catenulispora acidiphila
           DSM 44928]
          Length = 160

 Score = 75.5 bits (184), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 52/158 (32%), Positives = 87/158 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I +I+ + + G   E+ V+   +  + ++VP  KA  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEDIEIRVIKGEPKEYLVLKVAQGDLTVRVPSEKAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +ER   ++R     + T WSRR +    KI SGD+I +AEVVRDL R D     S 
Sbjct: 63  DQGGLERVFDVLRAPHTEEPTNWSRRYKANIEKIQSGDVIKVAEVVRDLWRRDRDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A   + +E +A  +++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEATNEDKADAILDEVLAS 160


>gi|289178764|gb|ADC86010.1| CarD-like transcriptional regulator [Bifidobacterium animalis
           subsp. lactis BB-12]
          Length = 223

 Score = 75.1 bits (183), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 52/160 (32%), Positives = 84/160 (52%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   + EI ++ V G+  E+  ++    D + + VPV     +G+R 
Sbjct: 27  GYKVGDMVVYPRHGAARVEEILQRTVKGVTREYLKLSVLSSDDLEIFVPVDNLKKVGVRD 86

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   V R  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D     
Sbjct: 87  IVDGDEVSRVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEHG 146

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            S  E+++   A + +  EIA    +SE E   L++VNL 
Sbjct: 147 LSAGEKRMLTKARSILTSEIALSEELSEEETQRLLDVNLG 186


>gi|226304175|ref|YP_002764133.1| hypothetical protein RER_06860 [Rhodococcus erythropolis PR4]
 gi|229494349|ref|ZP_04388112.1| transcriptional regulator, CarD family protein [Rhodococcus
           erythropolis SK121]
 gi|226183290|dbj|BAH31394.1| conserved hypothetical protein [Rhodococcus erythropolis PR4]
 gi|229318711|gb|EEN84569.1| transcriptional regulator, CarD family protein [Rhodococcus
           erythropolis SK121]
          Length = 162

 Score = 75.1 bits (183), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 83/160 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A        +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAEGTDTEKAETILDEVLAAAS 162


>gi|15616497|ref|NP_244803.1| transcriptional regulator [Bacillus halodurans C-125]
 gi|10176560|dbj|BAB07654.1| transcriptional regulator [Bacillus halodurans C-125]
          Length = 153

 Score = 75.1 bits (183), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+H+VYP HG G I  I+E+E+AG + ++FVI    + M + +P  K     +R ++
Sbjct: 2   FQIGDHVVYPMHGAGIIKAIEEKEIAGERKQYFVIKMSINNMDVMIPADKISSTNIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++ + + +     +   W  R +    K+ +G +   AEVVRDL R   +   + 
Sbjct: 62  DLTALKQIIHIFQHGESEQLLPWKERYKMNADKMKTGHIQEGAEVVRDLMRIKKEKALNP 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ + A   +  E+  +  I+E
Sbjct: 122 SEKKMLDDAREFLNSELGLIEGITE 146


>gi|227495622|ref|ZP_03925938.1| possible transcription factor CarD [Actinomyces coleocanis DSM
           15436]
 gi|226830854|gb|EEH63237.1| possible transcription factor CarD [Actinomyces coleocanis DSM
           15436]
          Length = 169

 Score = 75.1 bits (183), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 72/148 (48%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE IVYP HG  TI EI  +E  G K  +  +   +  + ++VP      +G R + 
Sbjct: 3   FHIGETIVYPHHGAATIEEINVREFKGEKRTYLTLRVAQGDLTIQVPADNVEMVGGRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +    +  + ++   +  +  +WSRR ++   KI SG + ++AEVVRDL R D+    S 
Sbjct: 63  DEGGFQEVVDILHEDSTDEPAIWSRRYKQNQEKIASGSIRSVAEVVRDLTRRDAVKGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+ +   A   +  E+A    I E  A
Sbjct: 123 GEKCMLSKARQILTSEVALARGIDEAAA 150


>gi|119718259|ref|YP_925224.1| CarD family transcriptional regulator [Nocardioides sp. JS614]
 gi|119538920|gb|ABL83537.1| transcriptional regulator, CarD family [Nocardioides sp. JS614]
          Length = 161

 Score = 75.1 bits (183), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 46/159 (28%), Positives = 85/159 (53%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I +I+ +++ G   ++ V+    +  + ++VP      +G+R +
Sbjct: 3   FTVGETVVYPNHGAAVIEDIEMRKIKGEDRQYLVLRIVAQQDLVVRVPACNLDLVGVRDV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++R   ++R     + T WSRR +    K++SGD++ +AEVVRDL R +     S
Sbjct: 63  VDKEGLDRVFDVLRAAHVEEPTNWSRRYKANLEKLHSGDVMKVAEVVRDLWRRERDRGLS 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 123 AGEKRMLAKARQILVSELALAEHTNEDKAEALLDEVLAS 161


>gi|257057465|ref|YP_003135297.1| transcriptional regulator, CarD family [Saccharomonospora viridis
           DSM 43017]
 gi|256587337|gb|ACU98470.1| transcriptional regulator, CarD family [Saccharomonospora viridis
           DSM 43017]
          Length = 163

 Score = 74.7 bits (182), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 78/153 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRVIKGEEKQYLVLKVAQGDLTVRVPADNAEIVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + R   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLNRVFDVLRAPHTDEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++   A   +V E+A      E +A  L++
Sbjct: 123 GEKRMLAKARQILVSELALAEGTDESKAEVLLD 155


>gi|332653050|ref|ZP_08418795.1| transcriptional regulator, CarD family [Ruminococcaceae bacterium
           D16]
 gi|332518196|gb|EGJ47799.1| transcriptional regulator, CarD family [Ruminococcaceae bacterium
           D16]
          Length = 158

 Score = 74.7 bits (182), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 76/145 (52%), Gaps = 2/145 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +V+P HG G +  I +++V G+  E++V+      M + VP     +IG+R + 
Sbjct: 2   FQIGDKVVHPMHGAGIVDSIVQKKVNGVMREYYVLKLPVRAMVVMVPTENCEEIGVRPIV 61

Query: 74  EAHFVERALKLVRGKARVKRTM-WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +    +R L  +    +V+ T  W+RR +E   +I SGDL  +A VV+ L   D Q   S
Sbjct: 62  DREQADRVLAAI-PDIQVEMTQNWNRRYRENMERIKSGDLFEVARVVKGLMLRDVQKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSIS 157
             ER++  SA   ++ EI    S S
Sbjct: 121 TGERKMLHSAKQILISEIVMCQSSS 145


>gi|302530715|ref|ZP_07283057.1| transcription regulator CarD [Streptomyces sp. AA4]
 gi|302439610|gb|EFL11426.1| transcription regulator CarD [Streptomyces sp. AA4]
          Length = 163

 Score = 74.7 bits (182), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 82/160 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRVIKGEEKKYLVLKVAQGDLTVRVPADNAEIVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDKVFDVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A      E +A  L++  L + +
Sbjct: 123 GEKRMLAKARQILVSELALAEGTDEGKAETLLDEVLETAT 162


>gi|172041356|ref|YP_001801070.1| putative transcription factor [Corynebacterium urealyticum DSM
           7109]
 gi|171852660|emb|CAQ05636.1| putative transcription factor [Corynebacterium urealyticum DSM
           7109]
          Length = 190

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 76/148 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+++E  G  +++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAQIEGIEQREFKGETVDYLVLRLYQGDLSVRVPAANAEKVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD   +AEVVRDL R D     S 
Sbjct: 63  GEEGLLKVFSVLRETDVEEAGNWSRRYKANQERLTSGDQNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A  + + + +A
Sbjct: 123 GEKRMLAKARQILVGELALADGVDDKKA 150


>gi|309389958|gb|ADO77838.1| transcriptional regulator, CarD family [Halanaerobium praevalens
           DSM 2228]
          Length = 168

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 73/145 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ +VYP HG GTI  I  + +   K E++++     +M + +PV K   IG+R + 
Sbjct: 2   YKIGDKVVYPNHGAGTIVGIDTKTILDEKKEYYIMKLPIGEMKVMIPVDKIDKIGIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +   +L+ G+       W+RR +    K+ +GD+  +AEVVR+L   D     S 
Sbjct: 62  SEEKADEVFELLDGEKSKMSQNWNRRFRANQEKLKTGDIFEVAEVVRNLSIRDRDKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
            E+++  +A   ++ E+     + E
Sbjct: 122 GEKKMLSNARQILISELVLAKDMDE 146


>gi|317123120|ref|YP_004103123.1| CarD family transcriptional regulator [Thermaerobacter marianensis
           DSM 12885]
 gi|315593100|gb|ADU52396.1| transcriptional regulator, CarD family [Thermaerobacter marianensis
           DSM 12885]
          Length = 190

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 78/169 (46%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+EV G +  ++V+      M + +P   A   G+R + 
Sbjct: 2   FEVGDRVVYPMHGAGVIEAIEEREVLGKRHRYYVLRLPVGDMRVMIPTTTASRCGLRPVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
            A  V   L  +   A      W+ R +E+  K+ +GD++ +A VVR+L     +   S 
Sbjct: 62  PAEQVPAVLDALGDPAPPMDPNWNHRYREHADKLRTGDVLEVAAVVRNLSARQRERGLSG 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
            ER+L + A   +V E+   + + +     L++  L   +        E
Sbjct: 122 GERRLLDQARQILVSELTLASGLDQAAVDALVDRCLEGGAGDGPGPFPE 170


>gi|327439855|dbj|BAK16220.1| transcriptional regulator, similar to M. xanthus CarD [Solibacillus
           silvestris StLB046]
          Length = 153

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 37/145 (25%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE+I+YP HG G I  ++E+E+ G K + ++I      M + +P+ K +   +R ++
Sbjct: 2   FQIGENIIYPMHGAGIIKAVEEKEILGEKQQCYIIKMSVGNMQITIPMDKILSSSIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L + +     +   W +R +    K+ +G ++  AEVVRDL R   +   + 
Sbjct: 62  DIIELKHILHIFQHGESDEVLPWRQRYKVNTDKVKTGKILECAEVVRDLMRMKEEKALNT 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++  +    ++ E+  +  I+E
Sbjct: 122 SEKEMLNNTHQFLISELGLIKGITE 146


>gi|312138097|ref|YP_004005433.1| card like transcriptional regulator [Rhodococcus equi 103S]
 gi|325674999|ref|ZP_08154686.1| CarD family transcriptional regulator [Rhodococcus equi ATCC 33707]
 gi|311887436|emb|CBH46748.1| CarD like transcriptional regulator [Rhodococcus equi 103S]
 gi|325554585|gb|EGD24260.1| CarD family transcriptional regulator [Rhodococcus equi ATCC 33707]
          Length = 162

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 84/160 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A      + +A  +++  L++ S
Sbjct: 123 GEKRMLAKARQILVGELALAEGTDDAKAEIILDEVLAAAS 162


>gi|257068115|ref|YP_003154370.1| transcriptional regulator, CarD family [Brachybacterium faecium DSM
           4810]
 gi|256558933|gb|ACU84780.1| transcriptional regulator, CarD family [Brachybacterium faecium DSM
           4810]
          Length = 160

 Score = 74.3 bits (181), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 45/158 (28%), Positives = 78/158 (49%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I E+K + + G    +  +   +  + ++VP      +G+R + 
Sbjct: 3   FAVGETVVYPHHGAALIEEVKTRTIKGEDRTYLKLKVAQGDLTIEVPADNVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++    ++R     + T WSRR +    K+ SGD+  +AEVVRDL R D     S 
Sbjct: 63  DKEGLDEVFDVLRQPYTEEPTNWSRRYKANVEKLASGDVKKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E  A ++++  L+S
Sbjct: 123 GEKRMLAKARQILVSELALAEKTDEGNAESILDEVLAS 160


>gi|311029189|ref|ZP_07707279.1| CarD family transcriptional regulator [Bacillus sp. m3-13]
          Length = 136

 Score = 74.3 bits (181), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 72/124 (58%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++VYP HGVG I +I+E+E++G K +++VI+     M + +P GK +   +R ++
Sbjct: 7   FKIGDNVVYPMHGVGIIKDIEEKEISGEKQQYYVISMLISNMQIMIPTGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G ++  AEVVRDL R   +   + 
Sbjct: 67  DIIALKHIMHIFQHGESDRLLPWKQRFKLNTEKIKTGKILEGAEVVRDLLRMKKEKALNS 126

Query: 134 SERQ 137
           SE++
Sbjct: 127 SEKK 130


>gi|194014646|ref|ZP_03053263.1| transcriptional regulator, CarD family [Bacillus pumilus ATCC 7061]
 gi|194013672|gb|EDW23237.1| transcriptional regulator, CarD family [Bacillus pumilus ATCC 7061]
          Length = 157

 Score = 74.3 bits (181), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 43/156 (27%), Positives = 82/156 (52%), Gaps = 2/156 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G  IVYP HG G I  ++E+E+ G   E+F+I      M + +P G+   +G+R+++
Sbjct: 2   FQIGNKIVYPMHGAGVIEGMEEKEILGKTEEYFLIQMPN--MQMMIPRGRINQLGIRQVA 59

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  +     +       W +R  E   K+ +G +   A+VV+DL R + +   + 
Sbjct: 60  DQATLKVVMNNFAEETNDDTLTWKQRYDENMKKLKTGAIEDGADVVKDLMRRNQKKALNS 119

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           SE+++ E A   +V EI+    +S+ E ++ +E  L
Sbjct: 120 SEKKMLEDARGMLVSEISLAQGLSQDEVLSALENEL 155


>gi|213965110|ref|ZP_03393308.1| transcriptional regulator, CarD family protein [Corynebacterium
           amycolatum SK46]
 gi|213952224|gb|EEB63608.1| transcriptional regulator, CarD family protein [Corynebacterium
           amycolatum SK46]
          Length = 191

 Score = 74.3 bits (181), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 74/145 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   I  I E+E+ G  +++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FSIGDTVVYPHHGAAKIENIIERELNGETVQYLVLQILQSDLNIQVPAKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLLKVFSVLRETDVEEAGNWSRRYKANQERLGSGDINKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
            E+++   A   +V E+A  + + E
Sbjct: 123 GEKRMLSKARQVLVGELALADGVDE 147


>gi|229819270|ref|YP_002880796.1| CarD family transcriptional regulator [Beutenbergia cavernae DSM
           12333]
 gi|229565183|gb|ACQ79034.1| transcriptional regulator, CarD family [Beutenbergia cavernae DSM
           12333]
          Length = 160

 Score = 74.3 bits (181), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 79/158 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I EI  + + G +  +  +   +  + ++VP      +G+R + 
Sbjct: 3   FNVGETVVYPHHGAALIEEISTRVIRGEEKLYLRLRVAQGDLTIEVPAENVDLVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D     S 
Sbjct: 63  GKEGLDKVFEVLRAPYTEEPTNWSRRYKANVEKIASGDVIKVAEVVRDLSRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A      E  A  +++  L+S
Sbjct: 123 GEKRMLARARQILVSELALAEKTEEDRAEAILDEVLAS 160


>gi|295394468|ref|ZP_06804691.1| CarD family transcriptional regulator [Brevibacterium mcbrellneri
           ATCC 49030]
 gi|294972647|gb|EFG48499.1| CarD family transcriptional regulator [Brevibacterium mcbrellneri
           ATCC 49030]
          Length = 175

 Score = 74.3 bits (181), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 42/143 (29%), Positives = 73/143 (51%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           ++R   +  F+ G+ +VYP HG  TI EIK + + G    +  +      + ++VP    
Sbjct: 9   RERGKNKMSFQVGDTVVYPHHGAATIQEIKTRTIKGEDKLYLKLQVSHGDLTIEVPAENC 68

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             +G+R +     +E+  +++R +   + T WSRR +    K  SGD+I +AEVVRDL R
Sbjct: 69  DLVGVRDVVGEEGLEKVFQVLRAEVTEEPTNWSRRYKANLEKFQSGDVIKVAEVVRDLWR 128

Query: 125 TDSQPEKSYSERQLYESALNRMV 147
            +     S  E+++   A   +V
Sbjct: 129 REQDRGLSTGEKRMLAKARQVLV 151


>gi|257456307|ref|ZP_05621504.1| transcription factor [Treponema vincentii ATCC 35580]
 gi|257446393|gb|EEV21439.1| transcription factor [Treponema vincentii ATCC 35580]
          Length = 198

 Score = 73.9 bits (180), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 67/139 (48%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   E +VYP  GVG I EI E++     L ++VI FD+  M + VP  KA ++G+R +
Sbjct: 5   SFTVKERVVYPGQGVGEIVEISEKKFKDEMLTYYVIYFDESDMTVLVPAMKAAELGIRTI 64

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             A   + AL  +  K     + W  R Q       +G ++  A +VR L+      E  
Sbjct: 65  VSADEAQAALAFLSEKFDPIPSDWKMRYQMNLDLFKTGSILDNASIVRSLYHRSKIKELP 124

Query: 133 YSERQLYESALNRMVREIA 151
             ER+LY+SA      E++
Sbjct: 125 IQERKLYDSAYRIFYDELS 143


>gi|157692393|ref|YP_001486855.1| transcription factor CarD [Bacillus pumilus SAFR-032]
 gi|157681151|gb|ABV62295.1| possible transcription factor CarD [Bacillus pumilus SAFR-032]
          Length = 158

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/156 (27%), Positives = 82/156 (52%), Gaps = 2/156 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  ++E+E+ G   E+F+I      M + +P G+   +G+R ++
Sbjct: 2   FQIGDKIVYPMHGAGVIEGMEEKEILGKTEEYFLIQMPN--MQMMIPRGRINQLGIRPVA 59

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  +     +       W +R  E   K+ +G +   A+VV+DL R + +   + 
Sbjct: 60  DQATLKVVMNNFAEETNDDTLTWKQRYDENLKKLKTGAIEDGADVVKDLMRRNQKKALNS 119

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           SE+++ E A   +V EI+    +S+ E ++ +E  L
Sbjct: 120 SEKKMLEDARGMLVSEISLAQGLSQDEVLSALENEL 155


>gi|300790484|ref|YP_003770775.1| CarD family transcriptional regulator [Amycolatopsis mediterranei
           U32]
 gi|299799998|gb|ADJ50373.1| CarD family transcriptional regulator [Amycolatopsis mediterranei
           U32]
          Length = 163

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 82/160 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRVIKGEEKKYLVLKVAQGDLTVRVPADNAEIVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDKVFDVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            E+++   A   +V E+A      E +A  L++  L + +
Sbjct: 123 GEKRMLAKARQILVSELALAEGTDEDKAEVLLDEVLETAT 162


>gi|154685003|ref|YP_001420164.1| YdeB [Bacillus amyloliquefaciens FZB42]
 gi|154350854|gb|ABS72933.1| YdeB [Bacillus amyloliquefaciens FZB42]
          Length = 153

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG GTI  I+E++    K +++VI      M + +P  K +   +R ++
Sbjct: 2   FQIGDNIVYPMHGAGTIEAIEEKQFLEEKQQYYVIRMSISNMTVMIPTRKILSSNIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     K   W +R      KI +G++   AEVVRDL R   +   + 
Sbjct: 62  DIRALKHIIHIFQHGESDKLLPWKQRYIVNTNKIKTGEIQEGAEVVRDLMRMKKEKALNS 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 122 SEKKMLDNAYEFLISELEVIKGITE 146


>gi|154497963|ref|ZP_02036341.1| hypothetical protein BACCAP_01943 [Bacteroides capillosus ATCC
           29799]
 gi|150272953|gb|EDN00110.1| hypothetical protein BACCAP_01943 [Bacteroides capillosus ATCC
           29799]
          Length = 158

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 41/138 (29%), Positives = 71/138 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IV+P HG G +  I  ++V G+  E++++      M + VP   + +IG+R + 
Sbjct: 2   FQVGDKIVHPMHGAGVVDSIVRKKVNGVVREYYILKLPVGGMLVMVPTEHSEEIGVRPVC 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +    +R L  +          W+RR +E   ++ SGDL+ +A VV+ L R D     S 
Sbjct: 62  QRDEADRVLAAIPDIEVDMTQNWNRRYRENMMRLKSGDLLEVARVVKGLMRRDEDRGLST 121

Query: 134 SERQLYESALNRMVREIA 151
            ER++  SA   ++ EI 
Sbjct: 122 GERKMLHSAKQILISEIV 139


>gi|116624660|ref|YP_826816.1| CarD family transcriptional regulator [Candidatus Solibacter
           usitatus Ellin6076]
 gi|116227822|gb|ABJ86531.1| transcriptional regulator, CarD family [Candidatus Solibacter
           usitatus Ellin6076]
          Length = 170

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/153 (27%), Positives = 77/153 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP  GVG I  I  +       +F+++ F    M + VP   A +IG+R+++
Sbjct: 4   FQIGDKVVYPNQGVGIIENISIRSFGSAFEKFYLLRFGCSSMTVLVPFSNAANIGLRRVT 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   + R L  +          W  R +E   K+ SGDL+  AEV + L +       S+
Sbjct: 64  KDREISRILSYLATGWCPLNPDWKVRFKENTDKMQSGDLLKAAEVFKVLLQLHVDKPLSF 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            E+++ + A + +V EI+   ++ E  A+ L++
Sbjct: 124 REKKMLDRARHMLVSEISIARNVPEIHAVGLMQ 156


>gi|319442432|ref|ZP_07991588.1| putative transcription factor [Corynebacterium variabile DSM 44702]
          Length = 194

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 78/152 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   +  I+++E  G  +++ V+   +  + +KVP   A  +G+R + 
Sbjct: 3   FNIGDVVVYPHHGAAEVKGIEQREFKGQSVDYLVLRILQGDLLVKVPAANAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLQKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNRVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E+++   A   +V E+A    + + ++  +I
Sbjct: 123 GEKRMLAKARQVLVGELALAEGVDDKKSDEVI 154


>gi|227500782|ref|ZP_03930831.1| transcription factor CarD [Anaerococcus tetradius ATCC 35098]
 gi|227217087|gb|EEI82445.1| transcription factor CarD [Anaerococcus tetradius ATCC 35098]
          Length = 159

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 40/153 (26%), Positives = 79/153 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+++E  G + ++F++      M + +P  K  D+ +R + 
Sbjct: 2   FKIGDKIVYPMHGAGIIDSIEKKEFLGEEKDYFILKMPIGDMDISIPTNKINDMNIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +R LK++  +     + W+ R ++    + +GD+  IA++VR+L   D     S 
Sbjct: 62  SKEEGDRVLKILDDEPSDMSSNWTVRYRQNQEILKTGDIFEIAKMVRNLAILDKDKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +E++L   +   +  E+    S+ + EA  +I+
Sbjct: 122 TEKKLLNRSRRILASELVMAGSLEKEEAEKMID 154


>gi|229175432|ref|ZP_04302945.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
 gi|228608040|gb|EEK65349.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
          Length = 164

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQIMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDGILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V ++SE +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEFLQ 159


>gi|328908150|gb|EGG27909.1| putative transcriptional regulator [Propionibacterium sp. P08]
          Length = 161

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 86/159 (54%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP      +G+R +
Sbjct: 3   FNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRILGQNDLVVRVPASNLDLVGVRDV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +E+  +++R     + + WSRR +    K++SG+++ +AEVVRDL R +     S
Sbjct: 63  VDDEGLEKVFEILRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRRERDRGLS 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A    + + +A  +++  L+S
Sbjct: 123 AGEKRMLSKARQILVSELALAKRVEDDQAEEMLDEVLAS 161


>gi|284043149|ref|YP_003393489.1| transcriptional regulator, CarD family [Conexibacter woesei DSM
           14684]
 gi|283947370|gb|ADB50114.1| transcriptional regulator, CarD family [Conexibacter woesei DSM
           14684]
          Length = 171

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/129 (28%), Positives = 71/129 (55%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HG G + + +++E+ G   E+  I    + M + VP   A   G+R++ 
Sbjct: 3   FEIGDNVVYPHHGAGKVLKKEDKEILGETREYLTIKILHNDMTVMVPTANAAVAGLRRVI 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   V++ L +++ +       W+RR +    KI +GD+  +AEVVR+L   +++   S 
Sbjct: 63  DEETVKKVLAVLQDECSDMPKNWNRRFKHNRDKIKTGDIYELAEVVRNLAIREAEKGLST 122

Query: 134 SERQLYESA 142
            E+Q++  A
Sbjct: 123 GEKQMFTRA 131


>gi|16077580|ref|NP_388394.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
           168]
 gi|81345932|sp|P96659|YDEB_BACSU RecName: Full=Uncharacterized protein ydeB
 gi|1881322|dbj|BAA19349.1| ydeB [Bacillus subtilis]
 gi|2632813|emb|CAB12320.1| putative transcriptional regulator [Bacillus subtilis subsp.
           subtilis str. 168]
          Length = 153

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E    K +++VI      M + +P  K +   +R ++
Sbjct: 2   FQIGDNIVYPMHGAGIIEAIEEKEFLEEKQQYYVIRMSISNMTVMIPTSKILSSNIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 62  DILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQEGAEVVRDLMRMKKEKALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 122 SEKKMLDNAYEFLISELEVIKGITE 146


>gi|313835593|gb|EFS73307.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL037PA2]
 gi|314928689|gb|EFS92520.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL044PA1]
 gi|314970294|gb|EFT14392.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL037PA3]
          Length = 181

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 86/159 (54%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP      +G+R +
Sbjct: 23  FNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRILGQNDLVVRVPASNLDLVGVRDV 82

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +E+  +++R     + + WSRR +    K++SG+++ +AEVVRDL R +     S
Sbjct: 83  VDDEGLEKVFEILRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRRERDRGLS 142

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A    + + +A  +++  L+S
Sbjct: 143 AGEKRMLSKARQILVSELALAKRVEDDQAEEMLDEVLAS 181


>gi|221308340|ref|ZP_03590187.1| hypothetical protein Bsubs1_02893 [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221312662|ref|ZP_03594467.1| hypothetical protein BsubsN3_02869 [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221317585|ref|ZP_03598879.1| hypothetical protein BsubsJ_02828 [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221321861|ref|ZP_03603155.1| hypothetical protein BsubsS_02899 [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|291482932|dbj|BAI84007.1| hypothetical protein BSNT_00885 [Bacillus subtilis subsp. natto
           BEST195]
          Length = 158

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E    K +++VI      M + +P  K +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFLEEKQQYYVIRMSISNMTVMIPTSKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQEGAEVVRDLMRMKKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELEVIKGITE 151


>gi|302870278|ref|YP_003838915.1| transcription factor CarD [Micromonospora aurantiaca ATCC 27029]
 gi|315503446|ref|YP_004082333.1| transcriptional regulator, card family [Micromonospora sp. L5]
 gi|302573137|gb|ADL49339.1| transcription factor CarD [Micromonospora aurantiaca ATCC 27029]
 gi|315410065|gb|ADU08182.1| transcriptional regulator, CarD family [Micromonospora sp. L5]
          Length = 161

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I  I+ + + G   E+ V+   +  + ++VP   A  +G+R++ 
Sbjct: 3   FSVGETVVYPHHGAALIEAIETRVIKGEPREYLVLRVAQGDLTVRVPAENAEIVGVREVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     + T WSRR +    K+ SG+ + +AEVVRDL R + +   S 
Sbjct: 63  GEEGLGKVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            E+++   A + +V E+A     ++ EA  L++  L+
Sbjct: 123 GEKRMLAKARDILVGEVALAEKSTKDEAETLLDKVLT 159


>gi|227489404|ref|ZP_03919720.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51867]
 gi|227540998|ref|ZP_03971047.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51866]
 gi|227090582|gb|EEI25894.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51867]
 gi|227183258|gb|EEI64230.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51866]
          Length = 193

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 73/145 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   + + +++E  G   +F V+      + ++VPV  A  +G+R + 
Sbjct: 3   FNVGDIVVYPHHGAAEVAKTEQREHKGEMTDFLVLKILHSDLVVRVPVANAEYVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GKEGLEKVFGMLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
            E+++   A   +V E+A    + +
Sbjct: 123 GEKRMLAKARQILVGELALAGPVDD 147


>gi|320538285|ref|ZP_08038170.1| CarD-like transcriptional regulator [Treponema phagedenis F0421]
 gi|320144861|gb|EFW36592.1| CarD-like transcriptional regulator [Treponema phagedenis F0421]
          Length = 205

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/156 (30%), Positives = 74/156 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYP  GVG ITEI ++E     L+++VI  +   M + VPV +A ++G+R + 
Sbjct: 7   FAVNQKVVYPGQGVGEITEICKKEFKEEMLQYYVIYLEDSDMTMMVPVMRAEELGIRTIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                E AL  +  +       W  R Q       SG ++  + +VR L+      E   
Sbjct: 67  SKKDAESALDFLSKEVEQGPLDWKMRYQMNLDLFKSGGVLDNSTIVRSLYHRSKIKELPI 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
            ER+LY+SA      EI+A   + + E  +LI   L
Sbjct: 127 QERKLYDSAYRIFEDEISAALGLPQNEIKSLIHTYL 162


>gi|256372655|ref|YP_003110479.1| CarD family transcriptional regulator [Acidimicrobium ferrooxidans
           DSM 10331]
 gi|256009239|gb|ACU54806.1| transcriptional regulator, CarD family [Acidimicrobium ferrooxidans
           DSM 10331]
          Length = 159

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 74/149 (49%), Gaps = 2/149 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   IT  +  E  G   E+FV+      + +++PV    ++G+R++ 
Sbjct: 3   FDVGDKVVYPQHGAAVITGREVVEAFGEAKEYFVVTVAYGDLTVRLPVDAVDEVGLREVI 62

Query: 74  EAHFVERALKLVRGKARVKRTM-WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               VE     V GK  V+    WSRR + +  K+ SGD+  +AEVVR+L   D     S
Sbjct: 63  NDEEVEEVFA-VLGKKDVRMPANWSRRYKNHLEKVKSGDIYQVAEVVRNLTLRDHDKGLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
             ER++   A   +V E+     ++  EA
Sbjct: 122 AGERRMLAKARQVLVSELTFALDVAPEEA 150


>gi|297627026|ref|YP_003688789.1| CarD family transcriptional regulator [Propionibacterium
           freudenreichii subsp. shermanii CIRM-BIA1]
 gi|296922791|emb|CBL57369.1| transcriptional regulator CarD [Propionibacterium freudenreichii
           subsp. shermanii CIRM-BIA1]
          Length = 161

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 43/159 (27%), Positives = 83/159 (52%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I + + +++ G    + V+    +  + ++VP      +G+R +
Sbjct: 3   FTVGETVVYPNHGAAVIEDTETRKIKGEDTLYLVLRILGQTDLVVRVPACNLDLVGVRDV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +E+   ++R     + T WSRR +    K++SGD++ ++EVVRDL R + +   S
Sbjct: 63  VDEEGLEKVFSVLRAPHTEEPTNWSRRYKANLEKLHSGDVMKVSEVVRDLWRREKERGLS 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A    + E  A  +++  L+S
Sbjct: 123 AGEKRMLAKARQILVSELALAEKVEEERAEVMLDEVLAS 161


>gi|47565141|ref|ZP_00236184.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
 gi|47557927|gb|EAL16252.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
          Length = 162

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 5   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 64

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 65  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 124

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SE+Q+ ++A   M+ E+A V ++SE +A
Sbjct: 125 SEKQMLDNARKMMISEVALVQNVSEHQA 152


>gi|324328612|gb|ADY23872.1| transcriptional regulator, CarD family protein [Bacillus
           thuringiensis serovar finitimus YBT-020]
          Length = 159

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 2   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 62  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SE+Q+ ++A   M+ E+A V ++SE +A
Sbjct: 122 SEKQMLDNARKMMISEVALVQNVSEHQA 149


>gi|229158326|ref|ZP_04286393.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
 gi|228625284|gb|EEK82044.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
          Length = 164

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SE+Q+ ++A   M+ E+A V ++SE +A
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQA 154


>gi|94264420|ref|ZP_01288210.1| Transcription factor CarD [delta proteobacterium MLMS-1]
 gi|93455177|gb|EAT05395.1| Transcription factor CarD [delta proteobacterium MLMS-1]
          Length = 166

 Score = 72.0 bits (175), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 81/146 (55%), Gaps = 3/146 (2%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           D     F+ G+  VYPAHGVG I  I+ ++V  ++  F+VI   +  M + +P     ++
Sbjct: 2   DVALDTFQVGDMAVYPAHGVGRIESIESRQVGELEQSFYVIRIVESNMTVMIPTKSCNNV 61

Query: 68  GMRKLSEAHFVERALKLV--RGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
           G+R +     V++   ++  RG   V +  W++R +EY  +I +G +  IA V+RDL   
Sbjct: 62  GLRNIICPGDVKQVFAILGERGLEMVSQP-WNQRYREYTNRIKTGSVFEIAAVLRDLLLL 120

Query: 126 DSQPEKSYSERQLYESALNRMVREIA 151
            +  E S+ ER++ E+A   +++EIA
Sbjct: 121 RADKELSFGERKMVETARGLLIKEIA 146


>gi|311066998|ref|YP_003971921.1| putative transcriptional regulator [Bacillus atrophaeus 1942]
 gi|310867515|gb|ADP30990.1| putative transcriptional regulator [Bacillus atrophaeus 1942]
          Length = 153

 Score = 72.0 bits (175), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 78/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +  K +++VI      M + +P  K +   +R ++
Sbjct: 2   FQIGDNIVYPMHGAGIIEAIEEKEYSEEKQQYYVIKMSISNMQVMIPTRKILSSSIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 62  DILALKHIIHIFQHGESDRLLPWKQRYKVNTNKIKTGEIQEGAEVVRDLMRMKKEKALNS 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 122 SEKKMLDNAYEFLISELEVIKGITE 146


>gi|42783903|ref|NP_981150.1| CarD family transcriptional regulator [Bacillus cereus ATCC 10987]
 gi|206977288|ref|ZP_03238185.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217962204|ref|YP_002340774.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|228987970|ref|ZP_04148076.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
 gi|229141451|ref|ZP_04269988.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|42739833|gb|AAS43758.1| transcriptional regulator, CarD family [Bacillus cereus ATCC 10987]
 gi|206744439|gb|EDZ55849.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217066173|gb|ACJ80423.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|228642014|gb|EEK98308.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|228771774|gb|EEM20234.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
          Length = 164

 Score = 72.0 bits (175), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SE+Q+ ++A   M+ E+A V ++SE +A
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQA 154


>gi|282853418|ref|ZP_06262755.1| CarD-like protein [Propionibacterium acnes J139]
 gi|282582871|gb|EFB88251.1| CarD-like protein [Propionibacterium acnes J139]
          Length = 161

 Score = 72.0 bits (175), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 85/159 (53%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP      +G+R +
Sbjct: 3   FNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRVLGQNDLVVRVPASNLDLVGVRDV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +E   +++R     + + WSRR +    K++SG+++ +AEVVRDL R +     S
Sbjct: 63  VDDEGLENVFEVLRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRRERDRGLS 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A    +++  A  +++  L+S
Sbjct: 123 AGEKRMLSKARQILVSELALAKKVADDRAEEMLDEVLAS 161


>gi|299144435|ref|ZP_07037515.1| transcriptional regulator, CarD family [Peptoniphilus sp. oral
           taxon 386 str. F0131]
 gi|298518920|gb|EFI42659.1| transcriptional regulator, CarD family [Peptoniphilus sp. oral
           taxon 386 str. F0131]
          Length = 161

 Score = 72.0 bits (175), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 45/154 (29%), Positives = 82/154 (53%), Gaps = 1/154 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+++E+ G   +++++    + M + VPV  A ++G+R++ 
Sbjct: 2   FDIGDKVVYPMHGAGVIVAIEDREILGEIRKYYILKMPINDMKVMVPVENADEVGVREIL 61

Query: 74  EAHFVERALKLVRGKARVKRTM-WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +   +   L+++           W+RR +    +I SG++  IA+VVR L R DS+   S
Sbjct: 62  DEDKMNLVLEVLSCNEITNMPKNWNRRYRFNMDRIKSGNIEEIAKVVRCLERLDSKKSLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             ER++   A   +V E+  V + S  E   L++
Sbjct: 122 TGERKMLNGAKQIIVSEMVLVYNKSVEEITELVD 155


>gi|317128335|ref|YP_004094617.1| transcriptional regulator, CarD family [Bacillus cellulosilyticus
           DSM 2522]
 gi|315473283|gb|ADU29886.1| transcriptional regulator, CarD family [Bacillus cellulosilyticus
           DSM 2522]
          Length = 163

 Score = 72.0 bits (175), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 85/160 (53%), Gaps = 7/160 (4%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+H+VYP HG GTI +I+E+++ G KL ++V+ F  + + L +P  +    G+RK+ 
Sbjct: 2   FNVGDHVVYPYHGAGTIKDIEEKDILGEKLNYYVVFFPLNHVTLMLPENRIKSSGLRKII 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSR-RAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +   +E  +  ++      +   +R  ++E +  + SG +I  A V+ +L  T  + E++
Sbjct: 62  QPKQIEEVVTAMQPTEYASKKEAARPYSKENETLLKSGSIIDAAMVIANL--TSKEGERT 119

Query: 133 ----YSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
                 +R+  + A   +V E+  V +ISE EA   I  N
Sbjct: 120 NGLHMEDRKNLDRAKQFIVSELMLVKNISEEEAYQFINEN 159


>gi|256828487|ref|YP_003157215.1| CarD family transcriptional regulator [Desulfomicrobium baculatum
           DSM 4028]
 gi|256577663|gb|ACU88799.1| transcriptional regulator, CarD family [Desulfomicrobium baculatum
           DSM 4028]
          Length = 176

 Score = 72.0 bits (175), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 46/144 (31%), Positives = 77/144 (53%), Gaps = 9/144 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   E +VYPA GVG +  I+ QE+ G+  E  ++    + + L VPV  A ++G+R + 
Sbjct: 2   FSVDELVVYPAQGVGKVERIETQEIGGVATELIIVRILSNNVTLMVPVKNARNVGLRGV- 60

Query: 74  EAHFVERALKL-VRGKARVKRT-----MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             +  E+A ++ V  + R   T      W+RR +EY  K+ S DL  +A V+++L     
Sbjct: 61  --YTPEQADEIRVYLQDRTDFTGYSGQNWNRRYREYSEKLKSSDLRDVAYVLKELILIGK 118

Query: 128 QPEKSYSERQLYESALNRMVREIA 151
             E S+ ER+L E A+  +  E++
Sbjct: 119 DKELSFGERRLLEQAMGLISLELS 142


>gi|321314162|ref|YP_004206449.1| putative transcriptional regulator [Bacillus subtilis BSn5]
 gi|320020436|gb|ADV95422.1| putative transcriptional regulator [Bacillus subtilis BSn5]
          Length = 158

 Score = 71.6 bits (174), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 77/145 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E    K +++VI      M + +P  K +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIEAIEEKEFLEEKQQYYVIRMSISNMTVMIPTRKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQEGAEVVRDLMRMKKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELEVIKGITE 151


>gi|145596771|ref|YP_001161068.1| transcription factor CarD [Salinispora tropica CNB-440]
 gi|159040183|ref|YP_001539436.1| CarD family transcriptional regulator [Salinispora arenicola
           CNS-205]
 gi|145306108|gb|ABP56690.1| transcriptional regulator, CarD family [Salinispora tropica
           CNB-440]
 gi|157919018|gb|ABW00446.1| transcriptional regulator, CarD family [Salinispora arenicola
           CNS-205]
          Length = 161

 Score = 71.6 bits (174), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 83/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R++ 
Sbjct: 3   FSVGETVVYPHHGAALIEAIETRVIKGEEKQYLVLRVAQGDLTVRVPAENAEIVGVREVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     + T WSRR +    K+ SG+ + +AEVVRDL R + +   S 
Sbjct: 63  GEEGLGKVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            E+++   A + +V E+A     ++ EA  L++  L+
Sbjct: 123 GEKRMLAKARDILVGEVALAEKSTKDEAETLLDKVLT 159


>gi|325000162|ref|ZP_08121274.1| CarD family transcriptional regulator [Pseudonocardia sp. P1]
          Length = 163

 Score = 71.6 bits (174), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 44/161 (27%), Positives = 84/161 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G ++++ V+   +  + +++P      +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRTIKGEEVQYLVLKVQQGDLTVRIPADNVEVVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     S 
Sbjct: 63  GQEGLDRVFEVLRAPHTEEPTNWSRRYKANWEKLTSGDVNKVAEVVRDLWRREKDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+++   A   +V E+A      E  A  L++  L++ ++
Sbjct: 123 GEKRMLGKARQILVSELALAEGTDEERAEVLLDEVLATATA 163


>gi|50841843|ref|YP_055070.1| putative transcriptional regulator [Propionibacterium acnes
           KPA171202]
 gi|289424334|ref|ZP_06426117.1| CarD-like protein [Propionibacterium acnes SK187]
 gi|289428813|ref|ZP_06430493.1| CarD-like protein [Propionibacterium acnes J165]
 gi|295129919|ref|YP_003580582.1| CarD-like protein [Propionibacterium acnes SK137]
 gi|50839445|gb|AAT82112.1| putative transcriptional regulator [Propionibacterium acnes
           KPA171202]
 gi|289155031|gb|EFD03713.1| CarD-like protein [Propionibacterium acnes SK187]
 gi|289157814|gb|EFD06037.1| CarD-like protein [Propionibacterium acnes J165]
 gi|291375973|gb|ADD99827.1| CarD-like protein [Propionibacterium acnes SK137]
 gi|313765551|gb|EFS36915.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL013PA1]
 gi|313772900|gb|EFS38866.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL074PA1]
 gi|313793078|gb|EFS41145.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA1]
 gi|313802474|gb|EFS43696.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA2]
 gi|313806489|gb|EFS44996.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL087PA2]
 gi|313811040|gb|EFS48754.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL083PA1]
 gi|313814459|gb|EFS52173.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL025PA1]
 gi|313815048|gb|EFS52762.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL059PA1]
 gi|313817358|gb|EFS55072.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL046PA2]
 gi|313821898|gb|EFS59612.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL036PA1]
 gi|313824206|gb|EFS61920.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL036PA2]
 gi|313826574|gb|EFS64288.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL063PA1]
 gi|313828758|gb|EFS66472.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL063PA2]
 gi|313831803|gb|EFS69517.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL007PA1]
 gi|313834653|gb|EFS72367.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL056PA1]
 gi|313840116|gb|EFS77830.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL086PA1]
 gi|314915809|gb|EFS79640.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA4]
 gi|314917081|gb|EFS80912.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL050PA1]
 gi|314921357|gb|EFS85188.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL050PA3]
 gi|314922287|gb|EFS86118.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL001PA1]
 gi|314926712|gb|EFS90543.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL036PA3]
 gi|314931320|gb|EFS95151.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL067PA1]
 gi|314954856|gb|EFS99262.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL027PA1]
 gi|314958792|gb|EFT02894.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL002PA1]
 gi|314961081|gb|EFT05182.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL002PA2]
 gi|314964491|gb|EFT08591.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL082PA1]
 gi|314965395|gb|EFT09494.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL082PA2]
 gi|314969590|gb|EFT13688.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL037PA1]
 gi|314974656|gb|EFT18751.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL053PA1]
 gi|314977148|gb|EFT21243.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL045PA1]
 gi|314980436|gb|EFT24530.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL072PA2]
 gi|314982506|gb|EFT26599.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA3]
 gi|314985754|gb|EFT29846.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA1]
 gi|314987277|gb|EFT31368.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA2]
 gi|314989179|gb|EFT33270.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA3]
 gi|315078494|gb|EFT50525.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL053PA2]
 gi|315082043|gb|EFT54019.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL078PA1]
 gi|315082817|gb|EFT54793.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL027PA2]
 gi|315086173|gb|EFT58149.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL002PA3]
 gi|315087758|gb|EFT59734.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL072PA1]
 gi|315091050|gb|EFT63026.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA4]
 gi|315094138|gb|EFT66114.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL060PA1]
 gi|315097488|gb|EFT69464.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL038PA1]
 gi|315099939|gb|EFT71915.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL059PA2]
 gi|315101748|gb|EFT73724.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL046PA1]
 gi|315104787|gb|EFT76763.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL050PA2]
 gi|315106406|gb|EFT78382.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL030PA1]
 gi|315110296|gb|EFT82272.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL030PA2]
 gi|327329340|gb|EGE71100.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL103PA1]
 gi|327331426|gb|EGE73165.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL096PA2]
 gi|327333413|gb|EGE75133.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL096PA3]
 gi|327334936|gb|EGE76647.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL097PA1]
 gi|327445569|gb|EGE92223.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL013PA2]
 gi|327447189|gb|EGE93843.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL043PA1]
 gi|327449777|gb|EGE96431.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL043PA2]
 gi|327454626|gb|EGF01281.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL087PA3]
 gi|327456698|gb|EGF03353.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL083PA2]
 gi|327457026|gb|EGF03681.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL092PA1]
 gi|328755681|gb|EGF69297.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL087PA1]
 gi|328756461|gb|EGF70077.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL025PA2]
 gi|328758809|gb|EGF72425.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL020PA1]
 gi|328761841|gb|EGF75353.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL099PA1]
 gi|332674759|gb|AEE71575.1| putative transcriptional regulator [Propionibacterium acnes 266]
          Length = 161

 Score = 71.6 bits (174), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 85/159 (53%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP      +G+R +
Sbjct: 3   FNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRILGQNDLVVRVPASNLDLVGVRDV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +E   +++R     + + WSRR +    K++SG+++ +AEVVRDL R +     S
Sbjct: 63  VDDEGLENVFEVLRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRRERDRGLS 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             E+++   A   +V E+A    +++  A  +++  L+S
Sbjct: 123 AGEKRMLSKARQILVSELALAKKVADDRAEEMLDEVLAS 161


>gi|301056223|ref|YP_003794434.1| CarD-like transcriptional regulator [Bacillus anthracis CI]
 gi|300378392|gb|ADK07296.1| CarD-like transcriptional regulator [Bacillus cereus biovar
           anthracis str. CI]
          Length = 159

 Score = 71.6 bits (174), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 2   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 62  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SE+Q+ ++A   M+ E+A V ++SE +A
Sbjct: 122 SEKQMLDNARKMMISEVALVQNVSEHQA 149


>gi|52140791|ref|YP_086042.1| CarD family transcriptional regulator [Bacillus cereus E33L]
 gi|222098186|ref|YP_002532243.1| transcriptional regulator, card family [Bacillus cereus Q1]
 gi|228917367|ref|ZP_04080920.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|229032373|ref|ZP_04188344.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|229198880|ref|ZP_04325571.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
 gi|51974260|gb|AAU15810.1| transcriptional regulator, CarD family [Bacillus cereus E33L]
 gi|221242244|gb|ACM14954.1| transcriptional regulator, CarD family [Bacillus cereus Q1]
 gi|228584583|gb|EEK42710.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
 gi|228728936|gb|EEL79941.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|228842294|gb|EEM87389.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
          Length = 164

 Score = 71.2 bits (173), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SE+Q+ ++A   M+ E+A V ++SE +A
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQA 154


>gi|238061419|ref|ZP_04606128.1| CarD family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|330470463|ref|YP_004408206.1| transcriptional regulator, card family protein [Verrucosispora
           maris AB-18-032]
 gi|237883230|gb|EEP72058.1| CarD family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|328813434|gb|AEB47606.1| transcriptional regulator, card family protein [Verrucosispora
           maris AB-18-032]
          Length = 161

 Score = 71.2 bits (173), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYP HG   I  I+ + + G   ++ V+   +  + ++VP   A  +G+R++ 
Sbjct: 3   FSVGETVVYPHHGAALIEAIETRVIKGEPKQYLVLRVAQGDLTVRVPAENAEIVGVREVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     + T WSRR +    K+ SG+ + +AEVVRDL R + +   S 
Sbjct: 63  GEEGLGKVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRERERGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            E+++   A + +V E+A     ++ EA  L++  L+
Sbjct: 123 GEKRMLAKARDILVGEVALAEKSTKDEAETLLDKVLT 159


>gi|49481535|ref|YP_038761.1| CarD family transcriptional regulator [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|118479850|ref|YP_897001.1| CarD family transcriptional regulator [Bacillus thuringiensis str.
           Al Hakam]
 gi|196032819|ref|ZP_03100232.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196040853|ref|ZP_03108151.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|196043838|ref|ZP_03111075.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|218905945|ref|YP_002453779.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225866704|ref|YP_002752082.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|228929769|ref|ZP_04092786.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228936026|ref|ZP_04098836.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228948465|ref|ZP_04110747.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|229093818|ref|ZP_04224917.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|229124284|ref|ZP_04253475.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|229186972|ref|ZP_04314126.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|49333091|gb|AAT63737.1| transcriptional regulator, CarD family [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|118419075|gb|ABK87494.1| transcriptional regulator, CarD family [Bacillus thuringiensis str.
           Al Hakam]
 gi|195994248|gb|EDX58203.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196025174|gb|EDX63844.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|196028307|gb|EDX66916.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|218538565|gb|ACK90963.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225788519|gb|ACO28736.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|228596526|gb|EEK54192.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|228659185|gb|EEL14834.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|228689703|gb|EEL43511.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|228811224|gb|EEM57563.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|228823794|gb|EEM69616.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228829948|gb|EEM75568.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
          Length = 164

 Score = 71.2 bits (173), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 78/148 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SE+Q+ ++A   M+ E+A V ++SE +A
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQA 154


>gi|225620858|ref|YP_002722116.1| transcriptional regulator [Brachyspira hyodysenteriae WA1]
 gi|225215678|gb|ACN84412.1| Transcriptional regulator [Brachyspira hyodysenteriae WA1]
          Length = 194

 Score = 70.9 bits (172), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 39/138 (28%), Positives = 71/138 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++   ++VYP +G+  +  I + +V    +E +V+  + + + LKVP+ +  +  +RK+ 
Sbjct: 2   YKLNTYVVYPMYGICKVVGISDNKVNSNLVECYVLECESENITLKVPINRVKEYRIRKII 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L +++ K       W  R QE + K+ SGD+    EV R L   +   E S 
Sbjct: 62  SKAEADNLLNILQTKPHDIENNWKIRYQENEEKLRSGDIKDTIEVARSLFTRNKLKELSA 121

Query: 134 SERQLYESALNRMVREIA 151
           SE++LYE A   +V EI+
Sbjct: 122 SEKRLYEKAYMFIVNEIS 139


>gi|150016433|ref|YP_001308687.1| CarD family transcriptional regulator [Clostridium beijerinckii
           NCIMB 8052]
 gi|149902898|gb|ABR33731.1| transcriptional regulator, CarD family [Clostridium beijerinckii
           NCIMB 8052]
          Length = 159

 Score = 70.9 bits (172), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 84/158 (53%), Gaps = 1/158 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP  G+GT+  I+ +  +G   E+ ++    + + + +P  KA +  +RK+ 
Sbjct: 2   FLIGDKVVYPMQGIGTVERIENKIFSGNTKEYIIVKITSNNLEIMIPSDKASNSNLRKVC 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSR-RAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +   ++  L  +  K+       S+ R Q    KI SG L   AEVV DL   + +   S
Sbjct: 62  DNSTLDHILLTLENKSSEFELASSKERYQANAKKIRSGLLKDSAEVVYDLILMNKKKSLS 121

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            SE+QL+ +A   +V E++ + +ISE EA + + +NL+
Sbjct: 122 SSEKQLFNTAYKFLVEEVSVIKNISEIEATSFLNLNLN 159


>gi|332970720|gb|EGK09700.1| CarD family transcriptional regulator [Desmospora sp. 8437]
          Length = 168

 Score = 70.5 bits (171), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 88/168 (52%), Gaps = 3/168 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G I  I+E+E+ G    ++V+      M + +P+ K   IG+R++ 
Sbjct: 2   FNIGDKVVYPMHGAGIIEAIEEKEILGESQRYYVMRMPVGDMKVMIPMSKVDSIGLREVV 61

Query: 74  EAHFVERAL-KLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +   +   + +L  G A V    W+RR +    K+ SGD+  +A+VVR L   D +   S
Sbjct: 62  DEKTISEVIERLANGSAEVSSN-WNRRYRANLDKMKSGDIHDLADVVRCLMLRDKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLI-EVNLSSKSSKTEKS 179
             ER++ ++A   ++ E+     + E +A  L+ E+ LS    + E++
Sbjct: 121 TGERKMLDNARQILISELVLAKEMEESQAFGLLDEIILSESKPRVERA 168


>gi|300870668|ref|YP_003785539.1| CarD family transcriptional regulator [Brachyspira pilosicoli
           95/1000]
 gi|300688367|gb|ADK31038.1| transcriptional regulator, CarD family [Brachyspira pilosicoli
           95/1000]
          Length = 191

 Score = 70.5 bits (171), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 40/138 (28%), Positives = 71/138 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++   ++VYP +G+  +  I + +V    +E +V+  + + + LKVP+ +  +  +RK+ 
Sbjct: 2   YKVNSYVVYPMYGICKVIGIADNKVNSSVVECYVLECEGENITLKVPINRVKEYRIRKII 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                E  L L++ K       W  R QE + K+ SG++    EV R L   +   E S 
Sbjct: 62  SKAEAENFLNLLQTKPHDIENNWKIRYQENEEKLRSGEIKDTIEVARSLFTRNKLKELSA 121

Query: 134 SERQLYESALNRMVREIA 151
           SE++LYE A   +V EI+
Sbjct: 122 SEKRLYEKAYMFIVNEIS 139


>gi|38234538|ref|NP_940305.1| putative CarD-like transcriptional factor [Corynebacterium
           diphtheriae NCTC 13129]
 gi|38200801|emb|CAE50505.1| Putative CarD-like transcriptional factor [Corynebacterium
           diphtheriae]
          Length = 193

 Score = 70.5 bits (171), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/171 (28%), Positives = 87/171 (50%), Gaps = 4/171 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG   I  I+ +E+ G  LE+ V+  ++  + ++VP   A  +G+R + 
Sbjct: 3   FKVGDTVVYPHHGAAVIEAIEHREMGGETLEYLVLQINQSDLVVRVPSKNAELVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +++    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  DDDGLQKVFGFLRETDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGKGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
            E+++   A   +V E+A   +  E +     E  L+   +  E+  +EN+
Sbjct: 123 GEKRMLAKARQVLVGELALAENKDEKQT----EEILAQVDATIERHRAENK 169


>gi|237784959|ref|YP_002905664.1| putative transcription factor [Corynebacterium kroppenstedtii DSM
           44385]
 gi|237757871|gb|ACR17121.1| putative transcription factor [Corynebacterium kroppenstedtii DSM
           44385]
          Length = 196

 Score = 70.1 bits (170), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 39/148 (26%), Positives = 76/148 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   I + +++++ G  +++ V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FNIGDTVVYPHHGAAVIEKKEQRQIKGETVDYLVLKVHQGDLTVRVPEKNAESVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     S 
Sbjct: 63  GEEGLLKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
            E+++   A   +V E+A  +   + +A
Sbjct: 123 GEKRMLAKARQVLVGELALADGTDDAKA 150


>gi|297566998|ref|YP_003685970.1| CarD family transcriptional regulator [Meiothermus silvanus DSM
           9946]
 gi|296851447|gb|ADH64462.1| transcriptional regulator, CarD family [Meiothermus silvanus DSM
           9946]
          Length = 163

 Score = 70.1 bits (170), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 74/148 (50%), Gaps = 2/148 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  GE +VYPAHG G I  + E+ V G K  ++V+        + VPVG A    +R   
Sbjct: 2   FAIGEAVVYPAHGAGRIVGLDERSVLGEKRIYYVLELLGQAHTVMVPVGVA-QACLRPPL 60

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VER L  ++ + ++  T+W +R +E +  + SGD   +A +   L R       S 
Sbjct: 61  AGAAVERLLDELKTEVKLP-TIWMQRHREEEKILASGDPYQVAALAGTLFRYQRGKTLSL 119

Query: 134 SERQLYESALNRMVREIAAVNSISEPEA 161
           SER ++E AL  +  E+A +  +S  EA
Sbjct: 120 SERGVFEKALAMLASELALIWGVSLDEA 147


>gi|89893788|ref|YP_517275.1| hypothetical protein DSY1042 [Desulfitobacterium hafniense Y51]
 gi|219668161|ref|YP_002458596.1| CarD family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|89333236|dbj|BAE82831.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219538421|gb|ACL20160.1| transcriptional regulator, CarD family [Desulfitobacterium
           hafniense DCB-2]
          Length = 161

 Score = 70.1 bits (170), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 43/154 (27%), Positives = 80/154 (51%), Gaps = 2/154 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ I YP +G G I  IKE+EV G K  ++ +     K+ + +P+ +  DIG+R++ 
Sbjct: 2   FQVGDKIFYPLYGAGIIEAIKEKEVLGKKQFYYFLNIPHIKLKIMIPIERTHDIGIREVV 61

Query: 74  EAHFVERAL-KLVRGKARVKRTMWSRRAQEYD-AKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +   ++  L  L  G          R  ++ + +KI +GD+    EV+RDL R     + 
Sbjct: 62  KPDVLQHVLDDLYNGTTDPLSDNNQRYRRDMNKSKIKTGDIYKGTEVIRDLMRKSKVKKL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           S  ++ + E+AL  +  E   V  + + +A++L+
Sbjct: 122 SAEDKAMLENALQILTSEFIQVRGVCKEQAVHLL 155


>gi|325478954|gb|EGC82056.1| CarD-like protein [Anaerococcus prevotii ACS-065-V-Col13]
          Length = 159

 Score = 69.3 bits (168), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/153 (26%), Positives = 76/153 (49%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG GTI  I+++E  G   ++F++      M + +P  K  D+ +R + 
Sbjct: 2   FKIGDKIVYPMHGAGTIDSIEKKEFLGEVKDYFILKMPIGDMDISIPTSKINDMNIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                ++ LK++          W+ R ++    + +GD+  IA +VR+L   D     S 
Sbjct: 62  TKEEGDKVLKILDEDPSDMSENWTTRYRQNQEILKTGDVYEIARMVRNLAILDKDKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +E++L   +   +  E+    S+ + EA  +I+
Sbjct: 122 TEKKLLNRSRRILASELVMAGSLDKEEAEAMID 154


>gi|56962605|ref|YP_174331.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56908843|dbj|BAD63370.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 153

 Score = 68.9 bits (167), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/145 (26%), Positives = 76/145 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E ++   K ++++I    + M + +P  K ++  +R ++
Sbjct: 2   FQIGDNIVYPMHGAGVIEAIEEIDLLEEKQQYYIIKMSINNMKVMIPTSKIVNSRIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +         W +R +    KI  G++   AEVVRDL R   +   + 
Sbjct: 62  DILAINHIIHIFQHGESDTLLPWKQRYKVNADKIKMGEMQEGAEVVRDLRRIKKEKTLNT 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE++L ++A   ++ E+  V  I++
Sbjct: 122 SEKELLDNAYEFLLSELEVVKGITD 146


>gi|325845929|ref|ZP_08169127.1| CarD-like protein [Anaerococcus hydrogenalis ACS-025-V-Sch4]
 gi|325481835|gb|EGC84867.1| CarD-like protein [Anaerococcus hydrogenalis ACS-025-V-Sch4]
          Length = 159

 Score = 68.9 bits (167), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/153 (26%), Positives = 73/153 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  ++ +E  G + E+F++      M + +P      + +R + 
Sbjct: 2   FKIGDKIVYPMHGAGVIDSVETKEFLGEEKEYFILKMPIGNMDISIPKSNINKMNIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                E+ L ++  K       W+ R +E    + +GD+  IA +VRDL   D     S 
Sbjct: 62  SKEEGEKILAILDEKPEDLNGNWNLRYRENQEILKTGDIFKIANMVRDLVALDDDKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +E++L   A   M  E+    S+ + +A  +I+
Sbjct: 122 TEKKLLNRARRIMASELVMSGSLEKDQAEKMID 154


>gi|325294895|ref|YP_004281409.1| transcriptional regulator, CarD family [Desulfurobacterium
           thermolithotrophum DSM 11699]
 gi|325065343|gb|ADY73350.1| transcriptional regulator, CarD family [Desulfurobacterium
           thermolithotrophum DSM 11699]
          Length = 163

 Score = 68.9 bits (167), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 42/146 (28%), Positives = 73/146 (50%), Gaps = 2/146 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +  P HGVG +   +E+EV G K+ +F I+     M + VP     + G+R + 
Sbjct: 2   FKIGDKVACPPHGVGIVEGKEEREVGGKKVIYFRISLVGKSMSILVPEESIENSGIRPVL 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E     +          W+ R +    ++ +GD+  +A VVR+L     + E SY
Sbjct: 62  SEESIEEIFNYLSEIPTNISEKWTVRHRLNVDRLKTGDIKELATVVRNLSYRSKEKELSY 121

Query: 134 SERQLYESALNRMVREIAAVNSISEP 159
           SE++++E A  ++  EIA   S+ EP
Sbjct: 122 SEKRMFEEAFGKLAEEIAL--SLGEP 145


>gi|226311543|ref|YP_002771437.1| hypothetical protein BBR47_19560 [Brevibacillus brevis NBRC 100599]
 gi|226094491|dbj|BAH42933.1| conserved hypothetical protein [Brevibacillus brevis NBRC 100599]
          Length = 167

 Score = 68.9 bits (167), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 77/152 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ + YP HG G I  ++E+E  G K  ++V+     ++ + VPV K   +G+RK+ 
Sbjct: 2   FLVGDKVFYPIHGAGVIEAMEEKEFLGEKHLYYVLNMSLKELNIMVPVEKMSALGIRKVV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           EA  +E  L  +    R      ++R + +  K+ SGD+   +EV+RDL     +     
Sbjct: 62  EADILENVLAAMLEGQRDTALNAAQRYKLHTEKMKSGDIYEQSEVIRDLVGMSKEKVLGT 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLI 165
           S++ + ++A   ++ EI  V  +   +A  ++
Sbjct: 122 SDKVMLDNAQQLLISEIELVKDVDTQQATEML 153


>gi|212696984|ref|ZP_03305112.1| hypothetical protein ANHYDRO_01547 [Anaerococcus hydrogenalis DSM
           7454]
 gi|212676072|gb|EEB35679.1| hypothetical protein ANHYDRO_01547 [Anaerococcus hydrogenalis DSM
           7454]
          Length = 159

 Score = 68.6 bits (166), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 41/153 (26%), Positives = 73/153 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  ++ +E  G + E+F++      M + +P      + +R + 
Sbjct: 2   FKIGDKIVYPMHGAGIIDSVETKEFLGEEKEYFILKMPIGNMDISIPKSNINKMNIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                E+ L ++  K       W+ R +E    + +GD+  IA +VRDL   D     S 
Sbjct: 62  SKEEGEKILAILDEKPEDLNGNWNLRYRENQEILKTGDIFKIANMVRDLVALDDDKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +E++L   A   M  E+    S+ + +A  +I+
Sbjct: 122 TEKKLLNRARRIMASELVMSGSLEKDQAEKMID 154


>gi|257065690|ref|YP_003151946.1| transcriptional regulator, CarD family [Anaerococcus prevotii DSM
           20548]
 gi|256797570|gb|ACV28225.1| transcriptional regulator, CarD family [Anaerococcus prevotii DSM
           20548]
          Length = 159

 Score = 68.6 bits (166), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 39/153 (25%), Positives = 77/153 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG GTI  I+++E  G   ++F++      M + +P  K  ++ +R + 
Sbjct: 2   FKIGDKIVYPMHGAGTIDSIEKKEFLGEVKDYFILKMPIGDMDISIPTSKINEMNIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  LK++          W+ R ++    + +GD+  IA++VR+L   D+    S 
Sbjct: 62  TKEEGDEVLKILDDDPSDMSNNWTVRYRQNQEILKTGDIFEIAKMVRNLAILDNDKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +E++L   +   +  E+    S+ + EA  +I+
Sbjct: 122 TEKKLLNRSRRILASELVMAGSLKKEEAEAMID 154


>gi|256546065|ref|ZP_05473418.1| CarD family transcriptional regulator [Anaerococcus vaginalis ATCC
           51170]
 gi|256398182|gb|EEU11806.1| CarD family transcriptional regulator [Anaerococcus vaginalis ATCC
           51170]
          Length = 159

 Score = 68.2 bits (165), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 40/153 (26%), Positives = 73/153 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  ++ +E  G + E+F++      M + +P      + +R + 
Sbjct: 2   FKIGDKIVYPMHGAGIIDSVETKEFLGEEKEYFILKMPIGNMDISIPKANINKMNIRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                E  L ++    +   + W+ R +E    + +GD+  IA +VRDL   D     S 
Sbjct: 62  SKKEGEEILAILEQDPKDLNSNWNLRYRENQEILKTGDIFKIANMVRDLVALDDDKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +E++L   A   M  E+    S+ + +A  +I+
Sbjct: 122 TEKKLLNRARRIMASELVMSGSLEKDDAEKMID 154


>gi|150016777|ref|YP_001309031.1| CarD family transcriptional regulator [Clostridium beijerinckii
           NCIMB 8052]
 gi|149903242|gb|ABR34075.1| transcriptional regulator, CarD family [Clostridium beijerinckii
           NCIMB 8052]
          Length = 165

 Score = 67.8 bits (164), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 43/164 (26%), Positives = 81/164 (49%), Gaps = 4/164 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP+ G+G I  I+E+E+ G K++ ++I    + M L +P+  A    +R +S
Sbjct: 2   FNIGDKVVYPSQGIGIIDVIEEKELKGEKIKCYIIHLINNTMKLTLPISAANTFNIRLVS 61

Query: 74  EAHFVERALK----LVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +   +E +LK     +    +  +  +  R      K+ SG      EV+ DL +     
Sbjct: 62  DIKTLENSLKHLDRFMTEAEKFSKINYKERRNISKIKMKSGTFDEFIEVIFDLTQLKRWH 121

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             + SE+Q+       +V EIA    ++  EA  L++++++ KS
Sbjct: 122 SLNSSEKQMLNHIKKIVVEEIAQAKCLTSDEASELLDISMNLKS 165


>gi|157691253|ref|YP_001485715.1| transcription regulator CarD [Bacillus pumilus SAFR-032]
 gi|157680011|gb|ABV61155.1| CarD family transcriptional regulator [Bacillus pumilus SAFR-032]
          Length = 153

 Score = 67.8 bits (164), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 40/147 (27%), Positives = 74/147 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +  K +++VI      M + +P  K     +R ++
Sbjct: 2   FQIGDNIVYPMHGAGIIEAIEEKEFSDEKQQYYVIKMSISHMKVMIPTRKISGSRIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W  R      KI +GD+   AEVVRDL R   +   + 
Sbjct: 62  DLLALNNVMHVFQHGESDQLLTWKERHTINTNKIKTGDIQDGAEVVRDLMRMKKEKALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPE 160
           SE+++ + A   ++ E+  +  I+E +
Sbjct: 122 SEKKMLDEAHEFLLSELEVIEGITEKQ 148


>gi|296126550|ref|YP_003633802.1| CarD family transcriptional regulator [Brachyspira murdochii DSM
           12563]
 gi|296018366|gb|ADG71603.1| transcriptional regulator, CarD family [Brachyspira murdochii DSM
           12563]
          Length = 191

 Score = 67.4 bits (163), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 72/138 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++   ++VYP +G+  +  I + +V    +E +V+  + + + LKVP+ +  +  +RK+ 
Sbjct: 2   YKLNTYVVYPMYGICKVIGISDSKVNSNLVECYVLECESENITLKVPINRVKEYRIRKII 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  + +++ K +     W  R QE + K+ SG++    EV R L   +   E S 
Sbjct: 62  SKAEADELINVLQTKPQDIENNWKIRYQENEEKLRSGNIKDTIEVARSLFTRNKLKELSA 121

Query: 134 SERQLYESALNRMVREIA 151
           SE++LYE A   +V EI+
Sbjct: 122 SEKRLYEKAYMFIVNEIS 139


>gi|227485949|ref|ZP_03916265.1| transcription factor CarD [Anaerococcus lactolyticus ATCC 51172]
 gi|227235994|gb|EEI86009.1| transcription factor CarD [Anaerococcus lactolyticus ATCC 51172]
          Length = 160

 Score = 67.4 bits (163), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 39/153 (25%), Positives = 76/153 (49%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  +++ E  G + E++++     +M + +P     D  +R + 
Sbjct: 3   FKVGDKIVYPMHGAGVIDAVEKIEFMGEEREYYILKMPIGEMDISIPADNMKDANIRFII 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                   L ++  K     + W++R ++    + +GD+  IA++VR+L   DS    S 
Sbjct: 63  SKEEGLEVLAILDDKPTEMNSNWTKRYRDNQEILKTGDIFEIAKMVRNLAILDSDKGLST 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           +E++L   A   +  E+    S+ + EA  +I+
Sbjct: 123 TEKKLLNRARRILASELVMAGSLEKEEAEKMID 155


>gi|332298572|ref|YP_004440494.1| transcriptional regulator, CarD family [Treponema brennaborense DSM
           12168]
 gi|332181675|gb|AEE17363.1| transcriptional regulator, CarD family [Treponema brennaborense DSM
           12168]
          Length = 217

 Score = 67.0 bits (162), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 42/151 (27%), Positives = 72/151 (47%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M +       +  F   + IVYP+ GVG ITEI E++     L ++VI  +   M + VP
Sbjct: 1   MVYYMTMSDTKMTFEVNQKIVYPSQGVGKITEITEKKFKDNVLPYYVIYLEVSDMTVMVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +  ++G+R +       +A++++  +     + W  R Q     +  G +  IA +VR
Sbjct: 61  VNRVEELGIRAIVSQQEALQAIEMMGEEVEPVTSDWKLRYQMNLDLLKKGSVSDIATIVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIA 151
            L+      E    ER+LY+SA   +  EI+
Sbjct: 121 CLYHRSKVKELPILERKLYDSAKKLLEDEIS 151


>gi|153005645|ref|YP_001379970.1| CarD family transcriptional regulator [Anaeromyxobacter sp.
           Fw109-5]
 gi|152029218|gb|ABS26986.1| transcriptional regulator, CarD family [Anaeromyxobacter sp.
           Fw109-5]
          Length = 364

 Score = 66.6 bits (161), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 78/152 (51%), Gaps = 8/152 (5%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            R G  +VYP  GV  +  ++E+++AG KL+   +  ++D   + VP  K   IG+R+++
Sbjct: 29  LRPGNRVVYPNQGVCEVVGVEEKDIAGQKLQLVRMRREEDGAAVLVPRNKVPSIGLRRVA 88

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH---RTDSQPE 130
               +E     +  +       W  R ++   ++ +G ++ +AEVV+ LH   R    P 
Sbjct: 89  TGEQIEGVFHFLAAQFEDPELDWKVRHRDNADRLIAGGVLGVAEVVKGLHSLSRIRPLPA 148

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAI 162
           K   ER+ Y++A + +V E+A   S+  P A+
Sbjct: 149 K---EREQYDNARHLLVHEVAV--SLGVPPAL 175


>gi|296332858|ref|ZP_06875318.1| YdeB [Bacillus subtilis subsp. spizizenii ATCC 6633]
 gi|305673204|ref|YP_003864876.1| putative transcriptional regulator [Bacillus subtilis subsp.
           spizizenii str. W23]
 gi|296150138|gb|EFG91027.1| YdeB [Bacillus subtilis subsp. spizizenii ATCC 6633]
 gi|305411448|gb|ADM36567.1| putative transcriptional regulator [Bacillus subtilis subsp.
           spizizenii str. W23]
          Length = 158

 Score = 66.6 bits (161), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 79/145 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HGVG I  I+E+E+ G K +++VI      M + +P  K +   +R ++
Sbjct: 7   FQIGDNIVYPMHGVGIIEAIEEKEILGKKQQYYVIKMTISNMQVMIPTRKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R      KI +G++   AEVVRDL R   +   + 
Sbjct: 67  DIRALKHIIHIFQHGESDRLLPWKQRYIVNTNKIKTGEIQEGAEVVRDLMRMKKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ ++A   ++ E+  +  I+E
Sbjct: 127 SEKKMLDNAYEFLISELEVIKGITE 151


>gi|313680694|ref|YP_004058433.1| CarD family transcriptional regulator [Oceanithermus profundus DSM
           14977]
 gi|313153409|gb|ADR37260.1| transcriptional regulator, CarD family [Oceanithermus profundus DSM
           14977]
          Length = 167

 Score = 66.2 bits (160), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 68/139 (48%), Gaps = 1/139 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           GF  G+ +VYPA G G I EI E+EV G +  ++VI   +    + VPV KA  +G+R  
Sbjct: 5   GFNVGDPVVYPAQGGGYIREIAEREVMGERNTYYVIELLRKPGTIMVPVEKAERLGLRP- 63

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             A     AL    G+AR   + W  R +E    ++  D + +A ++  LHR       S
Sbjct: 64  PLAGADRDALVRALGEARDLASGWPARQREIGRALSESDPLELARMLASLHRRHQLRPLS 123

Query: 133 YSERQLYESALNRMVREIA 151
            +E Q Y   +  +  E+A
Sbjct: 124 GTEHQQYRELVGILSEELA 142


>gi|111018698|ref|YP_701670.1| CarD family transcriptional regulator [Rhodococcus jostii RHA1]
 gi|110818228|gb|ABG93512.1| probable transcriptional regulator, CarD family protein
           [Rhodococcus jostii RHA1]
          Length = 171

 Score = 66.2 bits (160), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 38/136 (27%), Positives = 70/136 (51%), Gaps = 2/136 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+  +YP HG  T+T++  +    +  E+      ++ + +++PV KA  IG+R      
Sbjct: 6   GDIFLYPHHGSVTVTKLTTRMFNDLPTEYVQFEVAQNGLSIEIPVAKAESIGVRNAINND 65

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEKSYSE 135
            V R   ++RG      + WSRR +    K+  G +  ++EV+RDL  R+  +P  +  +
Sbjct: 66  EVGRVFDILRGPTVDDPSNWSRRFKANQEKLTVGGIFTVSEVIRDLMTRSQVKPLSAGEK 125

Query: 136 RQLYESALNRMVREIA 151
           RQL E A+  ++ E+ 
Sbjct: 126 RQL-EHAMQLVISELV 140


>gi|323141388|ref|ZP_08076279.1| CarD-like protein [Phascolarctobacterium sp. YIT 12067]
 gi|322414137|gb|EFY04965.1| CarD-like protein [Phascolarctobacterium sp. YIT 12067]
          Length = 161

 Score = 66.2 bits (160), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 43/156 (27%), Positives = 74/156 (47%), Gaps = 3/156 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG   I +I+     G  ++++++    D M + VPV  A  +G+R + 
Sbjct: 2   FAMGDRVVYPLHGGAIIKDIEAHIQDGETVKYYILQMLFDNMTVSVPVENAEKLGLRYIG 61

Query: 74  EAH---FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           +      ++  L  V     VK   W+RR Q Y  KI SG +  +A + + L   + + +
Sbjct: 62  DDETLAIIQNTLHEVPDVQTVKAISWNRRFQLYMQKIKSGSVAEVARIFKILTILERRKK 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            S  ER+L  S    +  EI  +  +   +A N +E
Sbjct: 122 ISVGERRLLHSTKQILQSEIMLIKDVDAEKAGNWLE 157


>gi|228923471|ref|ZP_04086756.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228836197|gb|EEM81553.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 164

 Score = 65.9 bits (159), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 81/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L+  AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLLDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V ++SE +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEYLQ 159


>gi|187935638|ref|YP_001884929.1| CarD family transcriptional regulator [Clostridium botulinum B str.
           Eklund 17B]
 gi|187723791|gb|ACD25012.1| transcriptional regulator, CarD family [Clostridium botulinum B
           str. Eklund 17B]
          Length = 163

 Score = 65.9 bits (159), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/158 (26%), Positives = 78/158 (49%), Gaps = 4/158 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVYP+ GVG I  I E    G    ++ I    + M L +PV +  D+ +R +S
Sbjct: 2   FNIGDKIVYPSQGVGIIELIGEMLFKGEIQNYYKIHIFNNNMTLTLPVNRVEDLNIRLVS 61

Query: 74  EAHFVERALKLVRGKA----RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           ++  ++  L+ V+        + ++ + +RA   + KI SG L    EV+ +L +   Q 
Sbjct: 62  DSETLDSVLENVKDFTTNIEELNKSDFKQRAAINNQKIKSGTLTDYLEVIYNLTKVKEQH 121

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             + SE+      +  +V EI+   ++S  +A +L+ +
Sbjct: 122 SLNSSEKDTLRKTVKTLVEEISQSKNLSNDDASSLLNL 159


>gi|226360810|ref|YP_002778588.1| hypothetical protein ROP_13960 [Rhodococcus opacus B4]
 gi|226239295|dbj|BAH49643.1| hypothetical protein [Rhodococcus opacus B4]
          Length = 169

 Score = 65.9 bits (159), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 38/135 (28%), Positives = 69/135 (51%), Gaps = 2/135 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+  +YP HG  T+T++  +    +  E+      +  + +++PV KA  +G+R      
Sbjct: 6   GDIFLYPHHGSVTVTKLTTRMFKDLPTEYVQFEVAQTGLSIEIPVAKAEALGVRNAISND 65

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEKSYSE 135
            VER   ++RG      + WSRR +    K+  G +  ++EV+RDL  R   +P  +  +
Sbjct: 66  EVERVFDILRGPTVDDPSNWSRRYKANQEKLTVGGIFTVSEVIRDLMTRAQEKPLSAGEK 125

Query: 136 RQLYESALNRMVREI 150
           RQL E A+  ++ E+
Sbjct: 126 RQL-EHAMQLVISEL 139


>gi|117927289|ref|YP_871840.1| CarD family transcriptional regulator [Acidothermus cellulolyticus
           11B]
 gi|117647752|gb|ABK51854.1| transcriptional regulator, CarD family [Acidothermus cellulolyticus
           11B]
          Length = 160

 Score = 65.9 bits (159), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 82/158 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP   A  +G+R + 
Sbjct: 3   FKVGETVVYPHHGAALIEAIETRVINGQEKTYLVLKVAQGDLTVRVPAENAEFVGVRDVV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D     S 
Sbjct: 63  SQDGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRDRGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E+++   A   +V E+A     +E +A  +++  L S
Sbjct: 123 GEKRMLAKARQILVSELALAEGTNEDKAEAILDEVLGS 160


>gi|297624760|ref|YP_003706194.1| CarD family transcriptional regulator [Truepera radiovictrix DSM
           17093]
 gi|297165940|gb|ADI15651.1| transcriptional regulator, CarD family [Truepera radiovictrix DSM
           17093]
          Length = 165

 Score = 65.5 bits (158), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 41/144 (28%), Positives = 71/144 (49%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++VYP+ G G + EI  + V G + E+  I+F +  M + VP+ K  ++G+R   
Sbjct: 2   FKVGDNVVYPSQGAGRVDEITTRVVLGERHEYLKISFVRGDMDVLVPLKKGEEVGLRHTV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   L  +        T W  R +     +  GD  A+A ++  L + D +   + 
Sbjct: 62  ALAEVGELLAAIAHSDLSLPTQWPPRHRAEQDILAGGDAYALARLIGVLAQRDLEKGLAA 121

Query: 134 SERQLYESALNRMVREIAAVNSIS 157
           +ER++ E A   +  E+A V SIS
Sbjct: 122 TEREMLEGAKAMLASELAVVQSIS 145


>gi|149919813|ref|ZP_01908290.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
 gi|149819420|gb|EDM78851.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
          Length = 125

 Score = 65.5 bits (158), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/108 (34%), Positives = 59/108 (54%), Gaps = 1/108 (0%)

Query: 55  MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLI 113
           M L VP+  A  +G+R L     VE   +++R +  ++    W+RR +EY  KI +G L 
Sbjct: 9   MTLMVPMSNADSVGLRNLITNEQVEEVYEVLRKRGEKISTATWNRRHREYMDKIRTGSLA 68

Query: 114 AIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEA 161
            IA V+RDL+      + SY ER + E+A   +++E+A V   +E E 
Sbjct: 69  KIATVLRDLYLLRGDKDLSYGERNMLETARALLIQELALVKEKTEDEV 116


>gi|188589570|ref|YP_001920088.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
 gi|251778617|ref|ZP_04821537.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|188499851|gb|ACD52987.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
 gi|243082932|gb|EES48822.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 163

 Score = 65.5 bits (158), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 41/158 (25%), Positives = 78/158 (49%), Gaps = 4/158 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVYP+ GVG I  I E    G    ++ I    + M L +P+ +  D+ +R +S
Sbjct: 2   FNIGDKIVYPSQGVGIIELIGEMLFKGEVQNYYKIHIFNNNMTLTLPINRVDDLNIRLVS 61

Query: 74  EAHFVERALKLVRGKA----RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           ++  ++  L+ V+        + ++ + +RA   + KI SG L    EV+ +L +   Q 
Sbjct: 62  DSETLDSVLENVKDFTTNIEELNKSDFKQRAAINNQKIKSGTLTDYLEVIYNLTKVREQH 121

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             + SE+      +  +V EI+   ++S  +A +L+ +
Sbjct: 122 SLNSSEKDTLRKTVKTLVEEISQSKNLSNDDASSLLNL 159


>gi|194015928|ref|ZP_03054543.1| CarD family transcriptional regulator [Bacillus pumilus ATCC 7061]
 gi|194012283|gb|EDW21850.1| CarD family transcriptional regulator [Bacillus pumilus ATCC 7061]
          Length = 153

 Score = 65.5 bits (158), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 72/145 (49%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E +  K +++VI      M + +P  K     +R ++
Sbjct: 2   FQIGDNIVYPMHGAGIIEAIEEKEFSDEKQQYYVINMSISHMKVMIPTRKISGSRIRPVT 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W  R      KI +G +   AEVVRDL R   +   + 
Sbjct: 62  DILALNNVMDIFQHGESDQIPTWKERHTINTNKIKTGSIQDGAEVVRDLMRMKKEKALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISE 158
           SE+++ + A   ++ E+  +  I+E
Sbjct: 122 SEKKMLDDAHEFLLSELEVIKGITE 146


>gi|218235392|ref|YP_002369513.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228960989|ref|ZP_04122619.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|229112178|ref|ZP_04241720.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|229152915|ref|ZP_04281097.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|218163349|gb|ACK63341.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228630528|gb|EEK87175.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|228671294|gb|EEL26596.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|228798706|gb|EEM45689.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
          Length = 164

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V ++SE +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEFLQ 159


>gi|319790303|ref|YP_004151936.1| transcriptional regulator, CarD family [Thermovibrio ammonificans
           HB-1]
 gi|317114805|gb|ADU97295.1| transcriptional regulator, CarD family [Thermovibrio ammonificans
           HB-1]
          Length = 163

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 39/146 (26%), Positives = 71/146 (48%), Gaps = 2/146 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ + YP HGVG I   + + V G ++ ++ I      M + +P       G+R + 
Sbjct: 2   FKVGDKVAYPPHGVGVIESTEVRVVGGKEVTYYRITLLGKNMSILIPEVGLESSGVRPVL 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E     +  K       W+ R +    ++ +G++  +A VVR+L       E SY
Sbjct: 62  SEEEIEEVFSYLAEKPTNISEKWTIRHRLNVDRLKTGNIRELATVVRNLSYRSKDKELSY 121

Query: 134 SERQLYESALNRMVREIAAVNSISEP 159
           SE++++E A +++  EIA   S+ EP
Sbjct: 122 SEKRMFEEAFSKLAEEIAL--SLGEP 145


>gi|303238352|ref|ZP_07324887.1| transcriptional regulator, CarD family [Acetivibrio cellulolyticus
           CD2]
 gi|302594056|gb|EFL63769.1| transcriptional regulator, CarD family [Acetivibrio cellulolyticus
           CD2]
          Length = 159

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 40/147 (27%), Positives = 75/147 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +  G+ IVYP HG G I  I+E+E+ G K  ++V+      M + +P      IG+R++ 
Sbjct: 2   YNVGDRIVYPMHGAGIIESIEEREILGSKQSYYVVRIPIGDMKVMIPTKNVTGIGIREVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +R   ++  +     + W++R +E   KI SG++  +A+VVR L   + +   S 
Sbjct: 62  SERDADRVFSVLGAENNSANSNWNKRYRENMVKIKSGNIYEVADVVRSLMVREKEKGLST 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPE 160
            ER++  SA   ++ E+    +++  E
Sbjct: 122 GERKMLSSAKQILISELVLAKNMNAIE 148


>gi|30022787|ref|NP_834418.1| CarD family transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|229129995|ref|ZP_04258959.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
 gi|29898346|gb|AAP11619.1| CarD-like transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|228653439|gb|EEL09313.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
          Length = 164

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V ++SE +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEFLQ 159


>gi|260881580|ref|ZP_05404736.2| transcriptional regulator, CarD family [Mitsuokella multacida DSM
           20544]
 gi|260848409|gb|EEX68416.1| transcriptional regulator, CarD family [Mitsuokella multacida DSM
           20544]
          Length = 166

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 40/160 (25%), Positives = 76/160 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            + G+ +VYP HG G I+ I+  EV G    ++V+      M + +P   A ++G+R + 
Sbjct: 4   LQIGDKVVYPMHGAGVISGIENCEVLGEGKSYYVLEMPLGNMKVMIPTDNADNVGLRDVI 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V+   +++  +    +  W++R      ++ SGD+  +A V R+L   D +   S 
Sbjct: 64  PQQKVDEVREVLEEEPEKPKGSWNKRFHANLDRMKSGDICDVAAVARNLILQDRRRHISS 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            ER+L + A   +V E+      +  E  N +   LS+ +
Sbjct: 124 GERRLLDLAKQILVSELVYACDKTPKEVENWLTSVLSANA 163


>gi|328949054|ref|YP_004366391.1| CarD family transcriptional regulator [Treponema succinifaciens DSM
           2489]
 gi|328449378|gb|AEB15094.1| transcriptional regulator, CarD family [Treponema succinifaciens
           DSM 2489]
          Length = 206

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 74/165 (44%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYP+ GVG ITEI +++       ++ I  +   M + VPV ++ D+G+R + 
Sbjct: 8   FSVNQKVVYPSQGVGKITEIFKKDFNNEPTYYYKIYLEVSDMNVMVPVSRSKDLGIRAIV 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                + AL  +        + W  R Q     +  G +  IA +VR L+      E   
Sbjct: 68  SKDEAQTALNSISDDFEPPTSDWKLRYQMNLDLLKKGTIGDIAAIVRCLYHRSKVKELPI 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
            ER+LY++A   +  EIA    IS  E   ++   L     K EK
Sbjct: 128 LERKLYDNAKKLLEDEIAEAFGISNKEVEAMLHEKLEPLGLKIEK 172


>gi|239621794|ref|ZP_04664825.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           CCUG 52486]
 gi|239514985|gb|EEQ54852.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           CCUG 52486]
          Length = 179

 Score = 64.3 bits (155), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 80/161 (49%), Gaps = 5/161 (3%)

Query: 33  IKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARV 91
           I E+ V G+  E+  ++    D + + VPV  A  +G+R +  A  V +   ++R     
Sbjct: 4   ITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVRDIVSASEVAKVFGILRTPIIE 63

Query: 92  KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK-SYSERQLYESALNRMVREI 150
           K   WSRR +    KI +GD+  IAEVVRDL + D      S  E+++   A   +  EI
Sbjct: 64  KEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHGLSAGEKRMLTKARAILTSEI 123

Query: 151 AAVNSISEPEAINLIEVNLS---SKSSKTEKSTSENQDKAA 188
           A    I E EA  L++VNL    ++    +  T+E ++ AA
Sbjct: 124 ALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEAAA 164


>gi|121535694|ref|ZP_01667498.1| transcriptional regulator, CarD family [Thermosinus carboxydivorans
           Nor1]
 gi|121305725|gb|EAX46663.1| transcriptional regulator, CarD family [Thermosinus carboxydivorans
           Nor1]
          Length = 164

 Score = 64.3 bits (155), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 36/136 (26%), Positives = 67/136 (49%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +VYP HG G +  ++E EV G K  ++V+      M + +P  +    G+R +   
Sbjct: 4   VGDKVVYPMHGAGIVEALEEHEVLGKKQYYYVLTMFYGGMRVMIPQDQVGQSGLRAVVGE 63

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSE 135
             + +  +++          W+RR      KI SG ++ +AEVVR+L + +     S  E
Sbjct: 64  TEIAQVKEVLSASPEQDTGNWNRRINNSLTKIKSGSILEVAEVVRNLMKQEVTRRLSTGE 123

Query: 136 RQLYESALNRMVREIA 151
           R+L ++A   ++ E+ 
Sbjct: 124 RRLLDTAKQILISELV 139


>gi|228941895|ref|ZP_04104439.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228974826|ref|ZP_04135389.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228981418|ref|ZP_04141717.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228778301|gb|EEM26569.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228784886|gb|EEM32902.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228817728|gb|EEM63809.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|326942500|gb|AEA18396.1| CarD family transcriptional regulator [Bacillus thuringiensis
           serovar chinensis CT-43]
          Length = 164

 Score = 63.9 bits (154), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMNQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V +++E +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQ 159


>gi|229163710|ref|ZP_04291657.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
 gi|228619772|gb|EEK76651.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
          Length = 164

 Score = 63.9 bits (154), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 46/154 (29%), Positives = 84/154 (54%), Gaps = 2/154 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL- 72
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTLRQYCVIRILSKDMQVMLPMDQLQKSGIRYIV 66

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +    +  L+  +G++    + W +R      K+ +G+L   AEVVRDL R + +   +
Sbjct: 67  DKGTLNDILLEFQQGESDTSLS-WKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALN 125

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            SE+Q+ ++A   M+ E+A V ++SE +A   ++
Sbjct: 126 ASEKQMLDNARKMMISEVALVQNVSEHQATEFLQ 159


>gi|56963460|ref|YP_175191.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56909703|dbj|BAD64230.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 165

 Score = 63.5 bits (153), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/160 (26%), Positives = 81/160 (50%), Gaps = 7/160 (4%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP HG GTI E++E++V G    +F++ F    + L +P  +    G+RK+ 
Sbjct: 4   FKVGDKVVYPYHGAGTIQEVEEKDVLGETHLYFILHFPLVDITLMLPESRIEQSGLRKVI 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS- 132
            +  +E+  K ++       +  S+ +++ +  + +G +I  A +V  L +   Q E+S 
Sbjct: 64  PSSDLEKVAKALQNGPDTPPST-SQFSRDTENLLKTGSIIDAAHLVSSLSK--KQAERSN 120

Query: 133 ---YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
                +R   + A   +  E+ AV   SE +A   I+ NL
Sbjct: 121 GLHIQDRHHLQKARQVLASELVAVQDFSEEQAYEFIDNNL 160


>gi|229099195|ref|ZP_04230127.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|229105347|ref|ZP_04235994.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|229118208|ref|ZP_04247566.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228665255|gb|EEL20739.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228678059|gb|EEL32289.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|228684176|gb|EEL38122.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
          Length = 164

 Score = 63.5 bits (153), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 78/153 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRILSKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLNDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V  +SE +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQDVSEHQATEFLQ 159


>gi|206969561|ref|ZP_03230515.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|228954994|ref|ZP_04117011.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|229147285|ref|ZP_04275636.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|229181033|ref|ZP_04308368.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|296505181|ref|YP_003666881.1| CarD family transcriptional regulator [Bacillus thuringiensis
           BMB171]
 gi|206735249|gb|EDZ52417.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|228602590|gb|EEK60076.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|228636186|gb|EEK92665.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|228804721|gb|EEM51323.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|296326233|gb|ADH09161.1| CarD family transcriptional regulator [Bacillus thuringiensis
           BMB171]
          Length = 164

 Score = 63.5 bits (153), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V +++E +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQ 159


>gi|229048423|ref|ZP_04193990.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
 gi|228722938|gb|EEL74316.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
          Length = 164

 Score = 63.5 bits (153), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V +++E +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQ 159


>gi|325291324|ref|YP_004267505.1| transcriptional regulator, CarD family [Syntrophobotulus glycolicus
           DSM 8271]
 gi|324966725|gb|ADY57504.1| transcriptional regulator, CarD family [Syntrophobotulus glycolicus
           DSM 8271]
          Length = 162

 Score = 63.2 bits (152), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 41/161 (25%), Positives = 80/161 (49%), Gaps = 2/161 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ I+YP HG+  I  ++++E+ G +   +++   K  M + +PV KA  IG+RK+ 
Sbjct: 2   FQVGDKILYPMHGICIIDAVEKKELFGQQELCYILNIQKANMKITIPVDKATKIGVRKVV 61

Query: 74  EAHFVERALKLVR-GKARVKRTMWSRRAQEYD-AKINSGDLIAIAEVVRDLHRTDSQPEK 131
               +E  L     G          R  +E +  K  +G++    E++RDL R   + + 
Sbjct: 62  GPEILENILNSFNLGDTDSNIFENQRYCKEINKKKFKTGNINQGTEIIRDLTRKSRRTKL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
              +  + ++A    V E+  V  ++  +A+ L++  L+SK
Sbjct: 122 GQDDTNMLDNARRVFVSELMEVKGLALEQAVYLLDEALNSK 162


>gi|228910571|ref|ZP_04074385.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228849135|gb|EEM93975.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
          Length = 164

 Score = 63.2 bits (152), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 46/154 (29%), Positives = 84/154 (54%), Gaps = 2/154 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVER-ALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +   ++   L+   G+A    + W +R      K+ +G+L   AEVVRDL R + +   +
Sbjct: 67  DRGTLDDILLEFQNGEADPSLS-WKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALN 125

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            SE+Q+ ++A   M+ E+A V +++E +A   ++
Sbjct: 126 ASEKQMLDNARKMMISEVALVQNVTEHQATEFLQ 159


>gi|75760847|ref|ZP_00740862.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|218899872|ref|YP_002448283.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228903236|ref|ZP_04067369.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228967819|ref|ZP_04128833.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|229072221|ref|ZP_04205428.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|229076225|ref|ZP_04209192.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|229081972|ref|ZP_04214463.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|229193002|ref|ZP_04319958.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|74491661|gb|EAO54862.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|218545825|gb|ACK98219.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228590449|gb|EEK48312.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|228701349|gb|EEL53844.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|228706874|gb|EEL59080.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|228710878|gb|EEL62846.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228791869|gb|EEM39457.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228856410|gb|EEN00937.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 164

 Score = 62.8 bits (151), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 80/153 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMEQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   M+ E+A V +++E +A   ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQ 159


>gi|134301075|ref|YP_001114571.1| CarD family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134053775|gb|ABO51746.1| transcriptional regulator, CarD family [Desulfotomaculum reducens
           MI-1]
          Length = 155

 Score = 62.4 bits (150), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 39/157 (24%), Positives = 78/157 (49%), Gaps = 14/157 (8%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK----VPVGKAIDIGM 69
           F+ G+ + YP HG G I  I+E+E+ G K  ++V+     ++       +P+   +D+ +
Sbjct: 2   FQIGDKVFYPMHGAGVIEAIEEKEILGNKQLYYVMQIRNMQVMFPMKSDIPLRPVVDLDI 61

Query: 70  RKLSEAHFVERALKL-VRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
             +    F E AL L ++   R +  M          K+ SGD+    +V+RDL     +
Sbjct: 62  LDVLFTTFNEEALDLTLKPNQRYRSNM---------NKMKSGDIYQGVQVIRDLILMSKK 112

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
              +  ++ + ++AL  ++ E+  V  I+E +A++L+
Sbjct: 113 RTLATGDKAMLDNALQILISELVLVKGITEEQAVDLV 149


>gi|163942446|ref|YP_001647330.1| CarD family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|163864643|gb|ABY45702.1| transcriptional regulator, CarD family [Bacillus weihenstephanensis
           KBAB4]
          Length = 159

 Score = 62.4 bits (150), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 79/153 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 2   FQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIISKDMQVMLPINQLQKSGIRYIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L             W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 62  DKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   ++ E+A V ++SE +A   ++
Sbjct: 122 SEKQMLDNARKMVISEVALVQNVSEHQATEFLQ 154


>gi|229135557|ref|ZP_04264340.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|229169450|ref|ZP_04297156.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|228614008|gb|EEK71127.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|228647899|gb|EEL03951.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
          Length = 162

 Score = 62.0 bits (149), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 79/153 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 5   FQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIISKDMQVMLPINQLQKSGIRYIV 64

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L             W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 65  DKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 124

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   ++ E+A V ++SE +A   ++
Sbjct: 125 SEKQMLDNARKMVISEVALVQNVSEHQATEFLQ 157


>gi|220918135|ref|YP_002493439.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
 gi|219955989|gb|ACL66373.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
          Length = 404

 Score = 62.0 bits (149), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/161 (23%), Positives = 76/161 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            + G+ +VYP  GV  +   + +++AG KLE   +  ++D   + VP GK   IG+R+++
Sbjct: 30  LKPGDRVVYPNQGVCAVVGWEVKDIAGQKLELVRMTREEDGAAVMVPKGKVPSIGLRRVA 89

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E     +          W  R ++   ++ +G ++ +AEVV+ LH          
Sbjct: 90  TGAQMEGVFHYLGAVYDDPELDWKVRHRDNADRLIAGGVLGVAEVVKGLHSLSRLRPLPT 149

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            ER+ Y++A + +V E++    +    A + I+  L   + 
Sbjct: 150 KEREQYDNARHLLVHEVSVSLGVPPGLAEDYIDYALMPPAG 190


>gi|197123346|ref|YP_002135297.1| CarD family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|196173195|gb|ACG74168.1| transcriptional regulator, CarD family [Anaeromyxobacter sp. K]
          Length = 404

 Score = 61.6 bits (148), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 35/138 (25%), Positives = 69/138 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            + G+ +VYP  GV  +   + +++AG KLE   +  ++D   + VP GK   IG+R+++
Sbjct: 30  LKPGDRVVYPNQGVCAVVGWEVKDIAGQKLELVRMTREEDGAAVMVPKGKVPSIGLRRVA 89

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E     +          W  R ++   ++ +G ++ +AEVV+ LH          
Sbjct: 90  TGAQMEGVFHYLGAVYDDPELDWKVRHRDNADRLIAGGVLGVAEVVKGLHSLSRLRPLPT 149

Query: 134 SERQLYESALNRMVREIA 151
            ER+ Y++A + +V E++
Sbjct: 150 KEREQYDNARHLLVHEVS 167


>gi|229013922|ref|ZP_04171049.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
 gi|229062401|ref|ZP_04199717.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|228716872|gb|EEL68559.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|228747392|gb|EEL97268.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
          Length = 162

 Score = 61.6 bits (148), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 79/153 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 5   FQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMNQLQKSGIRYIV 64

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L             W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 65  DKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 124

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   ++ E+A V ++SE +A   ++
Sbjct: 125 SEKQMLDNARKMVISEVALVQNVSEHQATEFLQ 157


>gi|111115179|ref|YP_709797.1| transcription factor, putative [Borrelia afzelii PKo]
 gi|216263817|ref|ZP_03435811.1| putative transcription factor [Borrelia afzelii ACA-1]
 gi|110890453|gb|ABH01621.1| transcription factor, putative [Borrelia afzelii PKo]
 gi|215979861|gb|EEC20683.1| putative transcription factor [Borrelia afzelii ACA-1]
          Length = 162

 Score = 61.2 bits (147), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 72/150 (48%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSREKVEEVFDVIKKFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEA 148


>gi|15594700|ref|NP_212489.1| transcription factor, putative [Borrelia burgdorferi B31]
 gi|195941293|ref|ZP_03086675.1| transcription factor, putative [Borrelia burgdorferi 80a]
 gi|216264671|ref|ZP_03436663.1| putative transcription factor [Borrelia burgdorferi 156a]
 gi|218249763|ref|YP_002374875.1| putative transcription factor [Borrelia burgdorferi ZS7]
 gi|223889019|ref|ZP_03623610.1| putative transcription factor [Borrelia burgdorferi 64b]
 gi|224533174|ref|ZP_03673774.1| putative transcription factor [Borrelia burgdorferi WI91-23]
 gi|224533714|ref|ZP_03674302.1| putative transcription factor [Borrelia burgdorferi CA-11.2a]
 gi|225549124|ref|ZP_03770099.1| putative transcription factor [Borrelia burgdorferi 94a]
 gi|226320426|ref|ZP_03795993.1| putative transcription factor [Borrelia burgdorferi 29805]
 gi|226321672|ref|ZP_03797198.1| putative transcription factor [Borrelia burgdorferi Bol26]
 gi|2688253|gb|AAC66731.1| transcription factor, putative [Borrelia burgdorferi B31]
 gi|215981144|gb|EEC21951.1| putative transcription factor [Borrelia burgdorferi 156a]
 gi|218164951|gb|ACK75012.1| putative transcription factor [Borrelia burgdorferi ZS7]
 gi|223885835|gb|EEF56934.1| putative transcription factor [Borrelia burgdorferi 64b]
 gi|224511901|gb|EEF82302.1| putative transcription factor [Borrelia burgdorferi WI91-23]
 gi|224513007|gb|EEF83370.1| putative transcription factor [Borrelia burgdorferi CA-11.2a]
 gi|225370350|gb|EEG99788.1| putative transcription factor [Borrelia burgdorferi 94a]
 gi|226232861|gb|EEH31614.1| putative transcription factor [Borrelia burgdorferi Bol26]
 gi|226234179|gb|EEH32893.1| putative transcription factor [Borrelia burgdorferi 29805]
 gi|312148240|gb|ADQ30899.1| transcription factor, putative [Borrelia burgdorferi JD1]
 gi|312149526|gb|ADQ29597.1| transcription factor, putative [Borrelia burgdorferi N40]
          Length = 162

 Score = 61.2 bits (147), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 72/150 (48%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSREKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEA 148


>gi|330838625|ref|YP_004413205.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
 gi|329746389|gb|AEB99745.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
          Length = 163

 Score = 61.2 bits (147), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 40/149 (26%), Positives = 71/149 (47%), Gaps = 1/149 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            + G+ +VYP HG G I+ I++ EV G    ++V+      M + +P     ++G+R + 
Sbjct: 2   LQVGDTVVYPMHGAGVISGIEDCEVLGEGKSYYVLQMPLGNMKVMIPTDNVDNMGLRDVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE    +++         W++R      ++ SGD+  +A V R+L   D   + S 
Sbjct: 62  PETQVEEVKDILQMAPERATGSWNKRFHANLERMKSGDICDVAAVARNLVLQDRLRKISS 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAI 162
            ER+L + A   +V E+    S S PE +
Sbjct: 122 GERRLLDLARQIIVSELVYACSKS-PEEV 149


>gi|224534394|ref|ZP_03674972.1| putative transcription factor [Borrelia spielmanii A14S]
 gi|224514496|gb|EEF84812.1| putative transcription factor [Borrelia spielmanii A14S]
          Length = 162

 Score = 61.2 bits (147), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 72/150 (48%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSREKVEEVFDVIKKFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEA 148


>gi|255527262|ref|ZP_05394143.1| transcriptional regulator, CarD family [Clostridium carboxidivorans
           P7]
 gi|296187241|ref|ZP_06855637.1| CarD-like transcriptional regulator [Clostridium carboxidivorans
           P7]
 gi|255509047|gb|EET85406.1| transcriptional regulator, CarD family [Clostridium carboxidivorans
           P7]
 gi|296048112|gb|EFG87550.1| CarD-like transcriptional regulator [Clostridium carboxidivorans
           P7]
          Length = 158

 Score = 61.2 bits (147), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 32/139 (23%), Positives = 71/139 (51%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHF 77
           + +  P +G G +T++++ +   +  ++  I    D + L +P  + +D  +R ++    
Sbjct: 6   QKVFVPNYGAGIMTKVEDSKSYDVNKKYVNIFILIDNINLYIPEDRLLDYRIRNITSKEN 65

Query: 78  VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQ 137
           +++A  +++ K +     WS+R ++ + KI  GD   + EV+RDL+   S+      ER+
Sbjct: 66  LDKAFDIIKSKPQTIEKKWSKRYKKNNDKIKEGDFFQMCEVIRDLYYLKSKGTIPPGERR 125

Query: 138 LYESALNRMVREIAAVNSI 156
           + +   N +  EIA +  I
Sbjct: 126 ILDKVENMVGSEIALLLGI 144


>gi|229019949|ref|ZP_04176742.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
 gi|229026183|ref|ZP_04182547.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228735111|gb|EEL85742.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228741333|gb|EEL91540.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
          Length = 164

 Score = 61.2 bits (147), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 79/153 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIINKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L             W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           SE+Q+ ++A   ++ E+A V ++SE +A   ++
Sbjct: 127 SEKQMLDNARKMVISEVALVQNVSEHQATEFLQ 159


>gi|260887702|ref|ZP_05898965.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
 gi|260862582|gb|EEX77082.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
          Length = 175

 Score = 61.2 bits (147), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 43/162 (26%), Positives = 74/162 (45%), Gaps = 1/162 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M F   R       + G+ +VYP HG G I+ I++ EV G    ++V+      M + +P
Sbjct: 1   MRFAWGRAGGVVLLQVGDTVVYPMHGAGVISGIEDCEVLGEGKSYYVLQMPLGNMKVMIP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
                ++G+R +     VE    +++         W++R      ++ SGD+  +A V R
Sbjct: 61  TDNVDNMGLRDVIPETQVEEVKDILQMAPERATGSWNKRFHANLERMKSGDICDVAAVAR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAI 162
           +L   D   + S  ER+L + A   +V E+    S S PE +
Sbjct: 121 NLVLQDRLRKISSGERRLLDLARQIIVSELVYACSKS-PEEV 161


>gi|86159279|ref|YP_466064.1| CarD family transcriptional regulator [Anaeromyxobacter
           dehalogenans 2CP-C]
 gi|85775790|gb|ABC82627.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-C]
          Length = 399

 Score = 61.2 bits (147), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 38/161 (23%), Positives = 77/161 (47%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            + G+ +VYP  GV  +   + +++AG KLE   +  ++D   + VP GK   IG+R+++
Sbjct: 30  LKPGDRVVYPNQGVCAVVGWEVKDIAGQKLELVRMTREEDGAAVMVPKGKVPSIGLRRVA 89

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +E     +          W  R ++   ++ +G ++ +AEVV+ LH          
Sbjct: 90  TGAQMEGVFHYLGAVYDDPELDWKIRHRDNADRLIAGGVLGVAEVVKGLHSLSRLRPLPT 149

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            ER+ Y++A + +V E++   ++    A + I+  L   + 
Sbjct: 150 KEREQYDNARHLLVHEVSVSLAVPPGLAEDYIDYALMPPAG 190


>gi|288555760|ref|YP_003427695.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
 gi|288546920|gb|ADC50803.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
          Length = 162

 Score = 60.8 bits (146), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 37/155 (23%), Positives = 79/155 (50%), Gaps = 3/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+H+VYP HG GTI +I+E++V G    ++++ F    + L +P  +    G+RK+ 
Sbjct: 2   FKVGDHVVYPYHGAGTIQDIEEKDVLGETHSYYILHFPLVDVKLMLPENRIDQSGLRKVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +E  ++ ++       +  S  ++E +  + SG++I  A ++  L +  S+     
Sbjct: 62  DQQELEVLVEALQNGPETPPS-TSHFSRETENLLKSGNIIDAAHLISSLSKKQSERANGL 120

Query: 134 --SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
              +R   + A   +  E+  +N ++E +A   I+
Sbjct: 121 HIQDRNHLQKARQMIASELVLMNDMTEEQAYEFID 155


>gi|221217751|ref|ZP_03589219.1| putative transcription factor [Borrelia burgdorferi 72a]
 gi|225550083|ref|ZP_03771043.1| putative transcription factor [Borrelia burgdorferi 118a]
 gi|221192428|gb|EEE18647.1| putative transcription factor [Borrelia burgdorferi 72a]
 gi|225369195|gb|EEG98648.1| putative transcription factor [Borrelia burgdorferi 118a]
          Length = 162

 Score = 60.8 bits (146), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 72/150 (48%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSREKVEEVFDVIKEFEGQIDSKKIKDGGYEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEA 148


>gi|30264785|ref|NP_847162.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Ames]
 gi|47778348|ref|YP_021614.2| CarD family transcriptional regulator [Bacillus anthracis str.
           'Ames Ancestor']
 gi|165869635|ref|ZP_02214293.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167638161|ref|ZP_02396439.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170705571|ref|ZP_02896035.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
 gi|254725089|ref|ZP_05186872.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. A1055]
 gi|254736826|ref|ZP_05194532.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Western North America USA6153]
 gi|254754539|ref|ZP_05206574.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Vollum]
 gi|254757371|ref|ZP_05209398.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Australia 94]
 gi|30259460|gb|AAP28648.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Ames]
 gi|47552053|gb|AAT34089.2| transcriptional regulator, CarD family [Bacillus anthracis str.
           'Ames Ancestor']
 gi|164714464|gb|EDR19983.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167513978|gb|EDR89346.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170129696|gb|EDS98559.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
          Length = 148

 Score = 60.8 bits (146), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 75/151 (49%), Gaps = 5/151 (3%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 2   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 62  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 121

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+Q+ ++A   M R  +  N     E++NL
Sbjct: 122 SEKQMLDNARKMMFRISSRYN-----ESLNL 147


>gi|219684504|ref|ZP_03539447.1| putative transcription factor [Borrelia garinii PBr]
 gi|219671866|gb|EED28920.1| putative transcription factor [Borrelia garinii PBr]
          Length = 162

 Score = 60.8 bits (146), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 71/150 (47%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F    M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFSDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSREKVEEVFDIIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEA 148


>gi|49187604|ref|YP_030857.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Sterne]
 gi|65322084|ref|ZP_00395043.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Bacillus anthracis str. A2012]
 gi|177651210|ref|ZP_02934041.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190568329|ref|ZP_03021237.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|227817506|ref|YP_002817515.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
 gi|49181531|gb|AAT56907.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Sterne]
 gi|172083036|gb|EDT68098.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190560585|gb|EDV14562.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|227003355|gb|ACP13098.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
          Length = 153

 Score = 60.8 bits (146), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 75/151 (49%), Gaps = 5/151 (3%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+Q+ ++A   M R  +  N     E++NL
Sbjct: 127 SEKQMLDNARKMMFRISSRYN-----ESLNL 152


>gi|51598613|ref|YP_072801.1| transcription factor, putative [Borrelia garinii PBi]
 gi|219685417|ref|ZP_03540235.1| putative transcription factor [Borrelia garinii Far04]
 gi|51573184|gb|AAU07209.1| transcription factor, putative [Borrelia garinii PBi]
 gi|219672973|gb|EED29994.1| putative transcription factor [Borrelia garinii Far04]
          Length = 162

 Score = 60.5 bits (145), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 71/150 (47%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F    M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFSDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSREKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEA 148


>gi|225552173|ref|ZP_03773113.1| putative transcription factor [Borrelia sp. SV1]
 gi|225371171|gb|EEH00601.1| putative transcription factor [Borrelia sp. SV1]
          Length = 162

 Score = 60.5 bits (145), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/150 (26%), Positives = 71/150 (47%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSKEKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  E 
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEV 148


>gi|224531667|ref|ZP_03672299.1| putative transcription factor [Borrelia valaisiana VS116]
 gi|224511132|gb|EEF81538.1| putative transcription factor [Borrelia valaisiana VS116]
          Length = 162

 Score = 60.1 bits (144), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 71/150 (47%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP HGVGTI +I+ +E  G  ++++ I F    M   VPV K  D G+R L
Sbjct: 2   AFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFSDMIFMVPVAKVDDFGIRAL 61

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++          E+  K    D++  A++ + L++  +Q E 
Sbjct: 62  VSREKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILEHEISLALQISFEEA 148


>gi|15613946|ref|NP_242249.1| transcriptional factor [Bacillus halodurans C-125]
 gi|10173999|dbj|BAB05102.1| transcriptional factor [Bacillus halodurans C-125]
          Length = 164

 Score = 60.1 bits (144), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 43/165 (26%), Positives = 84/165 (50%), Gaps = 9/165 (5%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+H+VYP HG G + +I+E+E+ G    +FV+ F    + + +P  +    G+RK+ 
Sbjct: 2   FKIGDHVVYPFHGAGVVQDIEEKEILGETHSYFVLHFPLTDIKVMLPKHRIQQSGLRKVI 61

Query: 74  EAHFVERALK-LVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +   V+  +  L +G      T  ++ +++ +  + SG +I  A ++  L +   Q E++
Sbjct: 62  DQSDVDHLIDALQKGPETPLST--NQFSKDTENLLKSGSIIDAAHLISGLAK--KQAERT 117

Query: 133 ----YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
                 +R   + A   +  E+  V +ISE +A   I+ +L S S
Sbjct: 118 NGLHIQDRNFLQKAKQFIASELIVVKNISEEQAYAFIDEHLPSPS 162


>gi|94967584|ref|YP_589632.1| CarD family transcriptional regulator [Candidatus Koribacter
           versatilis Ellin345]
 gi|94549634|gb|ABF39558.1| transcriptional regulator, CarD family [Candidatus Koribacter
           versatilis Ellin345]
          Length = 186

 Score = 59.7 bits (143), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 42/162 (25%), Positives = 74/162 (45%), Gaps = 4/162 (2%)

Query: 7   RDAMRQ--GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           R AM     F  G+ +VYP HGVG I +I  + +     + + +      + + VP    
Sbjct: 6   RSAMNNTLSFIVGDKVVYPNHGVGIIEQISSRTIGAAVQKCYWLKIKASSLRVMVPFDSV 65

Query: 65  IDIGMRKLSEAHFVERALK-LVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
             +G+R++     + + ++ L  GK       W  R +E   K+ +G L+ +A V++ L 
Sbjct: 66  HLVGLRRVVRNGEITKIIEYLSDGKCESNHD-WKDRFKENSDKMRTGSLMEVAGVLKSLL 124

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
                   S+ E+++ E A   +V E+A   S  EPE   L+
Sbjct: 125 LLGQSKPLSFREKKMLERARYLLVSELAMAKSCEEPEVEELL 166


>gi|146296815|ref|YP_001180586.1| CarD family transcriptional regulator [Caldicellulosiruptor
           saccharolyticus DSM 8903]
 gi|145410391|gb|ABP67395.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           saccharolyticus DSM 8903]
          Length = 173

 Score = 59.7 bits (143), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/142 (27%), Positives = 75/142 (52%), Gaps = 4/142 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL- 72
           ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R + 
Sbjct: 7   YKVGDTIIHPLHGAGEIVEIVEEKVFDNVQKYYVVRILYNGMKILVPVNSAAEIGIRNVI 66

Query: 73  --SEAHFVERALKLVRGKARVKRT-MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
              EA+ V   LK    K  +     +++R +E   K+ SG++  + EV++ L   +   
Sbjct: 67  SEEEANKVFELLKDNNFKVDINNCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAAREKVK 126

Query: 130 EKSYSERQLYESALNRMVREIA 151
             S +E+ ++ +A   +V E+ 
Sbjct: 127 GLSTNEKMMFNNAKQILVSELG 148


>gi|297584628|ref|YP_003700408.1| CarD family transcriptional regulator [Bacillus selenitireducens
           MLS10]
 gi|297143085|gb|ADH99842.1| transcriptional regulator, CarD family [Bacillus selenitireducens
           MLS10]
          Length = 164

 Score = 59.7 bits (143), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 83/160 (51%), Gaps = 4/160 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP HG G + +I+E+E+ G KL +FV+ F  +++ L +P  K  + G+R + 
Sbjct: 2   FSIGDCVVYPYHGAGRVEKIEEKEILGNKLLYFVVYFPLNQVTLMLPENKIGESGLRPVI 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRR--AQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
               ++  ++ +  +   + T  + +  ++E +A + +G +   A V+  L+   S+   
Sbjct: 62  TKKELDDVVESLCEEVEARETAATAKPYSRENEALLKTGSIYDAARVISLLNAKKSERAN 121

Query: 132 SY--SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
                +R+  E A   +V E+  +N  SE +A   I+ N+
Sbjct: 122 GLHIEDRKNLERATQFLVSEVKNINGFSEEDAKLFIKNNI 161


>gi|312793424|ref|YP_004026347.1| CarD family transcriptional regulator [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312876058|ref|ZP_07736047.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           lactoaceticus 6A]
 gi|311797256|gb|EFR13596.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           lactoaceticus 6A]
 gi|312180564|gb|ADQ40734.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 168

 Score = 59.3 bits (142), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/152 (25%), Positives = 77/152 (50%), Gaps = 4/152 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R + 
Sbjct: 2   YKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNVI 61

Query: 74  EAHFVERALKLVRG---KARVKRT-MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +   
Sbjct: 62  SEEEANRVFELLKDNSFKVDINSCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKVK 121

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEA 161
             S +E+ ++ +A   +V E+     I+  E 
Sbjct: 122 GLSTNEKMMFNTAKQILVSELGLAKGIAIEEV 153


>gi|254687524|ref|ZP_05151380.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. CNEVA-9066]
 gi|254741862|ref|ZP_05199549.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Kruger B]
          Length = 146

 Score = 58.9 bits (141), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 37/129 (28%), Positives = 66/129 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 2   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 61

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 62  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 121

Query: 134 SERQLYESA 142
           SE+Q+ ++A
Sbjct: 122 SEKQMLDNA 130


>gi|187935467|ref|YP_001885252.1| CarD family transcriptional regulator [Clostridium botulinum B str.
           Eklund 17B]
 gi|187723620|gb|ACD24841.1| transcriptional regulator, CarD family [Clostridium botulinum B
           str. Eklund 17B]
          Length = 160

 Score = 58.5 bits (140), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 83/159 (52%), Gaps = 2/159 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYP  G+G +  I+E+   G K ++ +I   K+ + + +P+ +     +R ++
Sbjct: 2   FKVGDKVVYPMQGIGIVQRIEEKLFCGTKRKYCIIQMLKNSLEIMIPIDRIAKSRLRMIN 61

Query: 74  EAHFVERALKLVRGKARVKR-TMWSRRAQEYDA-KINSGDLIAIAEVVRDLHRTDSQPEK 131
           + + +E  L  ++  +  +   + S+   E +  KI SG L    +V  +L   +     
Sbjct: 62  DINTLEDILNHIQDTSDPEELNLPSKERYEINLNKIKSGLLEDSLDVFYNLTLINKMKAL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           + +E+Q+  +A N ++ EI  +  ISE EA  +++ ++S
Sbjct: 122 NSTEKQILNTAQNFLIDEIRVIKDISENEATKILKSSIS 160


>gi|302871953|ref|YP_003840589.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           obsidiansis OB47]
 gi|302574812|gb|ADL42603.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           obsidiansis OB47]
          Length = 168

 Score = 58.2 bits (139), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 36/142 (25%), Positives = 74/142 (52%), Gaps = 4/142 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R + 
Sbjct: 2   YKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNVI 61

Query: 74  EAHFVERALKLVRG---KARVKRT-MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +   
Sbjct: 62  SEEEANRVFELLKDNSFKVDINSCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKIK 121

Query: 130 EKSYSERQLYESALNRMVREIA 151
             S +E+ ++ +A   +V E+ 
Sbjct: 122 GLSTNEKMMFNTAKQILVSELG 143


>gi|312135061|ref|YP_004002399.1| CarD family transcriptional regulator [Caldicellulosiruptor
           owensensis OL]
 gi|311775112|gb|ADQ04599.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           owensensis OL]
          Length = 168

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 36/142 (25%), Positives = 74/142 (52%), Gaps = 4/142 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R + 
Sbjct: 2   YKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNVI 61

Query: 74  EAHFVERALKLVRG---KARVKRT-MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +   
Sbjct: 62  SEEEANRVFELLKDNSFKVDINSCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKIK 121

Query: 130 EKSYSERQLYESALNRMVREIA 151
             S +E+ ++ +A   +V E+ 
Sbjct: 122 GLSTNEKMMFNTAKQILVSELG 143


>gi|222529236|ref|YP_002573118.1| CarD family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|312622517|ref|YP_004024130.1| CarD family transcriptional regulator [Caldicellulosiruptor
           kronotskyensis 2002]
 gi|222456083|gb|ACM60345.1| transcriptional regulator, CarD family [Caldicellulosiruptor bescii
           DSM 6725]
 gi|312202984|gb|ADQ46311.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           kronotskyensis 2002]
          Length = 168

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 37/152 (24%), Positives = 77/152 (50%), Gaps = 4/152 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R + 
Sbjct: 2   YKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNVI 61

Query: 74  EAHFVERALKLVRG---KARVKRT-MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +   
Sbjct: 62  SEEEANRVFELLKDNSFKVDINGCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKVK 121

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEA 161
             S +E+ ++ +A   +V E+     ++  E 
Sbjct: 122 GLSTNEKMMFNTAKQILVSELGLAKGLAIEEV 153


>gi|312127692|ref|YP_003992566.1| CarD family transcriptional regulator [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311777711|gb|ADQ07197.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 168

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 37/152 (24%), Positives = 77/152 (50%), Gaps = 4/152 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R + 
Sbjct: 2   YKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNVI 61

Query: 74  EAHFVERALKLVRG---KARVKRT-MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +   
Sbjct: 62  SEEEANRVFELLKDNSFKVDINGCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKVK 121

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEA 161
             S +E+ ++ +A   +V E+     ++  E 
Sbjct: 122 GLSTNEKMMFNTAKQILVSELGLAKGLAIEEV 153


>gi|281414624|ref|ZP_06246366.1| transcriptional regulator, CarD family protein [Micrococcus luteus
           NCTC 2665]
          Length = 137

 Score = 57.0 bits (136), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 62/117 (52%)

Query: 45  FFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYD 104
           +  +   +  + ++VP      +G+R + +A  +E  ++++R +   + T WSRR +   
Sbjct: 11  YLKLKVAQGDLTIEVPAENVDLVGVRDVVDAEGLEHVMEVLRAEHVEEPTNWSRRYKANL 70

Query: 105 AKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEA 161
            K+ SGD+  +AEVVRDL R D     S  E+++   A   +V E+A    ++E EA
Sbjct: 71  EKLASGDVNKVAEVVRDLWRRDQDRGLSAGEKRMLSKARQVLVSELALAKKVTEEEA 127


>gi|297624690|ref|YP_003706124.1| CarD family transcriptional regulator [Truepera radiovictrix DSM
           17093]
 gi|297165870|gb|ADI15581.1| transcriptional regulator, CarD family [Truepera radiovictrix DSM
           17093]
          Length = 168

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 41/156 (26%), Positives = 73/156 (46%), Gaps = 2/156 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK-L 72
           ++ G+ +V P +GVG +     + VAG    ++ + F        VPV      G+R  L
Sbjct: 8   YKHGDQVVLPPYGVGVVAGTTVRTVAGTDHHYYEVEFPNGTSKAFVPVAAPQAAGLRPAL 67

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++A   +   +L  G+  + +  W+ R +     ++SGD   IA +  +L R D +    
Sbjct: 68  TKAEVHKVLERLSNGRINLPK-QWAARHRRVTEILSSGDPYQIATLGSELRRWDLERGLP 126

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             +RQ Y  AL  +  EI+AV  I+  EA  +++  
Sbjct: 127 DLDRQAYRRALRLLAGEISAVLGITPKEAREMMDAG 162


>gi|257068130|ref|YP_003154385.1| CarD-like transcriptional regulator [Brachybacterium faecium DSM
           4810]
 gi|256558948|gb|ACU84795.1| CarD-like transcriptional regulator [Brachybacterium faecium DSM
           4810]
          Length = 179

 Score = 56.2 bits (134), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/154 (27%), Positives = 73/154 (47%), Gaps = 2/154 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL-S 73
           + G+ + +P HG   I     + V G + E+  +    D+M + VP      +G+R L +
Sbjct: 14  KVGDVLTHPVHGPVRIVSTCTRTVRGTEREYVDLEVIGDEMRISVPSDGRDVVGLRTLLA 73

Query: 74  EAHFVERALKL-VRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           E   VE   +L    +A  K+  W+ R +    ++ +G L    EV+R + R       S
Sbjct: 74  EPEIVEMITQLGAPIEAPGKKASWAHRIKSLQMQLQTGRLTDRVEVIRAIVRDSGGTPSS 133

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            +ER L + A++ +  EIA   S+S  EA  L++
Sbjct: 134 LAERNLLKQAIDPLASEIAIARSVSREEAHELLQ 167


>gi|188590479|ref|YP_001920384.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
 gi|188500760|gb|ACD53896.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
          Length = 160

 Score = 55.5 bits (132), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 36/150 (24%), Positives = 76/150 (50%), Gaps = 2/150 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP  G+G +  I+E+   G K ++ +I   K+ + + +P+ +  +  +R ++
Sbjct: 2   FNVGDKVVYPMQGIGIVQRIEEKLFCGKKKKYCIIQMLKNNLEIMIPIDRLPNSKLRMIN 61

Query: 74  EAHFVERALKLVRGKARVKRT-MWSRRAQEYDA-KINSGDLIAIAEVVRDLHRTDSQPEK 131
           + + +E  L  +   +  +   + S++  E +  KI SG L    +V  +L   +     
Sbjct: 62  DINTLEDILNNIGDTSNPEEADLPSKQRYEINLNKIKSGLLEDSLDVFYNLTLINKNKAL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
           + +E+Q+  +A   ++ EI  +  ISE EA
Sbjct: 122 NSTEKQILNTAQKFLIDEIRVIKDISENEA 151


>gi|182419889|ref|ZP_02951127.1| transcriptional regulator, CarD family [Clostridium butyricum 5521]
 gi|237669021|ref|ZP_04529005.1| transcriptional regulator, CarD family [Clostridium butyricum E4
           str. BoNT E BL5262]
 gi|182376258|gb|EDT73842.1| transcriptional regulator, CarD family [Clostridium butyricum 5521]
 gi|237657369|gb|EEP54925.1| transcriptional regulator, CarD family [Clostridium butyricum E4
           str. BoNT E BL5262]
          Length = 165

 Score = 55.1 bits (131), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 42/162 (25%), Positives = 81/162 (50%), Gaps = 4/162 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP  GVG I  I+E+E  G K +++ I    + M L +P+ +     MR +S
Sbjct: 4   FDIGDKVVYPNQGVGVIDLIEEKEFKGKKEKYYKIHLINNTMKLSLPLSRVKSANMRHIS 63

Query: 74  EAHFVERALK----LVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           ++  ++  L      V+   ++ +T +  R + Y  K+ SG L    E++ +L    +  
Sbjct: 64  DSKTLDSKLNNIKYYVKEVDKLAKTNYKERNEIYSTKVKSGTLEDFLEIISNLTELKTIH 123

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           + +  E+ +  +    ++ EIA    IS  EA  L+++ ++S
Sbjct: 124 DLNSMEKTILRNTKRILIDEIAQSKKISLDEAGYLLDIFMNS 165


>gi|251781081|ref|ZP_04824001.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|243085396|gb|EES51286.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 160

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 36/150 (24%), Positives = 76/150 (50%), Gaps = 2/150 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP  G+G +  I+E+   G K ++ +I   K+ + + +P+ +  +  +R ++
Sbjct: 2   FNVGDKVVYPMQGIGIVQRIEEKLFCGKKKKYCIIQMLKNNLEIMIPLDRIPNSKLRMIN 61

Query: 74  EAHFVERALKLVRGKARVKRT-MWSRRAQEYDA-KINSGDLIAIAEVVRDLHRTDSQPEK 131
           + + +E  L  +   +  +   + S++  E +  KI SG L    +V  +L   +     
Sbjct: 62  DINTLEDILNNIGDTSNPEEADLPSKQRYEINLNKIKSGLLEDSLDVFYNLTLINKNKAL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
           + +E+Q+  +A   ++ EI  +  ISE EA
Sbjct: 122 NSTEKQILNTAQKFLIDEIRVIKDISENEA 151


>gi|203284271|ref|YP_002222011.1| transcription factor, putative [Borrelia duttonii Ly]
 gi|201083714|gb|ACH93305.1| transcription factor, putative [Borrelia duttonii Ly]
          Length = 161

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 36/149 (24%), Positives = 72/149 (48%), Gaps = 4/149 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R L 
Sbjct: 3   FVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVARAADLGIRALV 62

Query: 74  EAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               VE    +++  + ++ +      + ++       D+++ A++ + L+    Q E  
Sbjct: 63  SKEKVEEVFDIIKDFEGQIDQKKIKDGSHDF---YKQSDILSTAKLYKFLYVKSMQKELP 119

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
           + E+++       +  EI+    IS  EA
Sbjct: 120 FYEKRILNDFELILQHEISLALQISFEEA 148


>gi|203287808|ref|YP_002222823.1| transcription factor, putative [Borrelia recurrentis A1]
 gi|201085028|gb|ACH94602.1| transcription factor, putative [Borrelia recurrentis A1]
          Length = 164

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 36/149 (24%), Positives = 72/149 (48%), Gaps = 4/149 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R L 
Sbjct: 3   FVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVARAADLGIRALV 62

Query: 74  EAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               VE    +++  + ++ +      + ++       D+++ A++ + L+    Q E  
Sbjct: 63  SKEKVEEVFDIIKDFEGQIDQKKIKDGSHDF---YKQSDILSTAKLYKFLYVKSMQKELP 119

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
           + E+++       +  EI+    IS  EA
Sbjct: 120 FYEKRILNDFELILQHEISLALQISFEEA 148


>gi|119953150|ref|YP_945359.1| CarD-like transcriptional regulator [Borrelia turicatae 91E135]
 gi|119861921|gb|AAX17689.1| CarD-like transcriptional regulator [Borrelia turicatae 91E135]
          Length = 161

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 36/150 (24%), Positives = 72/150 (48%), Gaps = 4/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R L
Sbjct: 2   AFVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVSRADDLGIRAL 61

Query: 73  SEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                VE    +++  + ++ +      + ++       D+++ A++ + L+    Q E 
Sbjct: 62  VSKEKVEEVFNIIKDFEEQIDQKKIKDGSHDF---YKQSDILSTAKLYKFLYTKSMQKEL 118

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEA 161
            + E+++       +  EI+    IS  EA
Sbjct: 119 PFYEKRILNDFELILQHEISLALQISFEEA 148


>gi|187918225|ref|YP_001883788.1| CarD-like transcriptional regulator [Borrelia hermsii DAH]
 gi|119861073|gb|AAX16868.1| CarD-like transcriptional regulator [Borrelia hermsii DAH]
          Length = 161

 Score = 54.3 bits (129), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 40/162 (24%), Positives = 78/162 (48%), Gaps = 4/162 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R L 
Sbjct: 3   FVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVSRADDLGIRALV 62

Query: 74  EAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               VE    +++  + ++ +      + ++       D+++ A++ + L+    Q E  
Sbjct: 63  SREKVEEVFDIMKDFEGQIDQKKIKDGSHDF---YKQSDILSTAKLYKFLYTKSMQKELP 119

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           + E+++       +  EI+    IS  EA   I+  LS+  S
Sbjct: 120 FYEKRILNDFELILQHEISLALQISFEEAKQKIKEVLSTGKS 161


>gi|328951535|ref|YP_004368870.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
 gi|328451859|gb|AEB12760.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
          Length = 164

 Score = 53.9 bits (128), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 42/158 (26%), Positives = 74/158 (46%), Gaps = 3/158 (1%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M+Q +R G+ +V P +GVG +  I ++ VAG+   ++ + F   +    VPV     +G+
Sbjct: 1   MKQ-YRPGDKVVLPPYGVGVVAGIAKRTVAGVGRSYYQVEFPGTRSKAFVPVESPGQVGL 59

Query: 70  RK-LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R  LS     E   +L  G+  + +  W+ R +     +  GD   IA +   L R + +
Sbjct: 60  RPALSREEVGEILERLKNGRVSLPK-QWAARHRRVTEILAEGDPYRIAVLAGQLRRWEVE 118

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
                 +RQ +  A+N +  E++    I+  EA  L E
Sbjct: 119 RGLPDLDRQAFRRAVNLLAEEVSQALEITVEEARQLFE 156


>gi|320335300|ref|YP_004172011.1| CarD family transcriptional regulator [Deinococcus maricopensis DSM
           21211]
 gi|319756589|gb|ADV68346.1| transcriptional regulator, CarD family [Deinococcus maricopensis
           DSM 21211]
          Length = 168

 Score = 52.0 bits (123), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 34/114 (29%), Positives = 57/114 (50%), Gaps = 3/114 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRKL 72
            R G+ +VYP HG G +  + E+ V G+K  ++ V  F KD   L VPV +A D+G+R+ 
Sbjct: 7   LREGDSVVYPNHGAGVVRALTERTVLGVKQAYYEVHLFGKDAQVL-VPVARARDLGLRRA 65

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +    V   L  +     +  +  +R   E +  + + DL+ +  +V  L R D
Sbjct: 66  TRREDVPNLLAELSTDIPLPESFQARYRAEQEL-LQAADLVTLTRLVGTLVRRD 118


>gi|313679234|ref|YP_004056973.1| CarD family transcriptional regulator [Oceanithermus profundus DSM
           14977]
 gi|313151949|gb|ADR35800.1| transcriptional regulator, CarD family [Oceanithermus profundus DSM
           14977]
          Length = 164

 Score = 52.0 bits (123), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 34/144 (23%), Positives = 66/144 (45%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +R G+ +V P +GVG +  I ++ VAG+   ++ + F   +    VPV     +G+R   
Sbjct: 4   YRPGDKVVLPPYGVGVVAGIAQRTVAGIGRSYYQVEFPGSRSKAFVPVESPQQVGLRPAL 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V + L+ ++         W+ R +     ++ G+   IA +   L R D++     
Sbjct: 64  TRDEVPQILEHLKHGQLPLPKQWAARHRRVTEILSEGNPHRIAILAGQLRRWDAERGLPD 123

Query: 134 SERQLYESALNRMVREIAAVNSIS 157
            +RQ +  A+N +  E+A    I+
Sbjct: 124 LDRQAFRRAINLLAEEVAQALEIT 147


>gi|320449429|ref|YP_004201525.1| transcriptional regulator [Thermus scotoductus SA-01]
 gi|320149598|gb|ADW20976.1| transcriptional regulator [Thermus scotoductus SA-01]
          Length = 164

 Score = 51.6 bits (122), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 67/153 (43%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ +V P +GVG +  I ++ V+G+   ++ + F   +    VPV     +GMRK  
Sbjct: 4   FRPGDKVVLPPYGVGVVAGIAQRSVSGISRAYYQVDFPGSRSKAYVPVEAPQSVGMRKAL 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   L L++         W+ R ++    +  G+   IA++   L   + +     
Sbjct: 64  APEEVPVILDLLKNGRMPLPKQWAARHRKTSEILADGNPYRIAQMAGQLRAWELERGLPD 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            +RQ    A+  +  E++    I+  EA  L E
Sbjct: 124 LDRQALRRAIYLLAEEVSQTLEITVQEAKRLFE 156


>gi|83952971|ref|ZP_00961698.1| transcriptional regulator, CarD family protein [Roseovarius
          nubinhibens ISM]
 gi|83835633|gb|EAP74935.1| transcriptional regulator, CarD family protein [Roseovarius
          nubinhibens ISM]
          Length = 41

 Score = 51.2 bits (121), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 20/33 (60%), Positives = 27/33 (81%)

Query: 14 FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF 46
          FR  +++VYPAHGVG I  I+EQE+AG++LE F
Sbjct: 9  FRPNDYVVYPAHGVGQIVSIEEQEIAGIELELF 41


>gi|55980137|ref|YP_143434.1| hypothetical protein TTHA0168 [Thermus thermophilus HB8]
 gi|55771550|dbj|BAD69991.1| conserved hypothetical protein [Thermus thermophilus HB8]
          Length = 164

 Score = 51.2 bits (121), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 68/153 (44%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ +V P +GVG +  I ++ V+G+   ++ + F   +    VPV     +G+RK  
Sbjct: 4   FRPGDKVVLPPYGVGVVAGIAQRSVSGVSRAYYQVDFPGSRSKAYVPVEAPHSVGLRKAL 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   L L++         W+ R ++    +  G+   IA++   L   + +     
Sbjct: 64  APEEVPVILDLLKNGRMPLPKQWAARHRKTSEILADGNPYRIAQMAGQLRAWEVERGLPD 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            +RQ    A++ +  E+A    I+  EA  L E
Sbjct: 124 LDRQALRRAIHLLAEEVAQSLEITVQEAKRLFE 156


>gi|218294627|ref|ZP_03495481.1| transcriptional regulator, CarD family [Thermus aquaticus Y51MC23]
 gi|218244535|gb|EED11059.1| transcriptional regulator, CarD family [Thermus aquaticus Y51MC23]
          Length = 164

 Score = 51.2 bits (121), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 36/153 (23%), Positives = 67/153 (43%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ +V P +GVG +  I ++ ++G+   ++ + F   +    VPV     +GMRK  
Sbjct: 4   FRPGDKVVLPPYGVGVVAGIAQRSISGVSRAYYQVDFPGSRSKAYVPVEAPQSVGMRKAL 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   L L++         W+ R ++    +  G+   IA++   L   + +     
Sbjct: 64  SPEEVPVILDLLKNGRMPLPKQWAARHRKTSEILADGNPYRIAQMAGQLRAWELERGLPD 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            +RQ    A+  +  E++    I+  EA  L E
Sbjct: 124 LDRQALRRAICLLAEEVSQTLEITVQEAKRLFE 156


>gi|46200120|ref|YP_005787.1| transcriptional regulator [Thermus thermophilus HB27]
 gi|46197748|gb|AAS82160.1| transcriptional regulator [Thermus thermophilus HB27]
          Length = 164

 Score = 51.2 bits (121), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 68/153 (44%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ +V P +GVG +  I ++ V+G+   ++ + F   +    VPV     +G+RK  
Sbjct: 4   FRPGDKVVLPPYGVGVVAGIAQRSVSGVSRAYYQVDFPGSRSKAYVPVEAPHSVGLRKAL 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   L L++         W+ R ++    +  G+   IA++   L   + +     
Sbjct: 64  APEEVPVILDLLKNGRMPLPKQWAARHRKTSEILAEGNPYRIAQMAGQLRAWEVERGLPD 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            +RQ    A++ +  E+A    I+  EA  L E
Sbjct: 124 LDRQALRRAIHLLAEEVAQSLEITVQEAKRLFE 156


>gi|83952331|ref|ZP_00961063.1| transcriptional regulator, CarD family protein [Roseovarius
           nubinhibens ISM]
 gi|83837337|gb|EAP76634.1| transcriptional regulator, CarD family protein [Roseovarius
           nubinhibens ISM]
          Length = 50

 Score = 50.1 bits (118), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/37 (64%), Positives = 28/37 (75%)

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEA 161
           TD Q E+SYSERQLYE+AL R+ RE+AAVN   E  A
Sbjct: 1   TDDQREQSYSERQLYEAALERLTREVAAVNGNDEVAA 37


>gi|320333642|ref|YP_004170353.1| CarD family transcriptional regulator [Deinococcus maricopensis DSM
           21211]
 gi|319754931|gb|ADV66688.1| transcriptional regulator, CarD family [Deinococcus maricopensis
           DSM 21211]
          Length = 165

 Score = 49.7 bits (117), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 35/142 (24%), Positives = 64/142 (45%), Gaps = 2/142 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +V P +G+G ++    + VAG    ++ + F        VPV   +  GMR   
Sbjct: 4   FSKGDRVVLPPYGIGVVSGTCTRPVAGTPHAYYQVEFPNTTSRAFVPVDAPMTAGMRPAL 63

Query: 74  EAHFVERAL-KLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               +   L +L  G+  + R  W+ R ++    + SGD   +A +  +L R + +    
Sbjct: 64  TGEDMPALLERLQEGQLNLPR-QWAARHRKVTEILVSGDPFELATLACELRRWNVERGLP 122

Query: 133 YSERQLYESALNRMVREIAAVN 154
             +RQ Y  AL  + +E+  +N
Sbjct: 123 DLDRQAYRRALKLLNQEVHDLN 144


>gi|4154037|emb|CAA22685.1| putative transcriptional regulator [Mycobacterium leprae]
          Length = 94

 Score = 49.7 bits (117), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 46/86 (53%)

Query: 14 FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
          F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R + 
Sbjct: 3  FKVGDTVVYPHHGAALVEAIETRTINGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRDVV 62

Query: 74 EAHFVERALKLVRGKARVKRTMWSRR 99
              +++  +++R     + T WSRR
Sbjct: 63 GQEGLDQVFQVLRAPHTEEPTNWSRR 88


>gi|85707555|ref|ZP_01038627.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           217]
 gi|85667927|gb|EAQ22816.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           217]
          Length = 51

 Score = 48.9 bits (115), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/51 (49%), Positives = 36/51 (70%)

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           R+D Q E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L S+++
Sbjct: 1   RSDDQREQSYSERQLYEAALERLTREVAAVSGGDEVLAARQVDEVLVSRAA 51


>gi|229917522|ref|YP_002886168.1| CarD family transcriptional regulator [Exiguobacterium sp. AT1b]
 gi|229468951|gb|ACQ70723.1| transcriptional regulator, CarD family [Exiguobacterium sp. AT1b]
          Length = 172

 Score = 48.1 bits (113), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 37/129 (28%), Positives = 63/129 (48%), Gaps = 5/129 (3%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI--AFDKDKMCLKVPVGKAIDIGMRK 71
           F+TG+ I+Y  HGV  I +I ++ VAG    ++ +    +  K+ + +PV    ++ M  
Sbjct: 2   FKTGDLIIYSTHGVCRIDDISDKTVAGETKSYYTLHPINNSQKLQISIPVDND-NVMMLT 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           L EA      L+  R          + R +E+   ++SG+   IA+VV  L R   Q E 
Sbjct: 61  LLEADEASEILESFRSPGVEWNPHSNNRNREFLNVVHSGNRHEIAQVVNTLSR--RQIEA 118

Query: 132 SYSERQLYE 140
             + ++LYE
Sbjct: 119 LQANKKLYE 127


>gi|291294864|ref|YP_003506262.1| CarD family transcriptional regulator [Meiothermus ruber DSM 1279]
 gi|290469823|gb|ADD27242.1| transcriptional regulator, CarD family [Meiothermus ruber DSM 1279]
          Length = 164

 Score = 48.1 bits (113), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 39/154 (25%), Positives = 69/154 (44%), Gaps = 2/154 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +R G+ +V P +GVG +  I ++ VAG    ++ + F   +    VPV       +R+  
Sbjct: 4   YRPGDKVVLPPYGVGVVAGIAQRSVAGSDRAYYQVDFPGTRSKAYVPVEAPQTTRLRRAL 63

Query: 74  EAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               V   L L++ G+  + R  W+ R ++    +  GD   IA +   L   + +    
Sbjct: 64  SPDQVNEILALLQEGRLPLPR-QWAARHRKTTEILADGDPFRIATLAGQLRAWELEKGLP 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             +RQ    A++ +  EI+ V  I+  EA  L E
Sbjct: 123 DLDRQALRRAMHLLAEEISQVLEITLDEARKLFE 156


>gi|226354827|ref|YP_002784567.1| CarD family transcriptional regulator [Deinococcus deserti VCD115]
 gi|226316817|gb|ACO44813.1| putative Transcriptional regulator, CarD family [Deinococcus
           deserti VCD115]
          Length = 178

 Score = 47.0 bits (110), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 32/140 (22%), Positives = 64/140 (45%), Gaps = 2/140 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK- 71
            F+ G+ +V P +G+G +    E+ VAG    ++ + F        VPV      G+R+ 
Sbjct: 5   AFQIGDRVVLPPYGIGVVCGTCERPVAGQAHAYYQVEFPATASRAYVPVADPACTGIRRA 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           L++    +   +L  G+  + R  WS R +  +  +  G    +A +  +L R + Q   
Sbjct: 65  LNDQDLPDLLNQLCHGELELPR-QWSARHRVVNDILAGGKPYELAALTCELRRWNMQRGL 123

Query: 132 SYSERQLYESALNRMVREIA 151
              +RQ +  A+  + +E++
Sbjct: 124 PDLDRQAFRRAIRLLEQEVS 143


>gi|169335625|ref|ZP_02862818.1| hypothetical protein ANASTE_02045 [Anaerofustis stercorihominis DSM
           17244]
 gi|169258363|gb|EDS72329.1| hypothetical protein ANASTE_02045 [Anaerofustis stercorihominis DSM
           17244]
          Length = 170

 Score = 46.2 bits (108), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 71/163 (43%), Gaps = 15/163 (9%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIG-MRK 71
           ++  E I+Y   GV  I+EI E+   G K +++++    K+ M + VPV        MRK
Sbjct: 2   YKVDEIILYDTEGVCRISEITEKTFGGKKQKYYILNTVSKNSMTIYVPVDNEKQTSKMRK 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           +  +   +   KL+R     +  +W      R + Y   I SGD   + +++R LH    
Sbjct: 62  ILSS---DEIYKLIRNMPN-EDLIWIENDGERKETYKQIIQSGDRRGLIKIIRTLHFQKE 117

Query: 128 QPEKS-----YSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           Q  K       S+ Q  +SA   +  E + V  I   + I  I
Sbjct: 118 QLTKQGKKLHMSDEQFMKSAQKILHEEFSHVLKIEPNQVIPFI 160


>gi|254518837|ref|ZP_05130893.1| CarD family transcriptional regulator [Clostridium sp. 7_2_43FAA]
 gi|226912586|gb|EEH97787.1| CarD family transcriptional regulator [Clostridium sp. 7_2_43FAA]
          Length = 162

 Score = 45.4 bits (106), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 53/99 (53%), Gaps = 2/99 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKL 72
           F+  +++VY ++GV  +T+I++  +   +LE+++++    +KM +K PV     I MR+L
Sbjct: 2   FKINDYVVYGSNGVCKVTDIEQVTLRNEELEYYILSPVYNEKMTIKTPVNNQ-KILMREL 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGD 111
                +   LK +     V+     RR +EY A I  G+
Sbjct: 61  MTKAEIVNLLKEISKNETVEIEDSRRRVEEYKAIIRRGN 99


>gi|160946835|ref|ZP_02094038.1| hypothetical protein PEPMIC_00794 [Parvimonas micra ATCC 33270]
 gi|158447219|gb|EDP24214.1| hypothetical protein PEPMIC_00794 [Parvimonas micra ATCC 33270]
          Length = 159

 Score = 43.5 bits (101), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 36/155 (23%), Positives = 66/155 (42%), Gaps = 1/155 (0%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID-IGMRKLSE 74
            GE I YP HG G I  I+++++      F+VI    ++          ID    RKL  
Sbjct: 3   VGEKIFYPMHGAGLIKSIEDKDLGDYCERFYVIELPFEQNLHIFIKEDDIDKFEFRKLVN 62

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              ++     +  +       W +R +E   ++ S D+  IA V++ L   + + + S  
Sbjct: 63  EDTLDEVYNYLNNEEFPMPNNWVQRYKENTKRLKSSDIFNIAYVLKGLSIRNEKGKLSLK 122

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           E  +   A   +V E   V+  S+ +   +IE ++
Sbjct: 123 ELFMLNLAKRILVSEFVMVSGFSKNKINKIIEYSM 157


>gi|94984278|ref|YP_603642.1| CarD family transcriptional regulator [Deinococcus geothermalis DSM
           11300]
 gi|94554559|gb|ABF44473.1| transcriptional regulator, CarD family [Deinococcus geothermalis
           DSM 11300]
          Length = 167

 Score = 43.1 bits (100), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 33/141 (23%), Positives = 61/141 (43%), Gaps = 1/141 (0%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           R  FRTG+ +V P +G+G ++   ++ VAG    ++ + F        VPV      G+R
Sbjct: 3   RAFFRTGDRVVLPPYGIGVVSGTCQRPVAGSIQVYYQVDFPNTASRAFVPVDAPQSTGLR 62

Query: 71  -KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
             L+ A       +L   +       W+ R +     +  GD   IA +  +L R + + 
Sbjct: 63  AALTAADMPGLLQRLQSSQTLNLPRQWAARHRRVTEILVGGDPYEIATLTCELRRWNMER 122

Query: 130 EKSYSERQLYESALNRMVREI 150
                +RQ +  A+  + +E+
Sbjct: 123 GLPDLDRQAFRRAIRLLEQEV 143


>gi|297567462|ref|YP_003686434.1| CarD family transcriptional regulator [Meiothermus silvanus DSM
           9946]
 gi|296851911|gb|ADH64926.1| transcriptional regulator, CarD family [Meiothermus silvanus DSM
           9946]
          Length = 164

 Score = 41.6 bits (96), Expect = 0.048,   Method: Compositional matrix adjust.
 Identities = 35/154 (22%), Positives = 66/154 (42%), Gaps = 2/154 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK-L 72
           +R G+ +V P +GVG +  I ++ ++G +  ++ + F   +    VPV       MR  L
Sbjct: 4   YRPGDKVVLPPYGVGVVASIMQRTISGNQRAYYQVEFPNTRSKAYVPVESPQSARMRPAL 63

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 E    L  G+  + R  W+ R ++    +  GD   IA +   L   + +    
Sbjct: 64  CREEIEEILELLRNGRLSLPRQ-WAARHRKTSEILAEGDPYRIATLAGQLRAWELERGLP 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             +RQ +  A++ +  E+     +S  EA  + E
Sbjct: 123 DLDRQAFRRAIHLLAEEVCQAMEVSLEEARAMFE 156


>gi|308233919|ref|ZP_07664656.1| transcription-repair coupling factor [Atopobium vaginae DSM 15829]
 gi|328943400|ref|ZP_08240865.1| transcription-repair coupling factor [Atopobium vaginae DSM 15829]
 gi|327491369|gb|EGF23143.1| transcription-repair coupling factor [Atopobium vaginae DSM 15829]
          Length = 1198

 Score = 41.6 bits (96), Expect = 0.048,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 31/47 (65%), Gaps = 1/47 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           F+ G+++V+  HG+    +I +QEVAG K ++F++ + +D   L VP
Sbjct: 499 FKPGDYVVHATHGIALFQKIVQQEVAGKKRDYFLLTYAQDDK-LYVP 544


>gi|326792245|ref|YP_004310066.1| CarD family transcriptional regulator [Clostridium lentocellum DSM
           5427]
 gi|326543009|gb|ADZ84868.1| transcriptional regulator, CarD family [Clostridium lentocellum DSM
           5427]
          Length = 160

 Score = 41.6 bits (96), Expect = 0.057,   Method: Compositional matrix adjust.
 Identities = 34/155 (21%), Positives = 66/155 (42%), Gaps = 2/155 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +  P  G G +  I+E+++     E+ +I        + +P  K      R +S
Sbjct: 2   FKVGDKVFCPLRGAGIVATIEERKMLDETKEYIIIKLQSSNTTVMIPTDKVEASHFRFVS 61

Query: 74  EAHFVERAL-KLVRGKARVK-RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +       L KL   +  +   T+  +R +    ++ +G L    EV+R+L         
Sbjct: 62  DETMTNEVLEKLADKETEIHASTVLKQRMKVNKERLMAGSLADYGEVIRELTHIQRGKAL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           + SE  +   A   +  E++ + SIS  EA  L++
Sbjct: 122 NASENAMLMEARKFLADELSLIKSISMKEATKLLD 156


>gi|2393788|gb|AAC45647.1| OrfC [Bacillus subtilis]
          Length = 116

 Score = 41.2 bits (95), Expect = 0.075,   Method: Compositional matrix adjust.
 Identities = 23/104 (22%), Positives = 53/104 (50%)

Query: 55  MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIA 114
           M + +P  K +   +R +++   ++  + + +     +   W +R +    KI +G++  
Sbjct: 6   MTVMIPTSKILSSNIRPVTDILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQE 65

Query: 115 IAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISE 158
            AEVVRDL R   +   + SE+++ ++A   ++ E+  +  I+E
Sbjct: 66  GAEVVRDLMRMKKEKALNASEKKMLDNAYEFLISELEVIKGITE 109


>gi|139438721|ref|ZP_01772205.1| Hypothetical protein COLAER_01207 [Collinsella aerofaciens ATCC
           25986]
 gi|133775801|gb|EBA39621.1| Hypothetical protein COLAER_01207 [Collinsella aerofaciens ATCC
           25986]
          Length = 1210

 Score = 40.8 bits (94), Expect = 0.094,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 32/49 (65%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPV 61
           F+ G+++V+  HG+   +EI  QEV G + ++F++ + D DK  L VP+
Sbjct: 532 FKPGDYVVHATHGIALFSEIARQEVGGKERDYFLLEYADGDK--LYVPL 578


>gi|149190436|ref|ZP_01868707.1| methionyl-tRNA formyltransferase [Vibrio shilonii AK1]
 gi|148835690|gb|EDL52656.1| methionyl-tRNA formyltransferase [Vibrio shilonii AK1]
          Length = 315

 Score = 40.8 bits (94), Expect = 0.096,   Method: Compositional matrix adjust.
 Identities = 32/105 (30%), Positives = 52/105 (49%), Gaps = 10/105 (9%)

Query: 86  RGKARVKRTMWSRRAQ------EYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLY 139
           RG A ++R++W+  AQ      + D  +++GD++ IA +   +  TD+         +L 
Sbjct: 119 RGAAPIQRSIWAGDAQTGVTIMQMDIGLDTGDMLKIATL--PIEATDTSATMYDKLAELG 176

Query: 140 ESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
             AL   + +IA+ N+   PE  N  E N +SK SK E     NQ
Sbjct: 177 PQALVECLADIASGNA--APEKQNDDEANYASKLSKDEAKIDWNQ 219


>gi|15807459|ref|NP_296192.1| hypothetical protein DR_2472 [Deinococcus radiodurans R1]
 gi|6460292|gb|AAF12015.1|AE002076_7 conserved hypothetical protein [Deinococcus radiodurans R1]
          Length = 169

 Score = 40.0 bits (92), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 39/172 (22%), Positives = 79/172 (45%), Gaps = 8/172 (4%)

Query: 9   AMRQ-GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +M+Q  FR G+ +V P +G+G ++   +   +G    ++ + F +      VP       
Sbjct: 3   SMKQTAFRPGDRVVLPPYGLGIVSGTCQHTRSGEGCWYYQVDFPESGHLALVPTHSPDQA 62

Query: 68  GMRKLSEAHFVERALK--LVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
           G+R       + RAL+  L RG+  + R   SR+ Q  +  +  G    +A ++ +L+R 
Sbjct: 63  GLRPALRQREL-RALRQALERGQLELARQCSSRQRQ-VNEVLRLGQPTQLALLIAELYRW 120

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
             Q      +RQ    A+  + +E   V+ + + +A+ + +  L + +S  E
Sbjct: 121 QRQRPLPDLDRQALRQAIRLLQQE---VSGLEDSQALAIRDFLLRATASLNE 169


>gi|257783934|ref|YP_003179151.1| transcription-repair coupling factor [Atopobium parvulum DSM 20469]
 gi|257472441|gb|ACV50560.1| transcription-repair coupling factor [Atopobium parvulum DSM 20469]
          Length = 1147

 Score = 39.7 bits (91), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 30/48 (62%), Gaps = 1/48 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           F+ G+++V+  HG+   T I  QEVAG + ++F++ +  D   L VP+
Sbjct: 484 FKPGDYVVHATHGIAHFTAIVRQEVAGRERDYFLLEYANDDK-LYVPL 530


>gi|182420058|ref|ZP_02951292.1| transcription-repair coupling factor [Clostridium butyricum 5521]
 gi|237669507|ref|ZP_04529487.1| transcription-repair coupling factor [Clostridium butyricum E4 str.
           BoNT E BL5262]
 gi|182376095|gb|EDT73682.1| transcription-repair coupling factor [Clostridium butyricum 5521]
 gi|237654951|gb|EEP52511.1| transcription-repair coupling factor [Clostridium butyricum E4 str.
           BoNT E BL5262]
          Length = 1166

 Score = 39.3 bits (90), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 31/49 (63%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPV 61
            + G+++V+  HG+G    IK+ EVAG K ++  I +DK DK  L VPV
Sbjct: 502 LKPGDYVVHANHGIGVYKGIKQIEVAGHKRDYLDIVYDKGDK--LYVPV 548


>gi|323488890|ref|ZP_08094129.1| transcriptional regulator, CarD family protein [Planococcus
           donghaensis MPA1U2]
 gi|323397453|gb|EGA90260.1| transcriptional regulator, CarD family protein [Planococcus
           donghaensis MPA1U2]
          Length = 169

 Score = 38.9 bits (89), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 36/138 (26%), Positives = 65/138 (47%), Gaps = 14/138 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPV--GKAIDIGMR 70
           F  G+HI+Y  HG+  I +I +  V+ +  +++ +   +   + +  PV   K + + + 
Sbjct: 2   FAIGDHIIYSTHGLCKINDIYDMTVSEVTKKYYQLQPLENTLVTISTPVDNDKVVMLKLL 61

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT--DSQ 128
           +  EA  +    K    ++ V + +   +AQ    KI SGD + IA V+  L R   D+Q
Sbjct: 62  QREEALAIIEVFKQPETESEVPQNL---KAQP--KKIQSGDRMQIAGVINGLLRKKFDTQ 116

Query: 129 PEKSYSERQLYESALNRM 146
            +K      LYE   N +
Sbjct: 117 IQK----ESLYEHDYNLL 130


>gi|319956027|ref|YP_004167290.1| transcription-repair coupling factor [Nitratifractor salsuginis DSM
           16511]
 gi|319418431|gb|ADV45541.1| transcription-repair coupling factor [Nitratifractor salsuginis DSM
           16511]
          Length = 998

 Score = 38.9 bits (89), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 28/47 (59%), Gaps = 1/47 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           R GE++V+  HGVG    I+++EV G   EF V+ +  +   L VPV
Sbjct: 360 RPGEYVVHETHGVGIFKGIEKREVLGATREFVVVQYQGEDTLL-VPV 405


>gi|220930374|ref|YP_002507283.1| CarD family transcriptional regulator [Clostridium cellulolyticum
           H10]
 gi|220000702|gb|ACL77303.1| transcriptional regulator, CarD family [Clostridium cellulolyticum
           H10]
          Length = 175

 Score = 38.1 bits (87), Expect = 0.59,   Method: Compositional matrix adjust.
 Identities = 28/116 (24%), Positives = 54/116 (46%), Gaps = 10/116 (8%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI--AFDKDKMCLKVPVGKAIDIGMRK 71
           F  G  I+Y  HG+  I E+K+  +      ++V+   F+ +   +  PVG   +I  +K
Sbjct: 2   FSVGNTIIYGNHGICKIVEVKDMTIDSNTRPYYVLKPVFENNS-TIYFPVGN--EIAEKK 58

Query: 72  LSEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLH 123
           +     VE    L+R     + T+W    + R + Y + +   D  A+ ++++ LH
Sbjct: 59  MRRILSVEEIYTLIREMPD-ENTIWIENENERKEVYKSILTGTDRSALVKLIKTLH 113


>gi|78043233|ref|YP_359072.1| transcription-repair coupling factor [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77995348|gb|ABB14247.1| transcription-repair coupling factor [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 1160

 Score = 37.7 bits (86), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 23/37 (62%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF 50
           F  G+++V+P HG+G    IK  EV G   ++ VIA+
Sbjct: 497 FSPGDYVVHPVHGIGKYLGIKPVEVGGNVKDYLVIAY 533


>gi|261367183|ref|ZP_05980066.1| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
 gi|282570778|gb|EFB76313.1| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
          Length = 167

 Score = 37.4 bits (85), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 30/114 (26%), Positives = 53/114 (46%), Gaps = 9/114 (7%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI--AFDKD-KMCLKVPVGKAIDIG-M 69
           F+ G+ + Y   GV TI E K   +AG + E +++   +D   K+C  VP    + +  M
Sbjct: 2   FQVGDAVSYGTSGVCTIAEKKNVRLAGQQCECYILKPVYDSTMKIC--VPCNSQVLLDRM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
           R L      +  + L++  A         R + Y   + SGD  A+  ++RD++
Sbjct: 60  RALPSK---QELMDLLQEPAPEHEPDPEVRKEHYRQTLQSGDRHALLRMIRDIY 110


>gi|317124068|ref|YP_004098180.1| transcription-repair coupling factor [Intrasporangium calvum DSM
           43043]
 gi|315588156|gb|ADU47453.1| transcription-repair coupling factor [Intrasporangium calvum DSM
           43043]
          Length = 1208

 Score = 37.4 bits (85), Expect = 0.94,   Method: Composition-based stats.
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
            R G+H+V+  HGVG   E+ ++ VAG   E+ VI +   K
Sbjct: 519 LRPGDHVVHEQHGVGRFVEMMQRTVAGATREYLVIEYAASK 559


>gi|210632030|ref|ZP_03297170.1| hypothetical protein COLSTE_01063 [Collinsella stercoris DSM 13279]
 gi|210159746|gb|EEA90717.1| hypothetical protein COLSTE_01063 [Collinsella stercoris DSM 13279]
          Length = 1195

 Score = 37.0 bits (84), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPV 61
           F+ G+++V+  HGV    EI  QEV G + ++F++ +   DK  L VP+
Sbjct: 512 FKPGDYVVHSTHGVALFAEIVRQEVGGKERDYFLLEYAGGDK--LYVPL 558


>gi|229816037|ref|ZP_04446358.1| hypothetical protein COLINT_03090 [Collinsella intestinalis DSM
           13280]
 gi|229808351|gb|EEP44132.1| hypothetical protein COLINT_03090 [Collinsella intestinalis DSM
           13280]
          Length = 1192

 Score = 37.0 bits (84), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 31/49 (63%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPV 61
           F+ G+++V+  HG+   +EI  QEV G + ++F++ +   DK  L VP+
Sbjct: 510 FKPGDYVVHATHGIALFSEIVRQEVGGKERDYFMLEYAGGDK--LYVPL 556


>gi|150014978|ref|YP_001307232.1| transcription-repair coupling factor [Clostridium beijerinckii
           NCIMB 8052]
 gi|149901443|gb|ABR32276.1| transcription-repair coupling factor [Clostridium beijerinckii
           NCIMB 8052]
          Length = 1166

 Score = 36.6 bits (83), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPV 61
            + G+++V+  HG+G    IK+ +V G K ++  I +DK DK  L VPV
Sbjct: 502 LKPGDYVVHANHGIGVYKGIKQIDVGGHKRDYLDIVYDKGDK--LYVPV 548


>gi|254520523|ref|ZP_05132579.1| transcription-repair coupling factor [Clostridium sp. 7_2_43FAA]
 gi|226914272|gb|EEH99473.1| transcription-repair coupling factor [Clostridium sp. 7_2_43FAA]
          Length = 1169

 Score = 36.6 bits (83), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPV 61
            + G+++V+  HGVG    IK+ EV G   ++  I +DK DK  L VPV
Sbjct: 503 LKLGDYVVHANHGVGVYKGIKQIEVGGHTRDYLDIVYDKGDK--LYVPV 549


>gi|328956088|ref|YP_004373421.1| transcription-repair coupling factor [Coriobacterium glomerans PW2]
 gi|328456412|gb|AEB07606.1| transcription-repair coupling factor [Coriobacterium glomerans PW2]
          Length = 1187

 Score = 36.6 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKM 55
           ++ G+++V+  HG+G    I  QEV G++ ++F++ + D DK+
Sbjct: 508 YQPGDYVVHATHGIGRFASIVRQEVGGLERDYFLLEYADGDKL 550


>gi|188589474|ref|YP_001919598.1| transcription-repair coupling factor [Clostridium botulinum E3 str.
           Alaska E43]
 gi|188499755|gb|ACD52891.1| transcription-repair coupling factor [Clostridium botulinum E3 str.
           Alaska E43]
          Length = 1167

 Score = 36.2 bits (82), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPV 61
            + G+++V+  HG+G    IK+ +V+G K ++  I +DK DK  L VPV
Sbjct: 503 LKPGDYVVHVNHGIGVYKGIKQIDVSGHKRDYLDIVYDKGDK--LYVPV 549


>gi|187932793|ref|YP_001884406.1| transcription-repair coupling factor [Clostridium botulinum B str.
           Eklund 17B]
 gi|187720946|gb|ACD22167.1| transcription-repair coupling factor [Clostridium botulinum B str.
           Eklund 17B]
          Length = 1167

 Score = 36.2 bits (82), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPV 61
            + G+++V+  HG+G    IK+ +V+G K ++  I +DK DK  L VPV
Sbjct: 503 LKPGDYVVHVNHGIGVYKGIKQIDVSGHKRDYLDIVYDKGDK--LYVPV 549


>gi|251779351|ref|ZP_04822271.1| transcription-repair coupling factor [Clostridium botulinum E1 str.
           'BoNT E Beluga']
 gi|243083666|gb|EES49556.1| transcription-repair coupling factor [Clostridium botulinum E1 str.
           'BoNT E Beluga']
          Length = 1167

 Score = 36.2 bits (82), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%), Gaps = 3/49 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPV 61
            + G+++V+  HG+G    IK+ +V+G K ++  I +DK DK  L VPV
Sbjct: 503 LKPGDYVVHINHGIGVYKGIKQIDVSGHKRDYLDIVYDKGDK--LYVPV 549


>gi|326333885|ref|ZP_08200118.1| transcription-repair coupling factor [Nocardioidaceae bacterium
           Broad-1]
 gi|325948467|gb|EGD40574.1| transcription-repair coupling factor [Nocardioidaceae bacterium
           Broad-1]
          Length = 1198

 Score = 36.2 bits (82), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 25/41 (60%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
            + G+++V+  HGVG   E+K++EV G   E+ V+ +   K
Sbjct: 521 LKPGDYVVHEQHGVGQFIEMKQREVQGATREYLVLEYGASK 561


>gi|114567389|ref|YP_754543.1| transcriptional regulator [Syntrophomonas wolfei subsp. wolfei str.
           Goettingen]
 gi|114338324|gb|ABI69172.1| transcriptional regulator, CarD family [Syntrophomonas wolfei
           subsp. wolfei str. Goettingen]
          Length = 166

 Score = 36.2 bits (82), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 26/118 (22%), Positives = 59/118 (50%), Gaps = 11/118 (9%)

Query: 14  FRTGEHIVYPAHGVGTITEI-KEQEVAGMKLEFFVI--AFDKDKMCLKVPVGKAIDIGMR 70
           F+  +++VY  +GV  I +I K+      + E++++   ++     + VPV  + +I MR
Sbjct: 2   FKVKDYVVYGLNGVCQIADIRKDNYDNSNETEYYILKPVYNTSITSIMVPVNNS-NIMMR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            +S  + V   L L+     ++ T W    ++R  +Y A + +G      ++++ L++
Sbjct: 61  AISTKNDV---LSLIAKMPDIETTSWIDNDTQRTNQYKAALRTGKTEEWVKIIKTLYQ 115


>gi|224438472|ref|ZP_03659396.1| transcription-repair coupling factor [Helicobacter cinaedi CCUG
           18818]
 gi|313144905|ref|ZP_07807098.1| transcription-repair coupling factor [Helicobacter cinaedi CCUG
           18818]
 gi|313129936|gb|EFR47553.1| transcription-repair coupling factor [Helicobacter cinaedi CCUG
           18818]
          Length = 1005

 Score = 36.2 bits (82), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 31/51 (60%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAID 66
           GE++V+  +GVG    IK+ +VAG+  +F  IA+  +DK+ L V     ID
Sbjct: 367 GEYVVHNDYGVGIFQGIKQAQVAGVVRDFIEIAYQGEDKLLLPVENLNMID 417


>gi|119715169|ref|YP_922134.1| transcription-repair coupling factor [Nocardioides sp. JS614]
 gi|119535830|gb|ABL80447.1| transcription-repair coupling factor [Nocardioides sp. JS614]
          Length = 1224

 Score = 35.8 bits (81), Expect = 2.6,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 29/54 (53%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           M  ++KR         G+++V+  HGVG   E+K++EV G   E+ V+ +   K
Sbjct: 526 MPARRKRQIDPLELSAGDYVVHEQHGVGRFVEMKQREVGGAVREYLVLEYGASK 579


>gi|317506800|ref|ZP_07964575.1| transcription-repair coupling factor [Segniliparus rugosus ATCC
           BAA-974]
 gi|316254911|gb|EFV14206.1| transcription-repair coupling factor [Segniliparus rugosus ATCC
           BAA-974]
          Length = 1155

 Score = 35.8 bits (81), Expect = 2.9,   Method: Composition-based stats.
 Identities = 15/42 (35%), Positives = 25/42 (59%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
             +TG+ +V+  HGVG   E+ E+ VAG + E+ V+ +   K
Sbjct: 527 ALKTGDFVVHDQHGVGRFVELVERTVAGARREYVVVEYASSK 568


>gi|325479235|gb|EGC82331.1| putative ATP-dependent DNA helicase PcrA [Anaerococcus prevotii
           ACS-065-V-Col13]
          Length = 731

 Score = 35.8 bits (81), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 21/47 (44%), Positives = 29/47 (61%), Gaps = 4/47 (8%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK 52
           K DA    F+ G+ I +   G+GTI +IKEQ+  G +L   V+AFDK
Sbjct: 673 KTDASDSDFQVGDKIRHSKWGMGTIVQIKEQD-KGNEL---VVAFDK 715


>gi|302336465|ref|YP_003801672.1| transcription-repair coupling factor [Olsenella uli DSM 7084]
 gi|301320305|gb|ADK68792.1| transcription-repair coupling factor [Olsenella uli DSM 7084]
          Length = 1171

 Score = 35.8 bits (81), Expect = 3.2,   Method: Composition-based stats.
 Identities = 12/37 (32%), Positives = 26/37 (70%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF 50
           F+ G+++V+  HG+   ++I  QEVAG + ++F++ +
Sbjct: 507 FKPGDYVVHATHGIALFSDIVRQEVAGRERDYFLLEY 543


>gi|303232983|ref|ZP_07319663.1| transcription-repair coupling factor [Atopobium vaginae PB189-T1-4]
 gi|302480910|gb|EFL43990.1| transcription-repair coupling factor [Atopobium vaginae PB189-T1-4]
          Length = 1138

 Score = 35.8 bits (81), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           F+ G+++V+  HG+    +I  Q+V G   ++F++ +  D   L VP
Sbjct: 480 FKPGDYVVHATHGIALFKQIVRQDVGGKPRDYFLLIYANDDK-LYVP 525


>gi|271969774|ref|YP_003343970.1| transcription-repair coupling factor [Streptosporangium roseum DSM
           43021]
 gi|270512949|gb|ACZ91227.1| transcription-repair coupling factor [Streptosporangium roseum DSM
           43021]
          Length = 1204

 Score = 35.4 bits (80), Expect = 3.3,   Method: Composition-based stats.
 Identities = 37/141 (26%), Positives = 57/141 (40%), Gaps = 31/141 (21%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
            + G+H+V+  HGVG   E+ ++ V G   E+ VI + K    L VP  +  ++      
Sbjct: 528 LKVGDHVVHEQHGVGRYVEMVQRTVQGATREYLVIEYAKGDR-LYVPTDQLDEVTRYVGG 586

Query: 74  EAHFVER--------------------ALKLVR---------GKARVKRTMWSRRAQEYD 104
           E+  + R                    A +L+R         G A    T W R  ++  
Sbjct: 587 ESPTLNRMGGADWAKAKTKAKKAVKEIAGELIRLYSARMASPGHAFGPDTPWQREMEDAF 646

Query: 105 AKINSGD-LIAIAEVVRDLHR 124
               +GD L AI EV RD+ R
Sbjct: 647 PYAETGDQLEAIDEVKRDMER 667


>gi|282882197|ref|ZP_06290836.1| transcription-repair coupling factor [Peptoniphilus lacrimalis
           315-B]
 gi|281297962|gb|EFA90419.1| transcription-repair coupling factor [Peptoniphilus lacrimalis
           315-B]
          Length = 1157

 Score = 35.4 bits (80), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 30/49 (61%), Gaps = 1/49 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKV 59
           +    G+++V+ +HG+G     ++ EV+G+K ++ VI  F  DK+ L +
Sbjct: 492 EDLHVGDYVVHESHGIGKYIGTEQLEVSGIKRDYVVIKYFGDDKLFLPI 540


>gi|256374814|ref|YP_003098474.1| transcription-repair coupling factor [Actinosynnema mirum DSM
           43827]
 gi|255919117|gb|ACU34628.1| transcription-repair coupling factor [Actinosynnema mirum DSM
           43827]
          Length = 1187

 Score = 35.4 bits (80), Expect = 4.0,   Method: Composition-based stats.
 Identities = 14/42 (33%), Positives = 25/42 (59%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
             RTG+++V+  HG+G   E+ ++ VAG   E+ V+ +   K
Sbjct: 496 ALRTGDYVVHEQHGIGRYVEMVQRTVAGATREYLVLEYASSK 537


>gi|291542940|emb|CBL16050.1| Transcriptional regulators, similar to M. xanthus CarD
           [Ruminococcus bromii L2-63]
          Length = 162

 Score = 35.0 bits (79), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 26/116 (22%), Positives = 55/116 (47%), Gaps = 11/116 (9%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIG-MRK 71
           +  GE ++Y ++GV  ITEI  +++    +E++V+     D   L VP    + +  MR 
Sbjct: 2   YSIGEIVLYGSNGVCEITEITTKKIGKDSIEYYVLKPVCSDSSTLFVPTQNEMLVSRMRA 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLH 123
           +  +  ++  L       +    +W    + R ++    I+ GD + + E++R +H
Sbjct: 62  VLSSDEIKDIL-----SQKTDNEIWIDNKAERCEKIKEIISGGDCMKLVELIRRMH 112


>gi|253576632|ref|ZP_04853960.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
           D14]
 gi|251844046|gb|EES72066.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
           D14]
          Length = 167

 Score = 35.0 bits (79), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 37/150 (24%), Positives = 63/150 (42%), Gaps = 15/150 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGMRKL 72
           F  G+ I Y  HGV  I E+  + +AG+   ++ +     + + + +PV +A  + ++KL
Sbjct: 2   FDKGDLISYSVHGVCRIDEVCVKSLAGVSKTYYELHPLSNETLKISIPVDRA-PLQLQKL 60

Query: 73  SEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                 E A+ L+          W      R   Y A + +GD   IA+V   L R    
Sbjct: 61  MGP---EEAMALI-DSFMAPGIPWIDNNHERHHNYSAIVKTGDREGIAKVANTLMRRKQW 116

Query: 129 PEKSY-----SERQLYESALNRMVREIAAV 153
            E+++      + QL     N    E+A V
Sbjct: 117 SEQNHKKLGNQDNQLLLGIQNTSFNEMAIV 146


>gi|293400065|ref|ZP_06644211.1| transcription-repair coupling factor [Erysipelotrichaceae bacterium
           5_2_54FAA]
 gi|291306465|gb|EFE47708.1| transcription-repair coupling factor [Erysipelotrichaceae bacterium
           5_2_54FAA]
          Length = 1149

 Score = 35.0 bits (79), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 1/50 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           Q    G+++V+  HG+G    I  +EV G+  +F  IA+  D + L VP+
Sbjct: 477 QELHIGDYVVHNQHGIGKYLGIVNKEVDGIHKDFLHIAYKGDDVLL-VPL 525


>gi|306830612|ref|ZP_07463777.1| transketolase [Streptococcus gallolyticus subsp. gallolyticus
           TX20005]
 gi|304427120|gb|EFM30227.1| transketolase [Streptococcus gallolyticus subsp. gallolyticus
           TX20005]
          Length = 661

 Score = 34.7 bits (78), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 4/76 (5%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKMCLKVPVGKAID 66
           + GF   +H  Y  HG G + E   QE A     +KL   V+ +D + + L  P  KA  
Sbjct: 143 KPGFNIVDHYTYALHGDGCLMEGVSQEAASLAGHLKLGKLVLLYDSNDISLDGPTSKAFT 202

Query: 67  IGMRKLSEAHFVERAL 82
             ++   EA+  +  L
Sbjct: 203 EDIKGKFEAYGWQHIL 218


>gi|166234055|sp|Q17IE8|CDK8_AEDAE RecName: Full=Cyclin-dependent kinase 8; AltName: Full=Cell
           division protein kinase 8; AltName: Full=Mediator
           complex subunit Cdk8; AltName: Full=Mediator of RNA
           polymerase II transcription subunit Cdk8
          Length = 501

 Score = 34.7 bits (78), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 123 HRTDSQPEKSYSERQLYESALN-RMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           HR +S   K Y+ +Q+  + L+    REIA +  +  P  INLI V LS    K 
Sbjct: 39  HRKESNDTKDYALKQIEGTGLSMSACREIALLRELKHPNVINLIRVFLSHTDRKV 93


>gi|330465805|ref|YP_004403548.1| transcription-repair coupling factor [Verrucosispora maris
           AB-18-032]
 gi|328808776|gb|AEB42948.1| transcription-repair coupling factor [Verrucosispora maris
           AB-18-032]
          Length = 1232

 Score = 34.7 bits (78), Expect = 6.5,   Method: Composition-based stats.
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
            R G+H+V+  HG+G   E+ ++ V G   E+ VI +   K
Sbjct: 548 LRAGDHVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSK 588


>gi|157128583|ref|XP_001655140.1| cdk8 [Aedes aegypti]
 gi|108882204|gb|EAT46429.1| cdk8 [Aedes aegypti]
          Length = 507

 Score = 34.7 bits (78), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 123 HRTDSQPEKSYSERQLYESALN-RMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           HR +S   K Y+ +Q+  + L+    REIA +  +  P  INLI V LS    K 
Sbjct: 45  HRKESNDTKDYALKQIEGTGLSMSACREIALLRELKHPNVINLIRVFLSHTDRKV 99


>gi|159036485|ref|YP_001535738.1| transcription-repair coupling factor [Salinispora arenicola
           CNS-205]
 gi|157915320|gb|ABV96747.1| transcription-repair coupling factor [Salinispora arenicola
           CNS-205]
          Length = 1218

 Score = 34.7 bits (78), Expect = 6.6,   Method: Composition-based stats.
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
            R G+H+V+  HG+G   E+ ++ V G   E+ VI +   K
Sbjct: 530 LRAGDHVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSK 570


>gi|145593442|ref|YP_001157739.1| transcription-repair coupling factor [Salinispora tropica CNB-440]
 gi|145302779|gb|ABP53361.1| transcription-repair coupling factor [Salinispora tropica CNB-440]
          Length = 1216

 Score = 34.7 bits (78), Expect = 7.0,   Method: Composition-based stats.
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
            R G+H+V+  HG+G   E+ ++ V G   E+ VI +   K
Sbjct: 528 LRAGDHVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSK 568


>gi|308062834|gb|ADO04722.1| transcription-repair coupling factor [Helicobacter pylori Cuz20]
          Length = 999

 Score = 34.7 bits (78), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKV 59
           +QK          GE +V+  +GVG  +++ +  V G K +F  IA F +DK+ L V
Sbjct: 351 RQKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYFGEDKLLLPV 407


>gi|309777118|ref|ZP_07672082.1| probable transcriptional regulator [Erysipelotrichaceae bacterium
           3_1_53]
 gi|308915127|gb|EFP60903.1| probable transcriptional regulator [Erysipelotrichaceae bacterium
           3_1_53]
          Length = 165

 Score = 34.3 bits (77), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 23/86 (26%), Positives = 44/86 (51%), Gaps = 9/86 (10%)

Query: 94  TMW----SRRAQEYDAKINSGDLIAIAEVVRDLH-----RTDSQPEKSYSERQLYESALN 144
           T W     +R +E+   +  GD IA+  V++ ++     +  ++ + SY++  ++E A  
Sbjct: 77  TNWITDKKKREEEFRNALRCGDCIALVRVMKTIYAVKEEKARNRKQLSYTDHSIFEQAQQ 136

Query: 145 RMVREIAAVNSISEPEAINLIEVNLS 170
           +++ EIA    IS  EA + I   LS
Sbjct: 137 QLLEEIAFGAQISVEEADDYIRKKLS 162


>gi|317010243|gb|ADU80823.1| transcription-repair coupling factor [Helicobacter pylori India7]
          Length = 999

 Score = 34.3 bits (77), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKV 59
           +QK          GE +V+  +GVG  +++ +  V G K +F  IA F +DK+ L V
Sbjct: 351 RQKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYFGEDKLLLPV 407


>gi|309812806|ref|ZP_07706544.1| transcription-repair coupling factor [Dermacoccus sp. Ellin185]
 gi|308433223|gb|EFP57117.1| transcription-repair coupling factor [Dermacoccus sp. Ellin185]
          Length = 1209

 Score = 34.3 bits (77), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 23/41 (56%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
            + G+H+V+  HGVG   E+ ++ V G   E+ V+ +   K
Sbjct: 516 LKPGDHVVHEQHGVGRFVEMMQRTVGGATREYLVLEYAASK 556


>gi|188528343|ref|YP_001911030.1| transcription-repair coupling factor [Helicobacter pylori Shi470]
 gi|188144583|gb|ACD49000.1| transcription-repair coupling factor [Helicobacter pylori Shi470]
          Length = 999

 Score = 34.3 bits (77), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKV 59
           +QK          GE +V+  +GVG  +++ +  V G K +F  IA F +DK+ L V
Sbjct: 351 RQKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYFGEDKLLLPV 407


>gi|239627382|ref|ZP_04670413.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239517528|gb|EEQ57394.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
          Length = 167

 Score = 34.3 bits (77), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 28/116 (24%), Positives = 55/116 (47%), Gaps = 6/116 (5%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGM-KLEFFVIA-FDKDK-MCLKVPVGKAIDIGMR 70
           F+ GE I+Y   GV  + +I   + +   +L ++++  ++KD  +C+ V   K +  G+ 
Sbjct: 2   FKKGEFILYGTVGVCQVEKISRTDFSDNDRLYYYLVPRYEKDTTICIPVDSDKVMMRGIM 61

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
              +A    +A   V  K          R Q Y   I SGD + +A +++++ R +
Sbjct: 62  SRKDAERFVKAWPDVECKEYAND---RERPQAYKEAIQSGDCLELASMIKEISRME 114


>gi|317179751|dbj|BAJ57539.1| transcription-repair coupling factor [Helicobacter pylori F30]
          Length = 999

 Score = 34.3 bits (77), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKV 59
           +QK          GE +V+  +GVG  +++ +  V G K +F  IA F +DK+ L V
Sbjct: 351 RQKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYFGEDKLLLPV 407


>gi|308064333|gb|ADO06220.1| transcription-repair coupling factor [Helicobacter pylori Sat464]
          Length = 999

 Score = 34.3 bits (77), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKV 59
           +QK          GE +V+  +GVG  +++ +  V G K +F  IA F +DK+ L V
Sbjct: 351 RQKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYFGEDKLLLPV 407


>gi|328950754|ref|YP_004368089.1| transcription-repair coupling factor [Marinithermus hydrothermalis
           DSM 14884]
 gi|328451078|gb|AEB11979.1| transcription-repair coupling factor [Marinithermus hydrothermalis
           DSM 14884]
          Length = 985

 Score = 34.3 bits (77), Expect = 8.3,   Method: Composition-based stats.
 Identities = 12/37 (32%), Positives = 25/37 (67%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           G+++++P HG+G    I+ +EV G+K ++ V+ +  D
Sbjct: 331 GDYLIHPEHGIGRFLGIETREVLGVKRDYLVLQYAGD 367


>gi|15896463|ref|NP_349812.1| transcription-repair coupling factor [Clostridium acetobutylicum
           ATCC 824]
 gi|15026288|gb|AAK81152.1|AE007817_6 Transcription-repair coupling factor, MFD (superfamily II helicase
           ) [Clostridium acetobutylicum ATCC 824]
 gi|325510621|gb|ADZ22257.1| Transcription-repair coupling factor, MFD (superfamily II helicase
           ) [Clostridium acetobutylicum EA 2018]
          Length = 1171

 Score = 34.3 bits (77), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
            + G++IV+  HG+G    IK+ EV G K ++  +++  D   L VPV
Sbjct: 502 LKPGDYIVHVNHGIGVFKGIKQLEVQGHKKDYLELSYAVDDK-LYVPV 548


>gi|331009405|gb|EGH89461.1| aldehyde dehydrogenase family protein [Pseudomonas syringae pv.
           tabaci ATCC 11528]
          Length = 497

 Score = 33.9 bits (76), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 8/74 (10%)

Query: 16  TGEHIVYPA--HGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV----PVGKAIDIGM 69
           TG   V P    GV    +I ++E+ G  L   V+ FD D+  +++    P G A  +G 
Sbjct: 378 TGGTYVEPTIFDGVNNAMKIAQEEIFGPVLS--VLTFDSDEEAIQIANDTPYGLAAAVGT 435

Query: 70  RKLSEAHFVERALK 83
             +S AH   +AL+
Sbjct: 436 ANISRAHLTAKALR 449


Searching..................................................done


Results from round 2




>gi|254780417|ref|YP_003064830.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter asiaticus str. psy62]
 gi|254040094|gb|ACT56890.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 188

 Score =  251 bits (641), Expect = 4e-65,   Method: Composition-based stats.
 Identities = 188/188 (100%), Positives = 188/188 (100%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP
Sbjct: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST
Sbjct: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180

Query: 181 SENQDKAA 188
           SENQDKAA
Sbjct: 181 SENQDKAA 188


>gi|315122139|ref|YP_004062628.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter solanacearum CLso-ZC1]
 gi|313495541|gb|ADR52140.1| transcriptional regulator CarD family protein [Candidatus
           Liberibacter solanacearum CLso-ZC1]
          Length = 188

 Score =  245 bits (626), Expect = 3e-63,   Method: Composition-based stats.
 Identities = 171/188 (90%), Positives = 179/188 (95%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+  MRQGF+TGEHIVYP HGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP
Sbjct: 1   MTVQQKKSMMRQGFKTGEHIVYPTHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+RT++QPEKSYSERQLYESALNRMVRE+AAVNSISEPEAI+LIEVNLSSK  K EK T
Sbjct: 121 DLYRTENQPEKSYSERQLYESALNRMVREVAAVNSISEPEAIDLIEVNLSSKRPKDEKPT 180

Query: 181 SENQDKAA 188
           +ENQ KAA
Sbjct: 181 NENQCKAA 188


>gi|222150214|ref|YP_002551171.1| transcriptional regulator CarD family [Agrobacterium vitis S4]
 gi|221737196|gb|ACM38159.1| transcriptional regulator CarD family [Agrobacterium vitis S4]
          Length = 223

 Score =  237 bits (606), Expect = 5e-61,   Method: Composition-based stats.
 Identities = 141/190 (74%), Positives = 162/190 (85%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI FDKDKM LKVP
Sbjct: 35  MTTQQKKSSTRQGFKTGEAIVYPAHGVGTITAIEEQEVAGMKLELFVIDFDKDKMRLKVP 94

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 95  VTKAVTIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 154

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R + QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+EVNL+ K  K  KS 
Sbjct: 155 DLFRAEHQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEVNLA-KGPKRGKSV 213

Query: 181 SENQ--DKAA 188
            E++  ++AA
Sbjct: 214 EEDETQEEAA 223


>gi|163759997|ref|ZP_02167081.1| hypothetical protein HPDFL43_17241 [Hoeflea phototrophica DFL-43]
 gi|162282955|gb|EDQ33242.1| hypothetical protein HPDFL43_17241 [Hoeflea phototrophica DFL-43]
          Length = 189

 Score =  237 bits (605), Expect = 6e-61,   Method: Composition-based stats.
 Identities = 135/190 (71%), Positives = 159/190 (83%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGHKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  FVERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKASTIGMRKLSETDFVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM RE+AAVN +S+ EA+ LIE NL+ K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMARELAAVNKMSDTEAVRLIETNLN-KGPKRGKAA 179

Query: 181 SEN--QDKAA 188
            E+  Q++AA
Sbjct: 180 DEDGAQEEAA 189


>gi|307943601|ref|ZP_07658945.1| transcription factor CarD [Roseibium sp. TrichSKD4]
 gi|307773231|gb|EFO32448.1| transcription factor CarD [Roseibium sp. TrichSKD4]
          Length = 194

 Score =  236 bits (603), Expect = 1e-60,   Method: Composition-based stats.
 Identities = 121/195 (62%), Positives = 146/195 (74%), Gaps = 8/195 (4%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGE+IVYPAHGVG IT I+EQ VAG  LE  VI F+KDKM L+VP
Sbjct: 1   MASTTKKTAQRQGFKTGEYIVYPAHGVGQITAIEEQNVAGHSLELLVIVFEKDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKL +   V++AL+ VRG+ RVKRTMWSRRAQEY+AKINSGDLI+I+EVVR
Sbjct: 61  VAKIASVGMRKLGDPDAVKKALETVRGRPRVKRTMWSRRAQEYEAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R+DSQPE+SYSERQLYE+AL+R+ REIAAVN  SE EA   IE  L  KS    K+ 
Sbjct: 121 DLYRSDSQPEQSYSERQLYEAALDRLAREIAAVNKCSETEATKQIEQTLE-KSPNRPKAP 179

Query: 181 SE-------NQDKAA 188
           +E        Q++AA
Sbjct: 180 AEADSTGSDGQEEAA 194


>gi|227823778|ref|YP_002827751.1| putative transcriptional regulator, CarD family [Sinorhizobium
           fredii NGR234]
 gi|227342780|gb|ACP26998.1| putative transcriptional regulator, CarD family [Sinorhizobium
           fredii NGR234]
          Length = 189

 Score =  236 bits (602), Expect = 2e-60,   Method: Composition-based stats.
 Identities = 139/190 (73%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI FDKDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFDKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKAVSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL+ K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEANLN-KGPKRGKAI 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDTQDEAA 189


>gi|110635707|ref|YP_675915.1| CarD family transcriptional regulator [Mesorhizobium sp. BNC1]
 gi|110286691|gb|ABG64750.1| transcriptional regulator, CarD family [Chelativorans sp. BNC1]
          Length = 190

 Score =  235 bits (601), Expect = 2e-60,   Method: Composition-based stats.
 Identities = 130/187 (69%), Positives = 155/187 (82%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  QQK+ A RQGF+TGE IVYPAHGVG I  I++QEVAG KLE FVI F KDKM LKVP
Sbjct: 1   MATQQKKSAQRQGFKTGEFIVYPAHGVGQIVAIEDQEVAGHKLELFVIDFQKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           VGKA  IGMRKLSE  +V+RALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 61  VGKATAIGMRKLSETDYVDRALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIE NL+    +  K+ 
Sbjct: 121 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIETNLAKGPRRGTKAE 180

Query: 181 SENQDKA 187
           +++ +K 
Sbjct: 181 NDDAEKE 187


>gi|86747677|ref|YP_484173.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           HaA2]
 gi|86570705|gb|ABD05262.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           HaA2]
          Length = 429

 Score =  235 bits (601), Expect = 2e-60,   Method: Composition-based stats.
 Identities = 107/183 (58%), Positives = 140/183 (76%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K 
Sbjct: 230 KKVVTQRQGFKASEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKV 289

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL R
Sbjct: 290 ANVGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLFR 349

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           +DSQPE+SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+    +  K+ ++ +
Sbjct: 350 SDSQPEQSYSERQLYEAALDRLSREIAVVQQVTETEAVKEVEGQLAKSPRRGAKAEADAE 409

Query: 185 DKA 187
             A
Sbjct: 410 GDA 412


>gi|150398306|ref|YP_001328773.1| CarD family transcriptional regulator [Sinorhizobium medicae
           WSM419]
 gi|150029821|gb|ABR61938.1| transcriptional regulator, CarD family [Sinorhizobium medicae
           WSM419]
          Length = 189

 Score =  234 bits (598), Expect = 4e-60,   Method: Composition-based stats.
 Identities = 137/190 (72%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKAVGIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E +L+ K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEAHLN-KGPKRGKAI 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDAQDEAA 189


>gi|297180170|gb|ADI16392.1| transcriptional regulators, similar to M. xanthus card [uncultured
           bacterium HF130_12L15]
          Length = 193

 Score =  234 bits (597), Expect = 5e-60,   Method: Composition-based stats.
 Identities = 130/187 (69%), Positives = 154/187 (82%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  QQK+ A R GF+T E+IVYPAHGVG I  I+EQEVAG KLE FVI F KDKM LKVP
Sbjct: 1   MATQQKKTAARNGFKTAEYIVYPAHGVGQIVAIEEQEVAGHKLELFVIDFQKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  +V+RALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 61  VAKAASIGMRKLSETDYVDRALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+    +  K+ 
Sbjct: 121 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIEVNLNKGPRRGVKAD 180

Query: 181 SENQDKA 187
           +E + +A
Sbjct: 181 NEGEPEA 187


>gi|299132816|ref|ZP_07026011.1| transcriptional regulator, CarD family [Afipia sp. 1NLS2]
 gi|298592953|gb|EFI53153.1| transcriptional regulator, CarD family [Afipia sp. 1NLS2]
          Length = 403

 Score =  234 bits (597), Expect = 6e-60,   Method: Composition-based stats.
 Identities = 107/172 (62%), Positives = 138/172 (80%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+T E +VYPAHGVG I  I+EQE+AG  LE FVI+F KDKM L+VP  K 
Sbjct: 201 KKVLTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGATLELFVISFIKDKMTLRVPTAKV 260

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
           I++GMRKLS+   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 261 INVGMRKLSDPALVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 320

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           ++SQPE+SYSERQLYE+AL+R+ REIA V  I+E EA+  +E NL+    + 
Sbjct: 321 SESQPEQSYSERQLYEAALDRLSREIAVVQHITETEAVKEVEANLAKSPRRG 372


>gi|15967010|ref|NP_387363.1| hypothetical protein SMc03874 [Sinorhizobium meliloti 1021]
 gi|307302478|ref|ZP_07582235.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           BL225C]
 gi|307316192|ref|ZP_07595636.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           AK83]
 gi|15076283|emb|CAC47836.1| Hypothetical protein SMc03874 [Sinorhizobium meliloti 1021]
 gi|306898032|gb|EFN28774.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           AK83]
 gi|306903148|gb|EFN33738.1| transcriptional regulator, CarD family [Sinorhizobium meliloti
           BL225C]
          Length = 189

 Score =  233 bits (595), Expect = 8e-60,   Method: Composition-based stats.
 Identities = 138/190 (72%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSSTRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVVR
Sbjct: 61  VAKAVGIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL+ K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLVEANLN-KGPKRGKAI 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDAQDEAA 189


>gi|163839171|ref|YP_001623576.1| transcriptional regulator [Renibacterium salmoninarum ATCC 33209]
 gi|162952647|gb|ABY22162.1| transcriptional regulator [Renibacterium salmoninarum ATCC 33209]
          Length = 301

 Score =  233 bits (595), Expect = 8e-60,   Method: Composition-based stats.
 Identities = 47/166 (28%), Positives = 82/166 (49%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            +  +   F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP     
Sbjct: 136 GKGRIHMVFEIGETVVYPHHGAAKIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVD 195

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +G+R +     +E    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R 
Sbjct: 196 LVGVRDVVGKEGLEHVFDVLRAEFTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRR 255

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           D     S  E+++   A   ++ E+A      E +A  +++  L+S
Sbjct: 256 DHDRGLSAGEKRMLAKARQILISELALAEKTDEEKAATVLDEVLAS 301


>gi|91974760|ref|YP_567419.1| transcription factor CarD [Rhodopseudomonas palustris BisB5]
 gi|91681216|gb|ABE37518.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           BisB5]
          Length = 432

 Score =  233 bits (595), Expect = 9e-60,   Method: Composition-based stats.
 Identities = 106/180 (58%), Positives = 139/180 (77%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+ GE +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K 
Sbjct: 235 KKAVTQRQGFKAGEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKV 294

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL R
Sbjct: 295 ANVGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLFR 354

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           ++SQPE+SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+    +  K+  + +
Sbjct: 355 SESQPEQSYSERQLYEAALDRLSREIAVVQQVTETEAVKEVEGQLAKSPRRGAKAEVDAE 414


>gi|254234156|ref|ZP_04927480.1| hypothetical protein TBCG_03510 [Mycobacterium tuberculosis C]
 gi|124603824|gb|EAY61787.1| hypothetical protein TBCG_03510 [Mycobacterium tuberculosis C]
          Length = 174

 Score =  233 bits (594), Expect = 1e-59,   Method: Composition-based stats.
 Identities = 46/173 (26%), Positives = 92/173 (53%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           + +  +R + +  F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP
Sbjct: 2   LAWSNERGSNQMIFKVGDTVVYPHHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVP 61

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
              A  +G+R +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVR
Sbjct: 62  AENAEYVGVRDVVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVR 121

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           DL R D +   S  E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 122 DLWRRDQERGLSAGEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 174


>gi|304394153|ref|ZP_07376076.1| CarD family transcriptional regulator [Ahrensia sp. R2A130]
 gi|303293593|gb|EFL87970.1| CarD family transcriptional regulator [Ahrensia sp. R2A130]
          Length = 193

 Score =  233 bits (594), Expect = 1e-59,   Method: Composition-based stats.
 Identities = 119/184 (64%), Positives = 142/184 (77%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
             K+   RQGF+TGE IVYPAHGVG ITEI++QEVAG +LE FVI F KDKM L+VPV K
Sbjct: 2   AAKKATQRQGFKTGEFIVYPAHGVGQITEIEQQEVAGFELELFVIEFAKDKMTLRVPVPK 61

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
              +GMRKL+E   V+++L  V+G+AR+KRTMWSRRAQEYDAKINSGDLI IAEVVRDL 
Sbjct: 62  IESVGMRKLAEPKLVDKSLMTVQGRARIKRTMWSRRAQEYDAKINSGDLIQIAEVVRDLF 121

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           R+D+QPE+SYSERQLYE+AL RM REI+ V  ISE EA+ LIE NL+    +  K   E 
Sbjct: 122 RSDTQPEQSYSERQLYEAALERMAREISVVKKISETEAVQLIEANLAKGPRRGPKPEGEE 181

Query: 184 QDKA 187
           +D A
Sbjct: 182 EDGA 185


>gi|225628327|ref|ZP_03786361.1| transcriptional regulator [Brucella ceti str. Cudo]
 gi|225616173|gb|EEH13221.1| transcriptional regulator [Brucella ceti str. Cudo]
          Length = 250

 Score =  232 bits (592), Expect = 2e-59,   Method: Composition-based stats.
 Identities = 132/192 (68%), Positives = 157/192 (81%), Gaps = 5/192 (2%)

Query: 1   MTFQQKRDA-MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+    R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 60  MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 119

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 120 PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 179

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+ K  K  K+
Sbjct: 180 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNLA-KGPKRGKA 238

Query: 180 TSE---NQDKAA 188
            +E   ++ +AA
Sbjct: 239 EAELDDDEVEAA 250


>gi|86359604|ref|YP_471496.1| CarD family transcriptional regulator [Rhizobium etli CFN 42]
 gi|86283706|gb|ABC92769.1| probable transcriptional regulator protein, CarD family [Rhizobium
           etli CFN 42]
          Length = 190

 Score =  232 bits (592), Expect = 2e-59,   Method: Composition-based stats.
 Identities = 139/191 (72%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL+ K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNLN-KGPKRGKA 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 IEEDDSQDEAA 190


>gi|327191760|gb|EGE58762.1| CarD family transcriptional regulator [Rhizobium etli CNPAF512]
          Length = 199

 Score =  231 bits (591), Expect = 2e-59,   Method: Composition-based stats.
 Identities = 139/191 (72%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 10  MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 69

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 70  PVAKAMSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 129

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL+ K  K  K+
Sbjct: 130 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNLN-KGPKRGKA 188

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 189 IEEDDSQDEAA 199


>gi|15890014|ref|NP_355695.1| CarD family transcriptional regulator [Agrobacterium tumefaciens
           str. C58]
 gi|15157987|gb|AAK88480.1| transcriptional regulator, CarD family [Agrobacterium tumefaciens
           str. C58]
          Length = 189

 Score =  231 bits (591), Expect = 2e-59,   Method: Composition-based stats.
 Identities = 140/190 (73%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+     GF+TGE IVYPAHGVGTI+ I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSPAHHGFKTGEAIVYPAHGVGTISAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VAKAVSIGMRKLSEGDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+EVNL+ K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEVNLA-KGPKRGKTV 179

Query: 181 SEN--QDKAA 188
            E+  QD+AA
Sbjct: 180 EEDDSQDEAA 189


>gi|75674610|ref|YP_317031.1| transcription factor CarD [Nitrobacter winogradskyi Nb-255]
 gi|74419480|gb|ABA03679.1| transcriptional regulator, CarD family [Nitrobacter winogradskyi
           Nb-255]
          Length = 283

 Score =  231 bits (591), Expect = 3e-59,   Method: Composition-based stats.
 Identities = 109/182 (59%), Positives = 141/182 (77%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+TGE +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K 
Sbjct: 87  KKVLTQRQGFKTGEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKV 146

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLSE   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 147 ANVGMRKLSEPGLVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 206

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           ++SQPE+SYSERQLYE+AL+R+ REIA V  ++E EA+  IE  L+    +  K+ +  +
Sbjct: 207 SESQPEQSYSERQLYEAALDRLSREIAVVQHVTETEAVKEIEGQLAKSPRRGAKAEAGGE 266

Query: 185 DK 186
             
Sbjct: 267 AD 268


>gi|116254341|ref|YP_770179.1| CarD family transcriptional regulator [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|209551385|ref|YP_002283302.1| CarD family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|241206827|ref|YP_002977923.1| CarD family transcriptional regulator [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|115258989|emb|CAK10098.1| putative CarD family transcriptional regulator [Rhizobium
           leguminosarum bv. viciae 3841]
 gi|209537141|gb|ACI57076.1| transcriptional regulator, CarD family [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|240860717|gb|ACS58384.1| transcriptional regulator, CarD family [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 190

 Score =  231 bits (590), Expect = 3e-59,   Method: Composition-based stats.
 Identities = 140/191 (73%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL+ K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNLN-KGPKRGKA 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 IEEDDSQDEAA 190


>gi|90422072|ref|YP_530442.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           BisB18]
 gi|90104086|gb|ABD86123.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           BisB18]
          Length = 365

 Score =  231 bits (590), Expect = 3e-59,   Method: Composition-based stats.
 Identities = 111/184 (60%), Positives = 140/184 (76%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            +K    RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K
Sbjct: 167 AKKPLTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFMKDKMTLRVPTAK 226

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
             ++GMRKLSE   V+RAL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+
Sbjct: 227 VANVGMRKLSEPALVKRALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLY 286

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           R+DSQPE+SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+    +  K+  E 
Sbjct: 287 RSDSQPEQSYSERQLYEAALDRLSREIAVVQHVTETEAVKEVEGQLAKSPRRGAKTEVEA 346

Query: 184 QDKA 187
              A
Sbjct: 347 DADA 350


>gi|240851257|ref|YP_002972660.1| transcriptional regulator, CarD family [Bartonella grahamii as4aup]
 gi|240268380|gb|ACS51968.1| transcriptional regulator, CarD family [Bartonella grahamii as4aup]
          Length = 194

 Score =  231 bits (589), Expect = 4e-59,   Method: Composition-based stats.
 Identities = 120/188 (63%), Positives = 147/188 (78%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q    +  + F T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHGTSSKTKEFATSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+ +GMRKLS +  VERALK++RGKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKALSVGMRKLSASDSVERALKVLRGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R++ QPE+SYSERQLY +AL RM REIA +NS+SE EAINLIE++LS+K  +  K+ 
Sbjct: 121 DLFRSNLQPEQSYSERQLYTAALERMAREIAVINSLSETEAINLIEMHLSNKPKREFKTE 180

Query: 181 SENQDKAA 188
            E  D+++
Sbjct: 181 REETDESS 188


>gi|190893877|ref|YP_001980419.1| transcriptional regulator protein, CarD family [Rhizobium etli CIAT
           652]
 gi|190699156|gb|ACE93241.1| probable transcriptional regulator protein, CarD family [Rhizobium
           etli CIAT 652]
          Length = 190

 Score =  231 bits (589), Expect = 4e-59,   Method: Composition-based stats.
 Identities = 137/191 (71%), Positives = 162/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+ +  R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSTARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FV+RALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVDRALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+ M REIAAVN++SE +A+ L+E NL+ K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDSMAREIAAVNNMSETDAVRLVETNLN-KGPKRGKA 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 IEEDDSQDEAA 190


>gi|325294135|ref|YP_004279999.1| transcriptional regulator, CarD family [Agrobacterium sp. H13-3]
 gi|325061988|gb|ADY65679.1| transcriptional regulator, CarD family [Agrobacterium sp. H13-3]
          Length = 189

 Score =  230 bits (588), Expect = 5e-59,   Method: Composition-based stats.
 Identities = 139/190 (73%), Positives = 161/190 (84%), Gaps = 3/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT QQK+     GF+TGE IVYPAHGVGTI+ I+EQEVAGMKLE FVI F+KDKM LKVP
Sbjct: 1   MTTQQKKSPAHHGFKTGEAIVYPAHGVGTISAIEEQEVAGMKLELFVIDFEKDKMRLKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR
Sbjct: 61  VAKAVSIGMRKLSEGDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+EVNL+ K  K  K+ 
Sbjct: 121 DLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVEVNLA-KGPKRGKAV 179

Query: 181 SEN--QDKAA 188
            E+  Q++AA
Sbjct: 180 EEDDSQEEAA 189


>gi|298293646|ref|YP_003695585.1| CarD family transcriptional regulator [Starkeya novella DSM 506]
 gi|296930157|gb|ADH90966.1| transcriptional regulator, CarD family [Starkeya novella DSM 506]
          Length = 200

 Score =  230 bits (588), Expect = 5e-59,   Method: Composition-based stats.
 Identities = 117/179 (65%), Positives = 147/179 (82%), Gaps = 1/179 (0%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT  +K     RQGF+TGEHIVYP+HGVG IT I+EQEVAG KLE FVI F+KDKM L+V
Sbjct: 1   MTSTKKPSTNIRQGFKTGEHIVYPSHGVGRITSIEEQEVAGFKLELFVIHFEKDKMTLRV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV K   +GMRKLSE   +++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGDL+AI+EVV
Sbjct: 61  PVPKIASVGMRKLSEPTILKKALETLKGRARVKRTMWSRRAQEYEAKINSGDLVAISEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           RDL+R+++QPE+SYSERQLYE+AL+RM RE+AAV++++E EAI LIE NL     +  K
Sbjct: 121 RDLYRSEAQPEQSYSERQLYEAALDRMARELAAVDNLTETEAIKLIEQNLLKGPRRVGK 179


>gi|49474702|ref|YP_032744.1| transcriptional factor regulator [Bartonella quintana str.
           Toulouse]
 gi|49240206|emb|CAF26674.1| transcriptional factor regulator [Bartonella quintana str.
           Toulouse]
          Length = 194

 Score =  230 bits (588), Expect = 6e-59,   Method: Composition-based stats.
 Identities = 121/187 (64%), Positives = 146/187 (78%), Gaps = 1/187 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q +  +  +GF T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHRTSSNAKGFATSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KAI +GMRKLS    VERALK++ GKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKAISVGMRKLSAVDSVERALKILHGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R++ QPE+SYSERQLY +AL+RM REIA +NS+SE EA+NLIE++LS+K  K E  T
Sbjct: 121 DLFRSNLQPEQSYSERQLYTAALDRMAREIAVINSLSETEAVNLIEMHLSNK-PKCEFKT 179

Query: 181 SENQDKA 187
             ++  A
Sbjct: 180 KSDETNA 186


>gi|319781058|ref|YP_004140534.1| transcription factor CarD [Mesorhizobium ciceri biovar biserrulae
           WSM1271]
 gi|317166946|gb|ADV10484.1| transcription factor CarD [Mesorhizobium ciceri biovar biserrulae
           WSM1271]
          Length = 193

 Score =  230 bits (588), Expect = 6e-59,   Method: Composition-based stats.
 Identities = 129/181 (71%), Positives = 150/181 (82%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T Q+K  A R GF+TGE+IVYPAHGVG I  I EQEVAG KLE FVI F KDKM LKVP
Sbjct: 4   ITPQKKSTAARHGFKTGEYIVYPAHGVGQIVSIDEQEVAGHKLELFVIDFSKDKMRLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 64  VAKATSIGMRKLSEEDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+    +  K+ 
Sbjct: 124 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIEVNLNKGPKRGAKAD 183

Query: 181 S 181
           +
Sbjct: 184 N 184


>gi|220921710|ref|YP_002497011.1| CarD family transcriptional regulator [Methylobacterium nodulans
           ORS 2060]
 gi|219946316|gb|ACL56708.1| transcriptional regulator, CarD family [Methylobacterium nodulans
           ORS 2060]
          Length = 197

 Score =  230 bits (587), Expect = 8e-59,   Method: Composition-based stats.
 Identities = 116/187 (62%), Positives = 151/187 (80%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K  A RQGF+TGE IVYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP
Sbjct: 1   MTTAKKTTAARQGFKTGEAIVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA  +GMRKL+E   V++AL ++ G+ARVKRTMWSRRAQEY+AKINSGDLIA+ EVVR
Sbjct: 61  TAKANAVGMRKLAEPELVKKALDVLTGRARVKRTMWSRRAQEYEAKINSGDLIAVTEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R+++QPE+SYSERQLYE+AL+R+VREIAAVN I++ E++ LIE +L+    + + + 
Sbjct: 121 DLYRSEAQPEQSYSERQLYEAALDRVVREIAAVNKITDTESLKLIEQSLAKSPRRAKSAE 180

Query: 181 SENQDKA 187
            E +  A
Sbjct: 181 VEGEPDA 187


>gi|13473303|ref|NP_104870.1| transcriptional factor regulator [Mesorhizobium loti MAFF303099]
 gi|260461457|ref|ZP_05809704.1| transcriptional regulator, CarD family [Mesorhizobium opportunistum
           WSM2075]
 gi|14024051|dbj|BAB50656.1| transcriptional factor regulator [Mesorhizobium loti MAFF303099]
 gi|259032527|gb|EEW33791.1| transcriptional regulator, CarD family [Mesorhizobium opportunistum
           WSM2075]
          Length = 193

 Score =  230 bits (586), Expect = 9e-59,   Method: Composition-based stats.
 Identities = 128/181 (70%), Positives = 149/181 (82%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T Q+K    R GF+TGE+IVYPAHGVG I  I EQEVAG KLE FVI F KDKM LKVP
Sbjct: 4   ITPQKKSTGARHGFKTGEYIVYPAHGVGQIVSIDEQEVAGHKLELFVIDFQKDKMRLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVVR
Sbjct: 64  VAKATSIGMRKLSEEDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVVR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R D+QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+    +  K+ 
Sbjct: 124 DLYRADNQPEQSYSERQLYEAALDRMAREIAAVNRMSETEAVRLIEVNLNKGPKRGAKAD 183

Query: 181 S 181
           +
Sbjct: 184 N 184


>gi|222087730|ref|YP_002546267.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
 gi|221725178|gb|ACM28334.1| transcriptional regulator protein [Agrobacterium radiobacter K84]
          Length = 190

 Score =  230 bits (586), Expect = 9e-59,   Method: Composition-based stats.
 Identities = 141/191 (73%), Positives = 161/191 (84%), Gaps = 4/191 (2%)

Query: 1   MTFQQKR-DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT QQK+  A R GF+TGE IVYPAHGVGTIT I+EQEVAGMKLE FVI F+KDKM LKV
Sbjct: 1   MTTQQKKPSAARHGFKTGESIVYPAHGVGTITAIEEQEVAGMKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA+ IGMRKLSE  FVERALK+V+GKARVKRTMWSRRAQEYDAKINSGDLI+IAEVV
Sbjct: 61  PVAKAMSIGMRKLSETDFVERALKVVQGKARVKRTMWSRRAQEYDAKINSGDLISIAEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L+E NL+ K  K  K 
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRLVETNLN-KGPKRGKV 179

Query: 180 TSEN--QDKAA 188
             E+  QD+AA
Sbjct: 180 VEEDDSQDEAA 190


>gi|118591279|ref|ZP_01548677.1| transcriptional regulator, CarD family protein [Stappia aggregata
           IAM 12614]
 gi|118435951|gb|EAV42594.1| transcriptional regulator, CarD family protein [Stappia aggregata
           IAM 12614]
          Length = 194

 Score =  229 bits (585), Expect = 1e-58,   Method: Composition-based stats.
 Identities = 114/176 (64%), Positives = 140/176 (79%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGE+IVYPAHGVG IT I+EQ+VAG  LE  VI F++DKM L+VP
Sbjct: 1   MATNTKKTAQRQGFKTGEYIVYPAHGVGQITAIEEQKVAGHSLELLVIVFEQDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKL +   V++AL+ VRG+ RVKRTMWSRRAQEY+AKINSGDLI+I+EVVR
Sbjct: 61  VAKIASVGMRKLGDPAAVKKALETVRGRPRVKRTMWSRRAQEYEAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           DL R+++QPE+SYSERQLYE+AL+RM REIAAVN  SE EA+  IE NL+   S+ 
Sbjct: 121 DLFRSENQPEQSYSERQLYEAALDRMAREIAAVNKCSETEAVKQIEQNLAKSPSRI 176


>gi|328542018|ref|YP_004302127.1| CarD-like transcriptional regulator family [polymorphum gilvum
           SL003B-26A1]
 gi|326411768|gb|ADZ68831.1| CarD-like transcriptional regulator family [Polymorphum gilvum
           SL003B-26A1]
          Length = 192

 Score =  229 bits (584), Expect = 2e-58,   Method: Composition-based stats.
 Identities = 117/186 (62%), Positives = 146/186 (78%), Gaps = 1/186 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGEHIVYP+HGVG IT I+EQ VAG  LE  VI+F+KDKM L+VP
Sbjct: 1   MATITKKAAQRQGFKTGEHIVYPSHGVGQITAIEEQSVAGHSLELLVISFEKDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKL++A  V++AL+ VRG+ R+KRTMWSRRAQEY+AKINSGDLI+I+EVVR
Sbjct: 61  VAKIATVGMRKLADAPTVKKALETVRGRPRIKRTMWSRRAQEYEAKINSGDLISISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R+D+QPE+SYSERQLYE+AL+RM REIAAVN  SE EA+  IE NL+ ++    K  
Sbjct: 121 DLYRSDTQPEQSYSERQLYEAALDRMAREIAAVNKCSETEAVKQIEQNLA-RTPNRAKDA 179

Query: 181 SENQDK 186
               D+
Sbjct: 180 EAGDDE 185


>gi|49476179|ref|YP_034220.1| transcriptional factor regulator [Bartonella henselae str.
           Houston-1]
 gi|49238987|emb|CAF28287.1| Transcriptional factor regulator [Bartonella henselae str.
           Houston-1]
          Length = 194

 Score =  228 bits (583), Expect = 2e-58,   Method: Composition-based stats.
 Identities = 120/183 (65%), Positives = 141/183 (77%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q    +  +GF T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHGTSSNAKGFSTSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KAI +GMRKLS    VERALK++ GKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKAISVGMRKLSAVDSVERALKILHGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R+D QPE+SYSERQLY +AL RM REIA +NS+SE EAINLIE++LS K  +  K+ 
Sbjct: 121 DLFRSDLQPEQSYSERQLYIAALERMAREIAVINSLSETEAINLIEMHLSQKPKRQFKTK 180

Query: 181 SEN 183
            + 
Sbjct: 181 RDE 183


>gi|90420275|ref|ZP_01228183.1| transcriptional regulator, CarD family [Aurantimonas manganoxydans
           SI85-9A1]
 gi|90335609|gb|EAS49359.1| transcriptional regulator, CarD family [Aurantimonas manganoxydans
           SI85-9A1]
          Length = 205

 Score =  227 bits (580), Expect = 5e-58,   Method: Composition-based stats.
 Identities = 127/176 (72%), Positives = 147/176 (83%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
             QK+ + RQGF+TGE IVYPAHGVG I  I+EQEVAGMKLE FVI F+KDKM LKVPV 
Sbjct: 2   SSQKKASNRQGFKTGESIVYPAHGVGQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVPVA 61

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
           KA  +GMRKLSE  FVER+LK+V+G+ARVK+TMWSRRAQEYDAKINSGDLI IAEVVRDL
Sbjct: 62  KAESVGMRKLSETDFVERSLKVVQGRARVKKTMWSRRAQEYDAKINSGDLIQIAEVVRDL 121

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           +R DSQPE+SYSERQLYE+AL RM RE+AAVN +SE EA+ LIE+NL+    +  K
Sbjct: 122 YRADSQPEQSYSERQLYEAALGRMARELAAVNEVSETEAVQLIELNLNKGPKRVAK 177


>gi|146337765|ref|YP_001202813.1| CarD family transcriptional regulator [Bradyrhizobium sp. ORS278]
 gi|146190571|emb|CAL74573.1| putative transcriptional regulatory protein, CarD family
           [Bradyrhizobium sp. ORS278]
          Length = 204

 Score =  227 bits (580), Expect = 5e-58,   Method: Composition-based stats.
 Identities = 106/180 (58%), Positives = 138/180 (76%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
               RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K  +
Sbjct: 1   MPTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKVAN 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R++
Sbjct: 61  VGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYRSE 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDK 186
           SQPE+SYSERQLYE+AL+R+ REIA V   +E EA+  IE  L+    +  K+ ++   +
Sbjct: 121 SQPEQSYSERQLYEAALDRLSREIAVVQHSTETEAVKEIETQLAKSPRRGAKTEADAVAE 180


>gi|163869173|ref|YP_001610425.1| transcriptional factor [Bartonella tribocorum CIP 105476]
 gi|161018872|emb|CAK02430.1| transcriptional factor [Bartonella tribocorum CIP 105476]
          Length = 194

 Score =  227 bits (580), Expect = 5e-58,   Method: Composition-based stats.
 Identities = 119/186 (63%), Positives = 143/186 (76%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q    +  + F T E+IVYP HGVG I  I++QEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQHGTSSKTKEFATSEYIVYPTHGVGQIIAIEDQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+ +GMRKLS    VERALK++RGKARVKRTMWSRRAQEYDAKINSGDLI IAEVVR
Sbjct: 61  IAKALSVGMRKLSAGDSVERALKVLRGKARVKRTMWSRRAQEYDAKINSGDLICIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R++ QPE+SYSERQLY +AL RM REIA +NS+SE EAINLIE++LS+K  +  K+ 
Sbjct: 121 DLFRSNLQPEQSYSERQLYTAALERMAREIAVINSLSETEAINLIEMHLSNKPKREFKTE 180

Query: 181 SENQDK 186
            E   +
Sbjct: 181 REETVE 186


>gi|254504462|ref|ZP_05116613.1| CarD-like transcriptional regulator family [Labrenzia alexandrii
           DFL-11]
 gi|222440533|gb|EEE47212.1| CarD-like transcriptional regulator family [Labrenzia alexandrii
           DFL-11]
          Length = 199

 Score =  227 bits (580), Expect = 6e-58,   Method: Composition-based stats.
 Identities = 115/177 (64%), Positives = 140/177 (79%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGE+IVYPAHGVG IT I+EQ VAG  LE  VI F++DKM L+VP
Sbjct: 1   MATNTKKTAQRQGFKTGEYIVYPAHGVGQITAIEEQNVAGHSLELLVIVFEQDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKL +   V++AL+ V+G+ R+KRTMWSRRAQEY+AKINSGDLIAI+EVVR
Sbjct: 61  VAKIASVGMRKLGDPAAVKKALETVQGRPRIKRTMWSRRAQEYEAKINSGDLIAISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
           DL R++SQPE+SYSERQLYE+AL+RM REIAAVN  SE EAI  IE NL+   S+ +
Sbjct: 121 DLFRSESQPEQSYSERQLYEAALDRMAREIAAVNKCSETEAIKEIEQNLAKSPSRIK 177


>gi|72163306|ref|YP_290963.1| CarD family transcriptional regulator [Thermobifida fusca YX]
 gi|71917038|gb|AAZ56940.1| transcriptional regulator, CarD family [Thermobifida fusca YX]
          Length = 160

 Score =  227 bits (579), Expect = 6e-58,   Method: Composition-based stats.
 Identities = 48/159 (30%), Positives = 85/159 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G +  + V+  DK  + ++VP   A ++G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAARIEAIETRTIKGEEKTYLVLKVDKGDLTVRVPADNAEEVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +V E+A     +E +A  L++  L+
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTNEDKAEALLDEVLA 159


>gi|120406288|ref|YP_956117.1| CarD family transcriptional regulator [Mycobacterium vanbaalenii
           PYR-1]
 gi|119959106|gb|ABM16111.1| transcriptional regulator, CarD family [Mycobacterium vanbaalenii
           PYR-1]
          Length = 162

 Score =  227 bits (579), Expect = 6e-58,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVSQGDLTVRVPADNAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   +  + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAENTDDAKASTILDEVLAAAS 162


>gi|296268490|ref|YP_003651122.1| CarD family transcriptional regulator [Thermobispora bispora DSM
           43833]
 gi|296091277|gb|ADG87229.1| transcriptional regulator, CarD family [Thermobispora bispora DSM
           43833]
          Length = 163

 Score =  227 bits (579), Expect = 7e-58,   Method: Composition-based stats.
 Identities = 50/161 (31%), Positives = 85/161 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I  + + G +  + V+  DK  + ++VP   A  +G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAARIEAITTRTINGQEKTYLVLKVDKGDLTVQVPAENAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +ER   ++R     + T WSRR +    K+ SGD+  +AEVVRDL+R D +   
Sbjct: 61  VVGQEGLERVFDVLRMPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLYRRDKERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A   + +E +A  L++  L+S 
Sbjct: 121 SAGEKRMLAKARQILVSELALAENTNEDKAEALLDEVLNSA 161


>gi|145222036|ref|YP_001132714.1| CarD family transcriptional regulator [Mycobacterium gilvum
           PYR-GCK]
 gi|315446222|ref|YP_004079101.1| CarD family transcriptional regulator [Mycobacterium sp. Spyr1]
 gi|145214522|gb|ABP43926.1| transcriptional regulator, CarD family [Mycobacterium gilvum
           PYR-GCK]
 gi|315264525|gb|ADU01267.1| transcriptional regulator, CarD family [Mycobacterium sp. Spyr1]
          Length = 162

 Score =  226 bits (578), Expect = 7e-58,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   +  + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAENTDDAKASTILDEVLAAAS 162


>gi|158425667|ref|YP_001526959.1| transcription factor protein [Azorhizobium caulinodans ORS 571]
 gi|158332556|dbj|BAF90041.1| transcription factor protein [Azorhizobium caulinodans ORS 571]
          Length = 198

 Score =  226 bits (578), Expect = 8e-58,   Method: Composition-based stats.
 Identities = 116/187 (62%), Positives = 147/187 (78%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M+ ++     R GF+TGEHIVYP+HGVG IT I+EQEVAG KLE FVI+F+KDKM L+VP
Sbjct: 1   MSTKKSSAQARLGFKTGEHIVYPSHGVGRITSIEEQEVAGFKLELFVISFEKDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKLSE   V +AL+ ++G+ARVKRTMWSRRAQEY+AKINSGDLIAI+EVVR
Sbjct: 61  VPKIASVGMRKLSEGPVVTKALETLKGRARVKRTMWSRRAQEYEAKINSGDLIAISEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R+D+QPE+SYSERQLYE+AL+RM RE++AV +I+E E++ LIE NL     +     
Sbjct: 121 DLYRSDAQPEQSYSERQLYEAALDRMARELSAVQNITETESVKLIEQNLQKGPKRGAGKA 180

Query: 181 SENQDKA 187
            E +D  
Sbjct: 181 EEVEDSE 187


>gi|111021431|ref|YP_704403.1| CarD family transcriptional regulator [Rhodococcus jostii RHA1]
 gi|226363787|ref|YP_002781569.1| hypothetical protein ROP_43770 [Rhodococcus opacus B4]
 gi|110820961|gb|ABG96245.1| probable transcriptional regulator, CarD family protein
           [Rhodococcus jostii RHA1]
 gi|226242276|dbj|BAH52624.1| hypothetical protein [Rhodococcus opacus B4]
          Length = 162

 Score =  226 bits (578), Expect = 8e-58,   Method: Composition-based stats.
 Identities = 44/162 (27%), Positives = 83/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A        +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAEGTDSDKAETILDEVLAAAS 162


>gi|118470459|ref|YP_890299.1| CarD family transcriptional regulator [Mycobacterium smegmatis str.
           MC2 155]
 gi|118171746|gb|ABK72642.1| transcriptional regulator, CarD family protein [Mycobacterium
           smegmatis str. MC2 155]
          Length = 162

 Score =  226 bits (577), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   +  + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAENTDDAKAETILDEVLAAAS 162


>gi|226304175|ref|YP_002764133.1| hypothetical protein RER_06860 [Rhodococcus erythropolis PR4]
 gi|229494349|ref|ZP_04388112.1| transcriptional regulator, CarD family protein [Rhodococcus
           erythropolis SK121]
 gi|226183290|dbj|BAH31394.1| conserved hypothetical protein [Rhodococcus erythropolis PR4]
 gi|229318711|gb|EEN84569.1| transcriptional regulator, CarD family protein [Rhodococcus
           erythropolis SK121]
          Length = 162

 Score =  226 bits (577), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 44/162 (27%), Positives = 83/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A        +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAEGTDTEKAETILDEVLAAAS 162


>gi|148258713|ref|YP_001243298.1| CarD family transcriptional regulator [Bradyrhizobium sp. BTAi1]
 gi|146410886|gb|ABQ39392.1| transcriptional regulator, CarD family [Bradyrhizobium sp. BTAi1]
          Length = 278

 Score =  226 bits (577), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 107/183 (58%), Positives = 141/183 (77%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           ++K    RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K
Sbjct: 72  EKKLPTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAK 131

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
             ++GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+
Sbjct: 132 VANVGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLY 191

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           R++SQPE+SYSERQLYE+AL+R+ REIA V   +E EA+  IE  L+    +  K+ ++ 
Sbjct: 192 RSESQPEQSYSERQLYEAALDRLSREIAVVQHSTETEAVKEIETQLAKSPRRGAKTEADA 251

Query: 184 QDK 186
             +
Sbjct: 252 VAE 254


>gi|115522154|ref|YP_779065.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           BisA53]
 gi|115516101|gb|ABJ04085.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           BisA53]
          Length = 358

 Score =  226 bits (576), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 109/176 (61%), Positives = 138/176 (78%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           ++K    RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K
Sbjct: 161 EKKPLTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAK 220

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
             ++GMRKLSE   V+RAL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL 
Sbjct: 221 VTNVGMRKLSEPALVKRALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLF 280

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           R+DSQPE+SYSERQLYE+AL+R+ REIA V  ++E EA+  +E  L+    +  K+
Sbjct: 281 RSDSQPEQSYSERQLYEAALDRLSREIAVVQHVTETEAVKEVEGQLAKSPRRGAKT 336


>gi|297563240|ref|YP_003682214.1| CarD family transcriptional regulator [Nocardiopsis dassonvillei
           subsp. dassonvillei DSM 43111]
 gi|296847688|gb|ADH69708.1| transcriptional regulator, CarD family [Nocardiopsis dassonvillei
           subsp. dassonvillei DSM 43111]
          Length = 160

 Score =  226 bits (576), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 85/160 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G    + V+  DK  + ++VP   A D+G+R 
Sbjct: 1   MAFKVGDTVVYPHHGAARIEAIETRNIKGEDRIYLVLRVDKGDLTVRVPAANAEDVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A  L++  L++
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTNEDKAEALLDEVLTT 160


>gi|170742914|ref|YP_001771569.1| CarD family transcriptional regulator [Methylobacterium sp. 4-46]
 gi|168197188|gb|ACA19135.1| transcriptional regulator, CarD family [Methylobacterium sp. 4-46]
          Length = 197

 Score =  226 bits (576), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 117/179 (65%), Positives = 150/179 (83%), Gaps = 1/179 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K  A RQGF+TGE IVYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP
Sbjct: 1   MTTAKKTTAARQGFKTGEAIVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA  +GMRKL+E   V++AL ++ G+ARVKRTMWSRRAQEY+AKINSGDLIA+ EVVR
Sbjct: 61  TAKANAVGMRKLAEPDLVKKALDVLTGRARVKRTMWSRRAQEYEAKINSGDLIAVTEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           DL+R+++QPE+SYSERQLYE+AL+R+VREIAAVN I++ E++ LIE +L+ KS +  K+
Sbjct: 121 DLYRSEAQPEQSYSERQLYEAALDRVVREIAAVNKITDTESLKLIEQSLA-KSPRRAKN 178


>gi|54022399|ref|YP_116641.1| putative transcriptional regulator [Nocardia farcinica IFM 10152]
 gi|54013907|dbj|BAD55277.1| putative transcriptional regulator [Nocardia farcinica IFM 10152]
          Length = 162

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 46/162 (28%), Positives = 84/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDRVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A      + +A  L++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAEGTDDGKAETLLDEVLAAAS 162


>gi|21222627|ref|NP_628406.1| transcriptional factor regulator [Streptomyces coelicolor A3(2)]
 gi|29830513|ref|NP_825147.1| CarD-like transcriptional regulator [Streptomyces avermitilis
           MA-4680]
 gi|182437804|ref|YP_001825523.1| putative CarD-like transcriptional regulator [Streptomyces griseus
           subsp. griseus NBRC 13350]
 gi|239930480|ref|ZP_04687433.1| putative CarD-like transcriptional regulator [Streptomyces
           ghanaensis ATCC 14672]
 gi|239942338|ref|ZP_04694275.1| putative CarD-like transcriptional regulator [Streptomyces
           roseosporus NRRL 15998]
 gi|239988803|ref|ZP_04709467.1| putative CarD-like transcriptional regulator [Streptomyces
           roseosporus NRRL 11379]
 gi|254387144|ref|ZP_05002415.1| transcriptional factor regulator [Streptomyces sp. Mg1]
 gi|254388532|ref|ZP_05003766.1| transcriptional factor regulator [Streptomyces clavuligerus ATCC
           27064]
 gi|256786303|ref|ZP_05524734.1| putative CarD-like transcriptional regulator [Streptomyces lividans
           TK24]
 gi|282860513|ref|ZP_06269579.1| transcriptional regulator, CarD family [Streptomyces sp. ACTE]
 gi|289770194|ref|ZP_06529572.1| transcriptional factor regulator [Streptomyces lividans TK24]
 gi|290959414|ref|YP_003490596.1| transcriptional regulator [Streptomyces scabiei 87.22]
 gi|291438841|ref|ZP_06578231.1| transcriptional factor regulator [Streptomyces ghanaensis ATCC
           14672]
 gi|291445795|ref|ZP_06585185.1| transcriptional factor regulator [Streptomyces roseosporus NRRL
           15998]
 gi|294630053|ref|ZP_06708613.1| CarD family transcriptional regulator [Streptomyces sp. e14]
 gi|294814053|ref|ZP_06772696.1| Transcriptional regulator, CarD family [Streptomyces clavuligerus
           ATCC 27064]
 gi|295838029|ref|ZP_06824962.1| CarD family transcriptional regulator [Streptomyces sp. SPB74]
 gi|297193588|ref|ZP_06910986.1| transcriptional regulator [Streptomyces pristinaespiralis ATCC
           25486]
 gi|297200594|ref|ZP_06917991.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
 gi|302520127|ref|ZP_07272469.1| transcriptional regulator [Streptomyces sp. SPB78]
 gi|302535866|ref|ZP_07288208.1| transcriptional regulator [Streptomyces sp. C]
 gi|302552344|ref|ZP_07304686.1| transcriptional regulator [Streptomyces viridochromogenes DSM
           40736]
 gi|302559957|ref|ZP_07312299.1| CarD family transcriptional regulator [Streptomyces griseoflavus
           Tu4000]
 gi|318058492|ref|ZP_07977215.1| transcriptional regulator [Streptomyces sp. SA3_actG]
 gi|318075598|ref|ZP_07982930.1| transcriptional regulator [Streptomyces sp. SA3_actF]
 gi|326442457|ref|ZP_08217191.1| transcriptional regulator [Streptomyces clavuligerus ATCC 27064]
 gi|326778439|ref|ZP_08237704.1| transcriptional regulator, CarD family [Streptomyces cf. griseus
           XylebKG-1]
 gi|329936179|ref|ZP_08285972.1| transcriptional regulator [Streptomyces griseoaurantiacus M045]
 gi|7242753|emb|CAB77326.1| putative transcriptional factor regulator [Streptomyces coelicolor
           A3(2)]
 gi|29607625|dbj|BAC71682.1| putative CarD-like transcriptional regulator [Streptomyces
           avermitilis MA-4680]
 gi|178466320|dbj|BAG20840.1| putative CarD-like transcriptional regulator [Streptomyces griseus
           subsp. griseus NBRC 13350]
 gi|194345960|gb|EDX26926.1| transcriptional factor regulator [Streptomyces sp. Mg1]
 gi|197699155|gb|EDY46088.1| CarD family transcriptional regulator [Streptomyces sp. SPB74]
 gi|197702253|gb|EDY48065.1| transcriptional factor regulator [Streptomyces clavuligerus ATCC
           27064]
 gi|197709720|gb|EDY53754.1| transcriptional regulator [Streptomyces sviceus ATCC 29083]
 gi|197718134|gb|EDY62042.1| transcriptional regulator [Streptomyces pristinaespiralis ATCC
           25486]
 gi|260648940|emb|CBG72054.1| putative transcriptional regulator [Streptomyces scabiei 87.22]
 gi|282564249|gb|EFB69785.1| transcriptional regulator, CarD family [Streptomyces sp. ACTE]
 gi|289700393|gb|EFD67822.1| transcriptional factor regulator [Streptomyces lividans TK24]
 gi|291341736|gb|EFE68692.1| transcriptional factor regulator [Streptomyces ghanaensis ATCC
           14672]
 gi|291348742|gb|EFE75646.1| transcriptional factor regulator [Streptomyces roseosporus NRRL
           15998]
 gi|292833386|gb|EFF91735.1| CarD family transcriptional regulator [Streptomyces sp. e14]
 gi|294326652|gb|EFG08295.1| Transcriptional regulator, CarD family [Streptomyces clavuligerus
           ATCC 27064]
 gi|297158399|gb|ADI08111.1| putative transcriptional regulator [Streptomyces bingchenggensis
           BCW-1]
 gi|302429022|gb|EFL00838.1| transcriptional regulator [Streptomyces sp. SPB78]
 gi|302444761|gb|EFL16577.1| transcriptional regulator [Streptomyces sp. C]
 gi|302469962|gb|EFL33055.1| transcriptional regulator [Streptomyces viridochromogenes DSM
           40736]
 gi|302477575|gb|EFL40668.1| CarD family transcriptional regulator [Streptomyces griseoflavus
           Tu4000]
 gi|315455531|emb|CBY85030.1| hypothetical protein [Streptomyces sp. ATCC 55098]
 gi|326658772|gb|EGE43618.1| transcriptional regulator, CarD family [Streptomyces cf. griseus
           XylebKG-1]
 gi|328884013|emb|CCA57252.1| CarD transcriptional regulator [Streptomyces venezuelae ATCC 10712]
 gi|329304289|gb|EGG48169.1| transcriptional regulator [Streptomyces griseoaurantiacus M045]
          Length = 160

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   
Sbjct: 61  VVGQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|271962514|ref|YP_003336710.1| carD family transcriptional regulator [Streptosporangium roseum DSM
           43021]
 gi|270505689|gb|ACZ83967.1| CarD family transcriptional regulator [Streptosporangium roseum DSM
           43021]
          Length = 160

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 50/160 (31%), Positives = 83/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I  + + G +  + V+  DK  + ++VP   A  +G+R 
Sbjct: 1   MTFQVGDTVVYPHHGAARIEAITTRTIKGEERTYLVLKVDKGDLTVQVPADNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +ER   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLERVFDVLRMPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTNEDKAEALLDEVLNS 160


>gi|209883217|ref|YP_002287074.1| transcriptional regulator of CarD family [Oligotropha
           carboxidovorans OM5]
 gi|209871413|gb|ACI91209.1| transcriptional regulator of CarD family [Oligotropha
           carboxidovorans OM5]
          Length = 323

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 108/172 (62%), Positives = 138/172 (80%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+T E +VYPAHGVG I  I+EQE+AG +LE FVI+F KDKM L+VP  K 
Sbjct: 119 KKPLTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGARLELFVISFIKDKMTLRVPTAKV 178

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
           I++GMRKLS+   V+RAL  ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 179 INVGMRKLSDPALVKRALDTLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 238

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           ++SQPE+SYSERQLYE+AL+R+ REIA V  I+E EAI  +E NL+    + 
Sbjct: 239 SESQPEQSYSERQLYEAALDRLSREIAVVQHITETEAIKEVEANLAKSPRRG 290


>gi|85713774|ref|ZP_01044764.1| transcription factor CarD [Nitrobacter sp. Nb-311A]
 gi|85699678|gb|EAQ37545.1| transcription factor CarD [Nitrobacter sp. Nb-311A]
          Length = 220

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 109/182 (59%), Positives = 140/182 (76%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+T E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K 
Sbjct: 22  KKVLTQRQGFKTNEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKI 81

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLSE   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 82  ANVGMRKLSEPDLVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 141

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           ++SQPE+SYSERQLYE+AL+R+ REIA V  ++E EAI  IE  L+    +  K+  + +
Sbjct: 142 SESQPEQSYSERQLYEAALDRLSREIAVVQHVTETEAIKEIEGQLAKSPRRGAKAELDAE 201

Query: 185 DK 186
             
Sbjct: 202 AD 203


>gi|333026128|ref|ZP_08454192.1| putative transcriptional factor regulator [Streptomyces sp. Tu6071]
 gi|332745980|gb|EGJ76421.1| putative transcriptional factor regulator [Streptomyces sp. Tu6071]
          Length = 160

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAALIDAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   
Sbjct: 61  VVGQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|300024663|ref|YP_003757274.1| CarD family transcriptional regulator [Hyphomicrobium denitrificans
           ATCC 51888]
 gi|299526484|gb|ADJ24953.1| transcriptional regulator, CarD family [Hyphomicrobium
           denitrificans ATCC 51888]
          Length = 333

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 106/188 (56%), Positives = 140/188 (74%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +  Q+K    R GF+  E +VYPAHGVG I  I+EQE+AGM LE FVI FDK+K+ L+VP
Sbjct: 146 LAVQKKPVNQRHGFKANEFVVYPAHGVGRIVGIEEQEIAGMSLELFVITFDKEKLTLRVP 205

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
            GK   +GMRKL++   V++A++ ++G+AR+KRTMWSRRAQEY AKINSGDLI+IAEVVR
Sbjct: 206 TGKLASVGMRKLADEGLVKKAMETLKGRARIKRTMWSRRAQEYVAKINSGDLISIAEVVR 265

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R+++QPE+SYSERQLYE AL+RM RE+AAV  + E  A+  I   LS  +     + 
Sbjct: 266 DLYRSEAQPEQSYSERQLYEDALDRMARELAAVEKLDERGAVQRITEILSKSAKGRRLAD 325

Query: 181 SENQDKAA 188
           SE+  +AA
Sbjct: 326 SESVGEAA 333


>gi|92116128|ref|YP_575857.1| CarD family transcriptional regulator [Nitrobacter hamburgensis
           X14]
 gi|91799022|gb|ABE61397.1| transcriptional regulator, CarD family [Nitrobacter hamburgensis
           X14]
          Length = 259

 Score =  225 bits (575), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 109/177 (61%), Positives = 139/177 (78%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGFRT E +VYPAHGVG I  I+EQE+AG +LE FVI F KDKM L+VP  K 
Sbjct: 63  KKVLTQRQGFRTNEFVVYPAHGVGQILAIEEQEIAGARLELFVINFMKDKMTLRVPTAKI 122

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLSE   V+RAL+ ++G+AR+KRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 123 ANVGMRKLSEPGLVKRALETLKGRARIKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 182

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTS 181
           ++SQPE+SYSERQLYE+AL+R+ REIA V  ++E EA+  IE  L+    +  K+ S
Sbjct: 183 SESQPEQSYSERQLYEAALDRLSREIAVVQHVTETEAVKEIEGQLAKSPRRGAKAES 239


>gi|154244145|ref|YP_001415103.1| CarD family transcriptional regulator [Xanthobacter autotrophicus
           Py2]
 gi|154158230|gb|ABS65446.1| transcriptional regulator, CarD family [Xanthobacter autotrophicus
           Py2]
          Length = 206

 Score =  225 bits (574), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 115/183 (62%), Positives = 146/183 (79%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
             +K    R GF+TGEHIVYP+HGVG I  I+EQEVAG KLE FVI+F+KDKM L+VPV 
Sbjct: 13  SAKKNAQTRLGFKTGEHIVYPSHGVGRIMAIEEQEVAGFKLELFVISFEKDKMTLRVPVP 72

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
           K   +GMRKLSE + V+++L+ ++G+ARVKRTMWSRRAQEY+AKINSGDL+AI+EVVRDL
Sbjct: 73  KIATVGMRKLSETNIVDKSLETLQGRARVKRTMWSRRAQEYEAKINSGDLVAISEVVRDL 132

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
           +R+D+QPE+SYSERQLYE+AL+RM RE++AVN+I+E EA+ LIE NL     +      E
Sbjct: 133 YRSDAQPEQSYSERQLYEAALDRMARELSAVNNITETEAVKLIEQNLLKGPRRGTAKVVE 192

Query: 183 NQD 185
             D
Sbjct: 193 EAD 195


>gi|302544415|ref|ZP_07296757.1| CarD family transcriptional regulator [Streptomyces hygroscopicus
           ATCC 53653]
 gi|307326973|ref|ZP_07606163.1| transcriptional regulator, CarD family [Streptomyces violaceusniger
           Tu 4113]
 gi|302462033|gb|EFL25126.1| CarD family transcriptional regulator [Streptomyces himastatinicus
           ATCC 53653]
 gi|306887271|gb|EFN18267.1| transcriptional regulator, CarD family [Streptomyces violaceusniger
           Tu 4113]
          Length = 160

 Score =  225 bits (574), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   
Sbjct: 61  VVGQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   S +E +A  L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAESTNEDKAEALLDEVLAS 160


>gi|254563203|ref|YP_003070298.1| carD family transcriptional regulator [Methylobacterium extorquens
           DM4]
 gi|254270481|emb|CAX26481.1| transcriptional regulator, CarD family [Methylobacterium extorquens
           DM4]
          Length = 224

 Score =  225 bits (574), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 111/176 (63%), Positives = 145/176 (82%), Gaps = 1/176 (0%)

Query: 1   MTFQQKRD-AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT  +K   A RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+V
Sbjct: 29  MTTAKKTTVAGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRV 88

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           P  KA  +GMRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI++ EVV
Sbjct: 89  PTAKANSVGMRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLISVTEVV 148

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           RDL R+++QPE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+    +
Sbjct: 149 RDLFRSEAQPEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSLAKSPRR 204


>gi|134298063|ref|YP_001111559.1| CarD family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134050763|gb|ABO48734.1| transcriptional regulator, CarD family [Desulfotomaculum reducens
           MI-1]
          Length = 158

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 49/158 (31%), Positives = 87/158 (55%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+    D+G+R +
Sbjct: 1   MFKIGDKVVYPMHGAGVIEAIEEKEVLGKKRQYYILRLPIGDMKVMIPISNCDDVGLRGI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   V   L+++ G+  V    W+RR +    KI SGD+  +AEVVR+L   D +   S
Sbjct: 61  IDRDEVSTVLEVLEGQTTVMSGNWNRRYRANLEKIKSGDIYEVAEVVRNLLTRDKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++ E+A   ++ E+     + E +A +LI+   +
Sbjct: 121 SGERKMLENARQILISELVLAAEMEETKARSLIDEVFA 158


>gi|170750107|ref|YP_001756367.1| CarD family transcriptional regulator [Methylobacterium
           radiotolerans JCM 2831]
 gi|170656629|gb|ACB25684.1| transcriptional regulator, CarD family [Methylobacterium
           radiotolerans JCM 2831]
          Length = 201

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 114/177 (64%), Positives = 149/177 (84%), Gaps = 1/177 (0%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+VP  KA  +GMR
Sbjct: 12  RQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRVPTAKANSVGMR 71

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KL+E   V++AL L+ G+AR+KRTMWSRRAQEY+AKINSGDL+A+ EVVRDL R+++QPE
Sbjct: 72  KLAEPELVKKALDLLTGRARIKRTMWSRRAQEYEAKINSGDLLAVTEVVRDLFRSEAQPE 131

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
           +SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+ KS +  KS +E + +A
Sbjct: 132 QSYSERQLYEAALDRIVREISSVNRITETEALKLIEQSLA-KSPRRAKSEAEPEAEA 187


>gi|319899401|ref|YP_004159498.1| transcriptional factor [Bartonella clarridgeiae 73]
 gi|319403369|emb|CBI76928.1| transcriptional factor [Bartonella clarridgeiae 73]
          Length = 191

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 114/187 (60%), Positives = 140/187 (74%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M   +   +  + F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASPRNTSSSAKDFLTSEYIVYPTHGVGQIMAIEEQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+ IGMRKLS    V RA K+++G+AR+KRTMWSRRAQEYD KINSGD+I+IAEV+R
Sbjct: 61  IAKALSIGMRKLSTVDSVNRAFKILQGRARIKRTMWSRRAQEYDTKINSGDIISIAEVIR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R+D QPE+SYSERQLY  AL+RM REIA VNS++E EAINLIE +L+ KS    KS 
Sbjct: 121 DLFRSDLQPEQSYSERQLYAIALDRMAREIAVVNSLTETEAINLIEKHLTKKSKSEFKSE 180

Query: 181 SENQDKA 187
            +  + A
Sbjct: 181 IDEGNNA 187


>gi|269124964|ref|YP_003298334.1| CarD family transcriptional regulator [Thermomonospora curvata DSM
           43183]
 gi|268309922|gb|ACY96296.1| transcriptional regulator, CarD family [Thermomonospora curvata DSM
           43183]
          Length = 160

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 48/159 (30%), Positives = 83/159 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   I  I+ + + G    + V+  DK  + ++VPV    ++G+R 
Sbjct: 1   MTFTVGDTVVYPHHGAARIEAIETRTIKGEDKTYLVLKVDKGDLTVRVPVENVEEVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E+  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLEKVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +V E+A     +E +A  L++  L+
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTNEDKAEALLDEVLA 159


>gi|311896848|dbj|BAJ29256.1| putative CarD family transcriptional regulator [Kitasatospora setae
           KM-6054]
          Length = 160

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + L+VP   A  +G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVQQGDLTLRVPAENAEFVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   
Sbjct: 61  VVGQEGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAENTNEDKAETLLDEVLAS 160


>gi|182680042|ref|YP_001834188.1| CarD family transcriptional regulator [Beijerinckia indica subsp.
           indica ATCC 9039]
 gi|182635925|gb|ACB96699.1| transcriptional regulator, CarD family [Beijerinckia indica subsp.
           indica ATCC 9039]
          Length = 368

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 108/174 (62%), Positives = 136/174 (78%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A R GF+  E IVYPAHGVG I  I+EQEVAG KLE FVI+F KDKM LKVP  KA+ + 
Sbjct: 179 AQRHGFKPLEFIVYPAHGVGQIIAIEEQEVAGFKLELFVISFVKDKMILKVPTPKAVSVR 238

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MRKL+EA  +++AL+ + G+AR+KRTMWSRRAQEY+AKINSGDLIA+AEVVRDL+R+D+Q
Sbjct: 239 MRKLAEADVIDKALETLTGRARIKRTMWSRRAQEYEAKINSGDLIAVAEVVRDLYRSDAQ 298

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
           PE+SYSERQLYE+AL+R+ RE+AAV  ++E E++ LIE  L     +      E
Sbjct: 299 PEQSYSERQLYEAALDRVARELAAVQKLTETESLKLIEAQLLKGPRRGGSKVEE 352


>gi|320009411|gb|ADW04261.1| transcriptional regulator, CarD family [Streptomyces flavogriseus
           ATCC 33331]
          Length = 160

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAALIEAIETRQIKGVDKTYLVLKVAQGDLTVRVPADNAEFVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   
Sbjct: 61  VVGQEGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|240172169|ref|ZP_04750828.1| transcriptional regulator, CarD family protein [Mycobacterium
           kansasii ATCC 12478]
 gi|296166638|ref|ZP_06849065.1| CarD family transcriptional regulator [Mycobacterium
           parascrofulaceum ATCC BAA-614]
 gi|295898010|gb|EFG77589.1| CarD family transcriptional regulator [Mycobacterium
           parascrofulaceum ATCC BAA-614]
          Length = 162

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 162


>gi|114705884|ref|ZP_01438787.1| hypothetical protein FP2506_15499 [Fulvimarina pelagi HTCC2506]
 gi|114538730|gb|EAU41851.1| hypothetical protein FP2506_15499 [Fulvimarina pelagi HTCC2506]
          Length = 204

 Score =  225 bits (573), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 122/176 (69%), Positives = 144/176 (81%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
              K+ +  +GF+TGE IVYPAHGVG I  I+EQEVAGMKLE FV+ F+KDKM LKVPV 
Sbjct: 2   SSPKKASASKGFKTGESIVYPAHGVGKIVAIEEQEVAGMKLELFVVDFEKDKMRLKVPVA 61

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
           KA  +GMRKLSE  FV+RALK+V+G+ARVK+TMWSRRAQEYDAKINSGDLI IAEVVRDL
Sbjct: 62  KAKSVGMRKLSETDFVDRALKVVQGRARVKKTMWSRRAQEYDAKINSGDLIQIAEVVRDL 121

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           +R D+QPE+SYSERQLYE+AL RM RE+AAVN +SE EA+ LIE NL+    +  K
Sbjct: 122 YRADTQPEQSYSERQLYEAALGRMARELAAVNEVSETEAVRLIEENLNKGPKRGPK 177


>gi|284989246|ref|YP_003407800.1| CarD family transcriptional regulator [Geodermatophilus obscurus
           DSM 43160]
 gi|284062491|gb|ADB73429.1| transcriptional regulator, CarD family [Geodermatophilus obscurus
           DSM 43160]
          Length = 160

 Score =  224 bits (572), Expect = 4e-57,   Method: Composition-based stats.
 Identities = 49/160 (30%), Positives = 82/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
            GF  GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP   A  +G+R 
Sbjct: 1   MGFTVGETVVYPHHGAALIEAIETRVIKGEERAYLVLKVAQGDLTVRVPADNAEIVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGQDGLNRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 121 SAGEKRMLSKARQILVSELALAEGTNEDKAEVLLDEVLAS 160


>gi|239981206|ref|ZP_04703730.1| putative CarD-like transcriptional regulator [Streptomyces albus
           J1074]
 gi|291453071|ref|ZP_06592461.1| transcriptional factor regulator [Streptomyces albus J1074]
 gi|291356020|gb|EFE82922.1| transcriptional factor regulator [Streptomyces albus J1074]
          Length = 160

 Score =  224 bits (572), Expect = 5e-57,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ +++ G+   + V+   +  + ++VP   A  +G+R 
Sbjct: 1   MTFKVGDTVVYPHHGAALIEAIETRQIKGVDKNYLVLKVAQGDLTVRVPADNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R + +   
Sbjct: 61  VVGQDGLDRVFEVLRAPYAEEPTNWSRRYKANLEKLASGDVIRVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   + +E +A  L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAENTNEDKAEALLDEVLAS 160


>gi|319409358|emb|CBI83002.1| transcriptional factor [Bartonella schoenbuchensis R1]
          Length = 194

 Score =  224 bits (571), Expect = 6e-57,   Method: Composition-based stats.
 Identities = 119/190 (62%), Positives = 147/190 (77%), Gaps = 2/190 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q+K+ +  +GF T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MASQRKKTSSVKGFSTSEYIVYPTHGVGQIIAIEEQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+ IGMRKLSE+  VERALK ++GKARVKR MWSRRAQEYD KINSG+L+ IAEVVR
Sbjct: 61  VAKALSIGMRKLSESDLVERALKTLQGKARVKRAMWSRRAQEYDTKINSGNLVFIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS- 179
           DL R++ Q E+SYSERQLY +AL+RM REIA +N++SE EAINLIE +L+ +S +  K+ 
Sbjct: 121 DLFRSELQSEQSYSERQLYAAALDRMAREIAIINNLSETEAINLIETHLTKESKRKFKAG 180

Query: 180 -TSENQDKAA 188
              E  D +A
Sbjct: 181 MDEEKDDSSA 190


>gi|323703787|ref|ZP_08115425.1| transcriptional regulator, CarD family [Desulfotomaculum
           nigrificans DSM 574]
 gi|323531256|gb|EGB21157.1| transcriptional regulator, CarD family [Desulfotomaculum
           nigrificans DSM 574]
          Length = 158

 Score =  224 bits (571), Expect = 6e-57,   Method: Composition-based stats.
 Identities = 48/158 (30%), Positives = 91/158 (57%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+  + ++G+R++
Sbjct: 1   MFKIGDKVVYPMHGAGVIEAIEEKEVLGEKRKYYILRLPIGDMKVMIPINNSEEVGLREI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                V++ + +++GK  V  T W+RR +    KI SGD+  +AEVVR+L   D +   S
Sbjct: 61  IAPDEVKQVMGVLQGKTSVMSTNWNRRYRANLEKIKSGDIYEVAEVVRNLLTRDKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++ E+A   ++ E+     + E +A ++I+   +
Sbjct: 121 SGERKMLENARQILISELVLATELEEDKARSMIDGVFA 158


>gi|319407756|emb|CBI81403.1| transcriptional factor [Bartonella sp. 1-1C]
          Length = 191

 Score =  223 bits (570), Expect = 7e-57,   Method: Composition-based stats.
 Identities = 112/187 (59%), Positives = 136/187 (72%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M   +      + F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MAPPRNTSFSAEDFSTSEYIVYPTHGVGQIMAIEEQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+  GMRKLS    V RA K+++GKAR+KRTMWSRRAQEYD KINSGD+I+IAEVVR
Sbjct: 61  VAKALSTGMRKLSTVDSVNRAFKILQGKARIKRTMWSRRAQEYDTKINSGDIISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R+  QPE+SYSERQLY  AL+RM REIA +N+++E EAINLIE +L  KS    K+ 
Sbjct: 121 DLFRSALQPEQSYSERQLYAIALDRMAREIAIINNLTETEAINLIEKHLDKKSKCEFKNE 180

Query: 181 SENQDKA 187
            +  + A
Sbjct: 181 IDEGNNA 187


>gi|108801703|ref|YP_641900.1| CarD family transcriptional regulator [Mycobacterium sp. MCS]
 gi|119870854|ref|YP_940806.1| CarD family transcriptional regulator [Mycobacterium sp. KMS]
 gi|126437690|ref|YP_001073381.1| CarD family transcriptional regulator [Mycobacterium sp. JLS]
 gi|108772122|gb|ABG10844.1| transcriptional regulator, CarD family [Mycobacterium sp. MCS]
 gi|119696943|gb|ABL94016.1| transcriptional regulator, CarD family [Mycobacterium sp. KMS]
 gi|126237490|gb|ABO00891.1| transcriptional regulator, CarD family [Mycobacterium sp. JLS]
          Length = 162

 Score =  223 bits (569), Expect = 9e-57,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 87/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPADNAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   ++ + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAENVEDEKATIILDEALAAAS 162


>gi|15610719|ref|NP_218100.1| transcription factor [Mycobacterium tuberculosis H37Rv]
 gi|15843196|ref|NP_338233.1| hypothetical protein MT3689 [Mycobacterium tuberculosis CDC1551]
 gi|31794760|ref|NP_857253.1| putative transcription factor [Mycobacterium bovis AF2122/97]
 gi|41406573|ref|NP_959409.1| hypothetical protein MAP0475 [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|118464023|ref|YP_879850.1| CarD family transcriptional regulator [Mycobacterium avium 104]
 gi|118619338|ref|YP_907670.1| transcriptional regulatory protein [Mycobacterium ulcerans Agy99]
 gi|121639503|ref|YP_979727.1| putative transcription factor [Mycobacterium bovis BCG str. Pasteur
           1173P2]
 gi|148663447|ref|YP_001284970.1| putative transcription factor [Mycobacterium tuberculosis H37Ra]
 gi|148824789|ref|YP_001289543.1| transcription factor [Mycobacterium tuberculosis F11]
 gi|167967112|ref|ZP_02549389.1| hypothetical transcription factor [Mycobacterium tuberculosis
           H37Ra]
 gi|183985051|ref|YP_001853342.1| transcriptional regulatory protein [Mycobacterium marinum M]
 gi|215405632|ref|ZP_03417813.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           02_1987]
 gi|215413503|ref|ZP_03422180.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           94_M4241A]
 gi|215429084|ref|ZP_03427003.1| transcriptional regulatory protein [Mycobacterium tuberculosis T92]
 gi|215432556|ref|ZP_03430475.1| transcriptional regulatory protein [Mycobacterium tuberculosis
           EAS054]
 gi|215447917|ref|ZP_03434669.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|218755367|ref|ZP_03534163.1| transcriptional regulatory protein [Mycobacterium tuberculosis GM
           1503]
 gi|219559660|ref|ZP_03538736.1| transcriptional regulatory protein [Mycobacterium tuberculosis T17]
 gi|253800624|ref|YP_003033625.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|254366146|ref|ZP_04982190.1| hypothetical transcription factor [Mycobacterium tuberculosis str.
           Haarlem]
 gi|254552692|ref|ZP_05143139.1| transcriptional regulator [Mycobacterium tuberculosis '98-R604
           INH-RIF-EM']
 gi|254773528|ref|ZP_05215044.1| transcriptional regulatory protein [Mycobacterium avium subsp.
           avium ATCC 25291]
 gi|254822710|ref|ZP_05227711.1| transcriptional regulatory protein [Mycobacterium intracellulare
           ATCC 13950]
 gi|260184500|ref|ZP_05761974.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|260198625|ref|ZP_05766116.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|260202771|ref|ZP_05770262.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289441013|ref|ZP_06430757.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289445177|ref|ZP_06434921.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|289555847|ref|ZP_06445057.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|289571825|ref|ZP_06452052.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289572236|ref|ZP_06452463.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289747420|ref|ZP_06506798.1| transcription factor [Mycobacterium tuberculosis 02_1987]
 gi|289752298|ref|ZP_06511676.1| transcriptional regulator [Mycobacterium tuberculosis T92]
 gi|289755712|ref|ZP_06515090.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|289759741|ref|ZP_06519119.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|289763762|ref|ZP_06523140.1| transcription factor [Mycobacterium tuberculosis GM 1503]
 gi|294993703|ref|ZP_06799394.1| transcriptional regulator [Mycobacterium tuberculosis 210]
 gi|297636258|ref|ZP_06954038.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
 gi|297733251|ref|ZP_06962369.1| transcriptional regulator [Mycobacterium tuberculosis KZN R506]
 gi|298527062|ref|ZP_07014471.1| transcriptional regulator [Mycobacterium tuberculosis 94_M4241A]
 gi|306777937|ref|ZP_07416274.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|306778466|ref|ZP_07416803.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|306786490|ref|ZP_07424812.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|306790855|ref|ZP_07429177.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|306791178|ref|ZP_07429480.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|306795963|ref|ZP_07434265.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|306801211|ref|ZP_07437879.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|306805423|ref|ZP_07442091.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|306969715|ref|ZP_07482376.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|306974055|ref|ZP_07486716.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|307081764|ref|ZP_07490934.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|307086380|ref|ZP_07495493.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
 gi|313660581|ref|ZP_07817461.1| transcriptional regulator [Mycobacterium tuberculosis KZN V2475]
 gi|3261556|emb|CAA17859.1| POSSIBLE TRANSCRIPTION FACTOR [Mycobacterium tuberculosis H37Rv]
 gi|13883549|gb|AAK48047.1| conserved hypothetical protein [Mycobacterium tuberculosis CDC1551]
 gi|31620357|emb|CAD95800.1| PUTATIVE TRANSCRIPTION FACTOR [Mycobacterium bovis AF2122/97]
 gi|41394922|gb|AAS02792.1| hypothetical protein MAP_0475 [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|118165310|gb|ABK66207.1| transcriptional regulator, CarD family protein [Mycobacterium avium
           104]
 gi|118571448|gb|ABL06199.1| conserved transcriptional regulatory protein [Mycobacterium
           ulcerans Agy99]
 gi|121495151|emb|CAL73637.1| Putative transcription factor [Mycobacterium bovis BCG str. Pasteur
           1173P2]
 gi|134151658|gb|EBA43703.1| hypothetical transcription factor [Mycobacterium tuberculosis str.
           Haarlem]
 gi|148507599|gb|ABQ75408.1| putative transcription factor [Mycobacterium tuberculosis H37Ra]
 gi|148723316|gb|ABR07941.1| hypothetical transcription factor [Mycobacterium tuberculosis F11]
 gi|183178377|gb|ACC43487.1| conserved transcriptional regulatory protein [Mycobacterium marinum
           M]
 gi|253322127|gb|ACT26730.1| transcriptional regulator [Mycobacterium tuberculosis KZN 1435]
 gi|289413932|gb|EFD11172.1| transcriptional regulator [Mycobacterium tuberculosis T46]
 gi|289418135|gb|EFD15336.1| transcriptional regulator [Mycobacterium tuberculosis CPHL_A]
 gi|289440479|gb|EFD22972.1| transcriptional regulator [Mycobacterium tuberculosis KZN 605]
 gi|289536667|gb|EFD41245.1| transcriptional regulator [Mycobacterium tuberculosis K85]
 gi|289545579|gb|EFD49227.1| transcriptional regulator [Mycobacterium tuberculosis T17]
 gi|289687948|gb|EFD55436.1| transcription factor [Mycobacterium tuberculosis 02_1987]
 gi|289692885|gb|EFD60314.1| transcriptional regulator [Mycobacterium tuberculosis T92]
 gi|289696299|gb|EFD63728.1| transcriptional regulator [Mycobacterium tuberculosis EAS054]
 gi|289711268|gb|EFD75284.1| transcription factor [Mycobacterium tuberculosis GM 1503]
 gi|289715305|gb|EFD79317.1| transcriptional regulatory protein [Mycobacterium tuberculosis T85]
 gi|298496856|gb|EFI32150.1| transcriptional regulator [Mycobacterium tuberculosis 94_M4241A]
 gi|308213809|gb|EFO73208.1| transcriptional regulator [Mycobacterium tuberculosis SUMu001]
 gi|308328563|gb|EFP17414.1| transcriptional regulator [Mycobacterium tuberculosis SUMu002]
 gi|308328978|gb|EFP17829.1| transcriptional regulator [Mycobacterium tuberculosis SUMu003]
 gi|308332800|gb|EFP21651.1| transcriptional regulator [Mycobacterium tuberculosis SUMu004]
 gi|308340291|gb|EFP29142.1| transcriptional regulator [Mycobacterium tuberculosis SUMu005]
 gi|308343630|gb|EFP32481.1| transcriptional regulator [Mycobacterium tuberculosis SUMu006]
 gi|308348097|gb|EFP36948.1| transcriptional regulator [Mycobacterium tuberculosis SUMu007]
 gi|308352020|gb|EFP40871.1| transcriptional regulator [Mycobacterium tuberculosis SUMu008]
 gi|308352807|gb|EFP41658.1| transcriptional regulator [Mycobacterium tuberculosis SUMu009]
 gi|308356657|gb|EFP45508.1| transcriptional regulator [Mycobacterium tuberculosis SUMu010]
 gi|308360612|gb|EFP49463.1| transcriptional regulator [Mycobacterium tuberculosis SUMu011]
 gi|308364200|gb|EFP53051.1| transcriptional regulator [Mycobacterium tuberculosis SUMu012]
 gi|323717777|gb|EGB26975.1| transcriptional regulator [Mycobacterium tuberculosis CDC1551A]
 gi|326905422|gb|EGE52355.1| transcriptional regulator [Mycobacterium tuberculosis W-148]
 gi|328460355|gb|AEB05778.1| transcriptional regulator [Mycobacterium tuberculosis KZN 4207]
          Length = 162

 Score =  223 bits (569), Expect = 9e-57,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 162


>gi|27375267|ref|NP_766796.1| transcriptional regulator [Bradyrhizobium japonicum USDA 110]
 gi|27348403|dbj|BAC45421.1| bll0156 [Bradyrhizobium japonicum USDA 110]
          Length = 328

 Score =  223 bits (569), Expect = 9e-57,   Method: Composition-based stats.
 Identities = 108/185 (58%), Positives = 140/185 (75%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           ++K    RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K
Sbjct: 125 EKKVVTQRQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAK 184

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
             ++GMRKLSE   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+
Sbjct: 185 VANVGMRKLSEPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLY 244

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           R++SQPE+SYSERQLYE+AL+R+ REIA V   +E EA+  IE  L+    +  K+ +  
Sbjct: 245 RSESQPEQSYSERQLYEAALDRLSREIAVVQHSTETEAVKEIEAQLAKSPRRNAKAEATE 304

Query: 184 QDKAA 188
            +  A
Sbjct: 305 GEADA 309


>gi|319404796|emb|CBI78397.1| transcriptional factor [Bartonella rochalimae ATCC BAA-1498]
          Length = 191

 Score =  223 bits (569), Expect = 9e-57,   Method: Composition-based stats.
 Identities = 111/187 (59%), Positives = 136/187 (72%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M   +      + F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MAPPRNTSFSAEDFSTSEYIVYPTHGVGQIMAIEEQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA+  GMRKLS    V RA K+++GKAR+KRTMWSRRAQEYD KINSG++I+IAEVVR
Sbjct: 61  VAKALSTGMRKLSTVDSVNRAFKILQGKARIKRTMWSRRAQEYDTKINSGNIISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R+  QPE+SYSERQLY  AL+RM REIA +N+++E EAINLIE +L  KS    K+ 
Sbjct: 121 DLFRSALQPEQSYSERQLYAIALDRMAREIAIINNLTETEAINLIEKHLDKKSKCDFKNE 180

Query: 181 SENQDKA 187
            +  + A
Sbjct: 181 IDEGNNA 187


>gi|332800107|ref|YP_004461606.1| CarD family transcriptional regulator [Tepidanaerobacter sp. Re1]
 gi|332697842|gb|AEE92299.1| transcriptional regulator, CarD family [Tepidanaerobacter sp. Re1]
          Length = 158

 Score =  223 bits (569), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 50/155 (32%), Positives = 86/155 (55%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+E+ G K +++++      M + +P+    DIG+R++
Sbjct: 1   MFNIGDKVVYPMHGAGVIEAIEEKEILGEKQKYYIMRMPIGDMKVMIPLNNIEDIGVRQV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                +     ++RG+     + W+RR +    KI SG++  +AEVVR+L   D +   S
Sbjct: 61  VGDEEISEVFNILRGEKSKMSSNWNRRYRANMDKIRSGNIFQVAEVVRNLSLRDKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             ER++ E+A + +V EI    +I E EA+ +IE 
Sbjct: 121 TGERKMLENAKHILVSEIVLSKNIQEDEALQMIEN 155


>gi|134097051|ref|YP_001102712.1| transcription regulator CarD [Saccharopolyspora erythraea NRRL
           2338]
 gi|291007008|ref|ZP_06564981.1| transcription regulator CarD [Saccharopolyspora erythraea NRRL
           2338]
 gi|133909674|emb|CAL99786.1| CarD family transcriptional regulator [Saccharopolyspora erythraea
           NRRL 2338]
          Length = 162

 Score =  223 bits (569), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 82/161 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEAIETRVIKGEEKQYLVLKVAQGDLTVRVPADNAEIVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDRVFDVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A      E +A  L++  L++ 
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTDEGKAETLLDEVLATA 161


>gi|188583533|ref|YP_001926978.1| CarD family transcriptional regulator [Methylobacterium populi
           BJ001]
 gi|179347031|gb|ACB82443.1| transcriptional regulator, CarD family [Methylobacterium populi
           BJ001]
          Length = 198

 Score =  223 bits (568), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 114/179 (63%), Positives = 149/179 (83%), Gaps = 2/179 (1%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT  +K  A  RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+V
Sbjct: 1   MTTAKKTTAAGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           P  KA  +GMRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI++ EVV
Sbjct: 61  PTAKANSVGMRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLISVTEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           RDL+R+++QPE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+ KS +  K
Sbjct: 121 RDLYRSEAQPEQSYSERQLYEAALDRVVREISSVNRITETEALKLIEQSLA-KSPRRAK 178


>gi|256374519|ref|YP_003098179.1| CarD family transcriptional regulator [Actinosynnema mirum DSM
           43827]
 gi|255918822|gb|ACU34333.1| transcriptional regulator, CarD family [Actinosynnema mirum DSM
           43827]
          Length = 162

 Score =  223 bits (568), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 46/162 (28%), Positives = 84/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEAIETRVIKGEEKKYLVLKVAQGDLTVRVPADNAEIVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDKVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A      E +A  L++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTDEDKAEVLLDEVLATAS 162


>gi|15827084|ref|NP_301347.1| transcription factor [Mycobacterium leprae TN]
 gi|221229562|ref|YP_002502978.1| putative transcription factor [Mycobacterium leprae Br4923]
 gi|13092632|emb|CAC29828.1| putative transcription factor [Mycobacterium leprae]
 gi|219932669|emb|CAR70413.1| putative transcription factor [Mycobacterium leprae Br4923]
          Length = 165

 Score =  223 bits (568), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 44/162 (27%), Positives = 85/162 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 4   MIFKVGDTVVYPHHGAALVEAIETRTINGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRD 63

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  ++EVVRDL R D     
Sbjct: 64  VVGQEGLDQVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVSEVVRDLWRRDQDRGL 123

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 124 SAGEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 165


>gi|312138097|ref|YP_004005433.1| card like transcriptional regulator [Rhodococcus equi 103S]
 gi|325674999|ref|ZP_08154686.1| CarD family transcriptional regulator [Rhodococcus equi ATCC 33707]
 gi|311887436|emb|CBH46748.1| CarD like transcriptional regulator [Rhodococcus equi 103S]
 gi|325554585|gb|EGD24260.1| CarD family transcriptional regulator [Rhodococcus equi ATCC 33707]
          Length = 162

 Score =  223 bits (568), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 44/162 (27%), Positives = 84/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A      + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAEGTDDAKAEIILDEVLAAAS 162


>gi|17986562|ref|NP_539196.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
 gi|17982170|gb|AAL51460.1| transcriptional regulator [Brucella melitensis bv. 1 str. 16M]
          Length = 207

 Score =  222 bits (567), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 131/188 (69%), Positives = 153/188 (81%), Gaps = 2/188 (1%)

Query: 1   MTFQQKRDA-MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+    R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 17  MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 76

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 77  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 136

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+ K  K  K+
Sbjct: 137 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNLA-KGPKRGKA 195

Query: 180 TSENQDKA 187
            +E  D  
Sbjct: 196 EAELDDDE 203


>gi|218532096|ref|YP_002422912.1| CarD family transcriptional regulator [Methylobacterium
           chloromethanicum CM4]
 gi|240140688|ref|YP_002965168.1| transcriptional regulator, CarD family [Methylobacterium extorquens
           AM1]
 gi|218524399|gb|ACK84984.1| transcriptional regulator, CarD family [Methylobacterium
           chloromethanicum CM4]
 gi|240010665|gb|ACS41891.1| transcriptional regulator, CarD family [Methylobacterium extorquens
           AM1]
          Length = 196

 Score =  222 bits (567), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 111/176 (63%), Positives = 145/176 (82%), Gaps = 1/176 (0%)

Query: 1   MTFQQKRD-AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT  +K   A RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+V
Sbjct: 1   MTTAKKTTVAGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           P  KA  +GMRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI++ EVV
Sbjct: 61  PTAKANSVGMRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLISVTEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           RDL R+++QPE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+    +
Sbjct: 121 RDLFRSEAQPEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSLAKSPRR 176


>gi|163853280|ref|YP_001641323.1| transcription factor CarD [Methylobacterium extorquens PA1]
 gi|163664885|gb|ABY32252.1| transcription factor CarD [Methylobacterium extorquens PA1]
          Length = 196

 Score =  222 bits (567), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 112/176 (63%), Positives = 145/176 (82%), Gaps = 1/176 (0%)

Query: 1   MTFQQKRD-AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           MT  +K   A RQGF+TGE +VYPAHGVG IT I+EQE+AG KLE FV++F+KDKM L+V
Sbjct: 1   MTTAKKTTVAGRQGFKTGEAVVYPAHGVGRITAIEEQEIAGYKLELFVVSFEKDKMVLRV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           P  KA  +GMRKL+E   V++AL ++ G+ARVKRTMWSRRAQEY+AKINSGDLI++ EVV
Sbjct: 61  PTAKANSVGMRKLAEPELVKKALDVLTGRARVKRTMWSRRAQEYEAKINSGDLISVTEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           RDL R+++QPE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+    +
Sbjct: 121 RDLFRSEAQPEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSLAKSPRR 176


>gi|296131792|ref|YP_003639039.1| transcriptional regulator, CarD family [Thermincola sp. JR]
 gi|296030370|gb|ADG81138.1| transcriptional regulator, CarD family [Thermincola potens JR]
          Length = 158

 Score =  222 bits (567), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 46/158 (29%), Positives = 84/158 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+EV G    ++V+      M + +P     D+G+R++
Sbjct: 1   MFNIGDKVVYPMHGAGIIEAIEEKEVLGEVRSYYVMRLPIGDMKVMIPTSNVKDLGLRQV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   V+R L ++  K  V    W++R +    KI SG++  +AEVVR+L R D +   S
Sbjct: 61  IDEEGVQRVLNILSEKDTVMSANWNKRYRTNMEKIKSGNIFEVAEVVRNLMRRDQEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++ E+A   ++ E+     + E +  ++++   +
Sbjct: 121 TGERKMLENARQILISELVLARGVKEEKVQSMLDEVFA 158


>gi|331699819|ref|YP_004336058.1| CarD family transcriptional regulator [Pseudonocardia dioxanivorans
           CB1190]
 gi|326954508|gb|AEA28205.1| transcriptional regulator, CarD family [Pseudonocardia
           dioxanivorans CB1190]
          Length = 164

 Score =  222 bits (566), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 46/162 (28%), Positives = 83/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEAIETRTIKGEERKYLVLKVAQGDLTVRVPAENAEVVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A      E  A  L++  L++ +
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTDEERAEVLLDEVLATAA 162


>gi|319406281|emb|CBI79918.1| transcriptional factor [Bartonella sp. AR 15-3]
          Length = 191

 Score =  222 bits (566), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 111/187 (59%), Positives = 137/187 (73%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M   +   +  + F T E+IVYP HGVG I  I+EQEVAG KL+ FVI F KDKM +KVP
Sbjct: 1   MAPPRNTSSSAKDFSTSEYIVYPTHGVGQIIAIEEQEVAGHKLKLFVIHFAKDKMDVKVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+  GMRKLS    + RA K+++G+AR+KRTMWSRRAQEYD KINSGD+I+IAEVVR
Sbjct: 61  IAKALSTGMRKLSTVDSMNRAFKILQGRARIKRTMWSRRAQEYDTKINSGDIISIAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL R+D QPE+SYSERQLY  AL+RM REIA +NS++E EAINLIE  L+ KS    K+ 
Sbjct: 121 DLFRSDLQPEQSYSERQLYTIALDRMAREIAVINSLTEMEAINLIEKYLTKKSKCEFKNE 180

Query: 181 SENQDKA 187
            +    A
Sbjct: 181 IDEGSNA 187


>gi|23502623|ref|NP_698750.1| transcriptional regulator [Brucella suis 1330]
 gi|82700550|ref|YP_415124.1| transcription factor CarD [Brucella melitensis biovar Abortus 2308]
 gi|148558867|ref|YP_001259610.1| putative transcriptional regulator [Brucella ovis ATCC 25840]
 gi|161619691|ref|YP_001593578.1| hypothetical protein BCAN_A1804 [Brucella canis ATCC 23365]
 gi|163845343|ref|YP_001622998.1| hypothetical protein BSUIS_B1242 [Brucella suis ATCC 23445]
 gi|189024848|ref|YP_001935616.1| CarD family transcriptional regulator [Brucella abortus S19]
 gi|225853216|ref|YP_002733449.1| hypothetical protein BMEA_A1818 [Brucella melitensis ATCC 23457]
 gi|254694417|ref|ZP_05156245.1| hypothetical protein Babob3T_07112 [Brucella abortus bv. 3 str.
           Tulya]
 gi|254698076|ref|ZP_05159904.1| hypothetical protein Babob28_10303 [Brucella abortus bv. 2 str.
           86/8/59]
 gi|254700418|ref|ZP_05162246.1| hypothetical protein Bsuib55_06119 [Brucella suis bv. 5 str. 513]
 gi|254703537|ref|ZP_05165365.1| hypothetical protein Bsuib36_06359 [Brucella suis bv. 3 str. 686]
 gi|254708586|ref|ZP_05170414.1| hypothetical protein BpinM_16983 [Brucella pinnipedialis
           M163/99/10]
 gi|254708772|ref|ZP_05170583.1| hypothetical protein BpinB_00646 [Brucella pinnipedialis B2/94]
 gi|254714615|ref|ZP_05176426.1| hypothetical protein BcetM6_15022 [Brucella ceti M644/93/1]
 gi|254717513|ref|ZP_05179324.1| hypothetical protein BcetM_14151 [Brucella ceti M13/05/1]
 gi|254719759|ref|ZP_05181570.1| hypothetical protein Bru83_09478 [Brucella sp. 83/13]
 gi|256030298|ref|ZP_05443912.1| hypothetical protein BpinM2_06566 [Brucella pinnipedialis
           M292/94/1]
 gi|256045367|ref|ZP_05448261.1| hypothetical protein Bmelb1R_12807 [Brucella melitensis bv. 1 str.
           Rev.1]
 gi|256061797|ref|ZP_05451932.1| hypothetical protein Bneo5_15748 [Brucella neotomae 5K33]
 gi|256255678|ref|ZP_05461214.1| hypothetical protein BcetB_15638 [Brucella ceti B1/94]
 gi|256258180|ref|ZP_05463716.1| hypothetical protein Babob9C_12716 [Brucella abortus bv. 9 str.
           C68]
 gi|256263295|ref|ZP_05465827.1| transcription factor CarD [Brucella melitensis bv. 2 str. 63/9]
 gi|256370172|ref|YP_003107683.1| transcriptional regulator, CarD family [Brucella microti CCM 4915]
 gi|260167972|ref|ZP_05754783.1| transcriptional regulator, CarD family protein [Brucella sp. F5/99]
 gi|260547126|ref|ZP_05822864.1| transcription factor CarD [Brucella abortus NCTC 8038]
 gi|260565739|ref|ZP_05836222.1| transcription factor CarD [Brucella melitensis bv. 1 str. 16M]
 gi|260568843|ref|ZP_05839311.1| transcription factor CarD [Brucella suis bv. 4 str. 40]
 gi|260755460|ref|ZP_05867808.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260758682|ref|ZP_05871030.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260762517|ref|ZP_05874854.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260884478|ref|ZP_05896092.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|261214731|ref|ZP_05929012.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|261219348|ref|ZP_05933629.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261222884|ref|ZP_05937165.1| transcriptional regulator [Brucella ceti B1/94]
 gi|261316093|ref|ZP_05955290.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261316265|ref|ZP_05955462.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261322409|ref|ZP_05961606.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261325799|ref|ZP_05964996.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261750916|ref|ZP_05994625.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261754170|ref|ZP_05997879.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|261757414|ref|ZP_06001123.1| transcription factor CarD [Brucella sp. F5/99]
 gi|265984778|ref|ZP_06097513.1| transcriptional regulator [Brucella sp. 83/13]
 gi|265987329|ref|ZP_06099886.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|265991795|ref|ZP_06104352.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|265995635|ref|ZP_06108192.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|265998843|ref|ZP_06111400.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|306839455|ref|ZP_07472263.1| transcriptional regulator [Brucella sp. NF 2653]
 gi|306844751|ref|ZP_07477336.1| transcriptional regulator [Brucella sp. BO1]
 gi|23348628|gb|AAN30665.1| transcriptional regulator, putative [Brucella suis 1330]
 gi|82616651|emb|CAJ11733.1| Transcription factor CarD [Brucella melitensis biovar Abortus 2308]
 gi|148370124|gb|ABQ60103.1| putative transcriptional regulator [Brucella ovis ATCC 25840]
 gi|161336502|gb|ABX62807.1| Hypothetical protein BCAN_A1804 [Brucella canis ATCC 23365]
 gi|163676066|gb|ABY40176.1| Hypothetical protein, conserved [Brucella suis ATCC 23445]
 gi|189020420|gb|ACD73142.1| Transcription factor CarD [Brucella abortus S19]
 gi|225641581|gb|ACO01495.1| Hypothetical protein, conserved [Brucella melitensis ATCC 23457]
 gi|256000335|gb|ACU48734.1| transcriptional regulator, CarD family [Brucella microti CCM 4915]
 gi|260095491|gb|EEW79369.1| transcription factor CarD [Brucella abortus NCTC 8038]
 gi|260151112|gb|EEW86207.1| transcription factor CarD [Brucella melitensis bv. 1 str. 16M]
 gi|260154227|gb|EEW89309.1| transcription factor CarD [Brucella suis bv. 4 str. 40]
 gi|260669000|gb|EEX55940.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|260672943|gb|EEX59764.1| transcriptional regulator [Brucella abortus bv. 2 str. 86/8/59]
 gi|260675568|gb|EEX62389.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|260874006|gb|EEX81075.1| transcriptional regulator [Brucella abortus bv. 9 str. C68]
 gi|260916338|gb|EEX83199.1| transcriptional regulator [Brucella abortus bv. 3 str. Tulya]
 gi|260921468|gb|EEX88121.1| transcriptional regulator [Brucella ceti B1/94]
 gi|260924437|gb|EEX91005.1| transcriptional regulator [Brucella ceti M13/05/1]
 gi|261295099|gb|EEX98595.1| transcriptional regulator [Brucella ceti M644/93/1]
 gi|261295488|gb|EEX98984.1| transcriptional regulator [Brucella pinnipedialis B2/94]
 gi|261301779|gb|EEY05276.1| transcriptional regulator [Brucella neotomae 5K33]
 gi|261305119|gb|EEY08616.1| transcriptional regulator [Brucella pinnipedialis M163/99/10]
 gi|261737398|gb|EEY25394.1| transcription factor CarD [Brucella sp. F5/99]
 gi|261740669|gb|EEY28595.1| transcriptional regulator [Brucella suis bv. 5 str. 513]
 gi|261743923|gb|EEY31849.1| transcriptional regulator [Brucella suis bv. 3 str. 686]
 gi|262553532|gb|EEZ09301.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|262766919|gb|EEZ12537.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|263002751|gb|EEZ15154.1| transcriptional regulator [Brucella melitensis bv. 1 str. Rev.1]
 gi|263093262|gb|EEZ17359.1| transcription factor CarD [Brucella melitensis bv. 2 str. 63/9]
 gi|264659526|gb|EEZ29787.1| transcriptional regulator [Brucella pinnipedialis M292/94/1]
 gi|264663370|gb|EEZ33631.1| transcriptional regulator [Brucella sp. 83/13]
 gi|306274923|gb|EFM56693.1| transcriptional regulator [Brucella sp. BO1]
 gi|306405400|gb|EFM61671.1| transcriptional regulator [Brucella sp. NF 2653]
 gi|326409773|gb|ADZ66838.1| Transcription factor CarD [Brucella melitensis M28]
 gi|326539490|gb|ADZ87705.1| conserved hypothetical protein [Brucella melitensis M5-90]
          Length = 191

 Score =  222 bits (566), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 131/188 (69%), Positives = 153/188 (81%), Gaps = 2/188 (1%)

Query: 1   MTFQQKRDA-MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+    R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 1   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 61  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+ K  K  K+
Sbjct: 121 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNLA-KGPKRGKA 179

Query: 180 TSENQDKA 187
            +E  D  
Sbjct: 180 EAELDDDE 187


>gi|312194274|ref|YP_004014335.1| CarD family transcriptional regulator [Frankia sp. EuI1c]
 gi|311225610|gb|ADP78465.1| transcriptional regulator, CarD family [Frankia sp. EuI1c]
          Length = 160

 Score =  222 bits (566), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 46/159 (28%), Positives = 82/159 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP      +G+R 
Sbjct: 1   MAFQVGETVVYPHHGAALIDAIETRVIKGEEKLYLVLKVAQGDLTVRVPADNIGMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +ER  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQDGLERVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +V E+A     +E +A  +++  L+
Sbjct: 121 SAGEKRMLSKARQILVSELALAEGTNEDKAEAMLDEVLA 159


>gi|86742930|ref|YP_483330.1| CarD family transcriptional regulator [Frankia sp. CcI3]
 gi|158312226|ref|YP_001504734.1| CarD family transcriptional regulator [Frankia sp. EAN1pec]
 gi|288923580|ref|ZP_06417692.1| transcriptional regulator, CarD family [Frankia sp. EUN1f]
 gi|289642338|ref|ZP_06474486.1| transcriptional regulator, CarD family [Frankia symbiont of Datisca
           glomerata]
 gi|86569792|gb|ABD13601.1| transcriptional regulator, CarD family [Frankia sp. CcI3]
 gi|158107631|gb|ABW09828.1| transcriptional regulator, CarD family [Frankia sp. EAN1pec]
 gi|288345079|gb|EFC79496.1| transcriptional regulator, CarD family [Frankia sp. EUN1f]
 gi|289507870|gb|EFD28821.1| transcriptional regulator, CarD family [Frankia symbiont of Datisca
           glomerata]
          Length = 160

 Score =  222 bits (566), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 46/159 (28%), Positives = 82/159 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP      +G+R 
Sbjct: 1   MAFQVGETVVYPHHGAALIDAIETRVIKGEEKLYLVLKVAQGDLTVRVPADNVGMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +ER  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQDGLERVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +V E+A     +E +A  +++  L+
Sbjct: 121 SAGEKRMLSKARQILVSELALAEGTNEDKAEAMLDEVLA 159


>gi|111225860|ref|YP_716654.1| putative CarD-like transcriptional regulator [Frankia alni ACN14a]
 gi|111153392|emb|CAJ65148.1| putative CarD-like transcriptional regulator [Frankia alni ACN14a]
          Length = 160

 Score =  222 bits (566), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 46/159 (28%), Positives = 82/159 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP      +G+R 
Sbjct: 1   MAFQVGETVVYPHHGAALIDAIETRVIKGEERLYLVLKVAQGDLTVRVPADNVGMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +ER  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQDGLERVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +V E+A     +E +A  +++  L+
Sbjct: 121 SAGEKRMLSKARQILVSELALAEGTNEDKAEAMLDEVLA 159


>gi|302530715|ref|ZP_07283057.1| transcription regulator CarD [Streptomyces sp. AA4]
 gi|302439610|gb|EFL11426.1| transcription regulator CarD [Streptomyces sp. AA4]
          Length = 163

 Score =  222 bits (566), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 45/161 (27%), Positives = 81/161 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEAIETRVIKGEEKKYLVLKVAQGDLTVRVPADNAEIVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDKVFDVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A      E +A  L++  L + 
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTDEGKAETLLDEVLETA 161


>gi|300790484|ref|YP_003770775.1| CarD family transcriptional regulator [Amycolatopsis mediterranei
           U32]
 gi|299799998|gb|ADJ50373.1| CarD family transcriptional regulator [Amycolatopsis mediterranei
           U32]
          Length = 163

 Score =  221 bits (564), Expect = 3e-56,   Method: Composition-based stats.
 Identities = 45/161 (27%), Positives = 81/161 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEAIETRVIKGEEKKYLVLKVAQGDLTVRVPADNAEIVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDKVFDVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A      E +A  L++  L + 
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTDEDKAEVLLDEVLETA 161


>gi|225181295|ref|ZP_03734740.1| transcriptional regulator, CarD family [Dethiobacter alkaliphilus
           AHT 1]
 gi|225168075|gb|EEG76881.1| transcriptional regulator, CarD family [Dethiobacter alkaliphilus
           AHT 1]
          Length = 164

 Score =  221 bits (564), Expect = 3e-56,   Method: Composition-based stats.
 Identities = 46/155 (29%), Positives = 82/155 (52%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+E+ G +  ++++      M + +P+     IG+R++
Sbjct: 1   MFNIGDKVVYPMHGAGVIEAIEEKEILGARKRYYIMNIPIGDMKVMIPMDNVDQIGLREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            + H VE+ L ++R       T W+RR +    KI SGD+  +AEVVR+L   + +   S
Sbjct: 61  IDTHGVEQVLTILRDNHSKMSTNWNRRYRANMEKIKSGDIFQVAEVVRNLMLREREKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             ER++ +SA   +V E+    + S  +   ++  
Sbjct: 121 TGERKMLDSAKQILVSELVLAQNTSAQDVDEILNQ 155


>gi|152964866|ref|YP_001360650.1| CarD family transcriptional regulator [Kineococcus radiotolerans
           SRS30216]
 gi|151359383|gb|ABS02386.1| transcriptional regulator, CarD family [Kineococcus radiotolerans
           SRS30216]
          Length = 160

 Score =  221 bits (564), Expect = 4e-56,   Method: Composition-based stats.
 Identities = 49/160 (30%), Positives = 83/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G    + V+   +  + ++VP      +G+R 
Sbjct: 1   MAFTVGETVVYPHHGAALIEEIKTRTIKGEDKLYLVLKVAQGDLTIEVPADNVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R   ++R     + T WSRR +    K+ SGD++ +AEVVRDL R D     
Sbjct: 61  VVGREGLDRVFSVLRTPYAEEPTNWSRRYKANLEKLASGDVVKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   + +E +A +L++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAENTNEDKAESLLDEVLAS 160


>gi|254473139|ref|ZP_05086537.1| transcription factor CarD [Pseudovibrio sp. JE062]
 gi|211957860|gb|EEA93062.1| transcription factor CarD [Pseudovibrio sp. JE062]
          Length = 193

 Score =  221 bits (564), Expect = 4e-56,   Method: Composition-based stats.
 Identities = 114/193 (59%), Positives = 145/193 (75%), Gaps = 5/193 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M    K+ A RQGF+TGEHI+YP+HGVG IT I+EQ VAG  LE  VI F++DKM L+VP
Sbjct: 1   MATPAKKTAQRQGFKTGEHIIYPSHGVGLITAIEEQTVAGYSLELLVIEFEQDKMTLRVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V K   +GMRKLS+A  V+++L+ + GK RVKRTMWSRRAQEY+AKINSGDL++ AEVVR
Sbjct: 61  VAKIASVGMRKLSDASTVKKSLETIAGKPRVKRTMWSRRAQEYEAKINSGDLVSTAEVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           DL+R+D+QPE+SYSERQLYE+AL+RM REIAAV   ++ EAI  IE  LS+   +  K+ 
Sbjct: 121 DLYRSDAQPEQSYSERQLYEAALDRMAREIAAVQKQTDTEAIRQIEGVLSTAPGRAAKAA 180

Query: 181 SE-----NQDKAA 188
                   Q++AA
Sbjct: 181 PAAGEDGGQEEAA 193


>gi|62290636|ref|YP_222429.1| transcriptional regulator [Brucella abortus bv. 1 str. 9-941]
 gi|254689925|ref|ZP_05153179.1| transcriptional regulator [Brucella abortus bv. 6 str. 870]
 gi|254730960|ref|ZP_05189538.1| transcriptional regulator [Brucella abortus bv. 4 str. 292]
 gi|256114331|ref|ZP_05455069.1| transcriptional regulator [Brucella melitensis bv. 3 str. Ether]
 gi|256160471|ref|ZP_05458160.1| transcriptional regulator [Brucella ceti M490/95/1]
 gi|297249030|ref|ZP_06932738.1| CarD family transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
 gi|62196768|gb|AAX75068.1| hypothetical transcriptional regulator [Brucella abortus bv. 1 str.
           9-941]
 gi|297174163|gb|EFH33520.1| CarD family transcriptional regulator [Brucella abortus bv. 5 str.
           B3196]
          Length = 194

 Score =  221 bits (563), Expect = 4e-56,   Method: Composition-based stats.
 Identities = 131/188 (69%), Positives = 153/188 (81%), Gaps = 2/188 (1%)

Query: 1   MTFQQKRDA-MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+    R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 4   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 63

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 64  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 123

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+ K  K  K+
Sbjct: 124 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNLA-KGPKRGKA 182

Query: 180 TSENQDKA 187
            +E  D  
Sbjct: 183 EAELDDDE 190


>gi|257057465|ref|YP_003135297.1| transcriptional regulator, CarD family [Saccharomonospora viridis
           DSM 43017]
 gi|256587337|gb|ACU98470.1| transcriptional regulator, CarD family [Saccharomonospora viridis
           DSM 43017]
          Length = 163

 Score =  220 bits (562), Expect = 5e-56,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 80/161 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEAIETRVIKGEEKQYLVLKVAQGDLTVRVPADNAEIVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + R   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLNRVFDVLRAPHTDEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A      E +A  L++  L + 
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTDESKAEVLLDEVLETA 161


>gi|296447999|ref|ZP_06889905.1| transcriptional regulator, CarD family [Methylosinus trichosporium
           OB3b]
 gi|296254509|gb|EFH01630.1| transcriptional regulator, CarD family [Methylosinus trichosporium
           OB3b]
          Length = 546

 Score =  220 bits (562), Expect = 6e-56,   Method: Composition-based stats.
 Identities = 107/174 (61%), Positives = 133/174 (76%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           GF+T E IVYPAHGVG I  I+ QEVAG  LE FV+ F KDKM LKVPV K   +GMRKL
Sbjct: 359 GFKTNEFIVYPAHGVGQIMAIETQEVAGFSLELFVVHFVKDKMTLKVPVSKVAAVGMRKL 418

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +E   VE+AL  + G+ARVKRTMWSRRAQEY+AKINSGDL+ IAEVVRDL+R+D+QPE+S
Sbjct: 419 AEPDVVEKALGTLTGRARVKRTMWSRRAQEYEAKINSGDLVTIAEVVRDLYRSDTQPEQS 478

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDK 186
           YSERQLYE+AL+RM RE+AAV  + + E++ LIE  L+    + +KS   + + 
Sbjct: 479 YSERQLYEAALDRMAREVAAVRKLIDSESLKLIESFLAKSPRRGQKSEDASDEA 532


>gi|258513613|ref|YP_003189835.1| transcriptional regulator, CarD family [Desulfotomaculum
           acetoxidans DSM 771]
 gi|257777318|gb|ACV61212.1| transcriptional regulator, CarD family [Desulfotomaculum
           acetoxidans DSM 771]
          Length = 158

 Score =  220 bits (561), Expect = 8e-56,   Method: Composition-based stats.
 Identities = 45/158 (28%), Positives = 86/158 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+E+EV G    ++++      M + +P+    D+G+R++
Sbjct: 1   MFKIGDKVVYPMHGAGVIEAIEEKEVLGEIKHYYILRLPIGNMKVMIPIDHGRDVGLRQV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                V+  L+++  K+      W+RR +    KI SG++  +AEVVR+L + D +   S
Sbjct: 61  ITRDDVQMVLRILSDKSTSMPPNWNRRYRANLEKIKSGNIYEVAEVVRNLIKRDKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++ E+A   ++ E+     + E +A +L++   +
Sbjct: 121 SGERKMLENARQILISELVLATELEEDKAQSLVDGVFA 158


>gi|224992000|ref|YP_002646689.1| putative transcription factor [Mycobacterium bovis BCG str. Tokyo
           172]
 gi|224775115|dbj|BAH27921.1| putative transcription factor [Mycobacterium bovis BCG str. Tokyo
           172]
          Length = 162

 Score =  220 bits (561), Expect = 8e-56,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPRHGAALVEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   S  + +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAESTDDAKAETILDEVLAAAS 162


>gi|316931531|ref|YP_004106513.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           DX-1]
 gi|315599245|gb|ADU41780.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           DX-1]
          Length = 264

 Score =  220 bits (561), Expect = 8e-56,   Method: Composition-based stats.
 Identities = 105/172 (61%), Positives = 135/172 (78%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K 
Sbjct: 64  KKAVTQRQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKV 123

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 124 GNVGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 183

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           ++SQPE+SYSERQLYE+AL+R+ REIA V  I+E EA+  +E  L+    + 
Sbjct: 184 SESQPEQSYSERQLYEAALDRLSREIAVVQHITETEAVKEVESQLAKSPRRG 235


>gi|169830398|ref|YP_001716380.1| CarD family transcriptional regulator [Candidatus Desulforudis
           audaxviator MP104C]
 gi|169637242|gb|ACA58748.1| transcriptional regulator, CarD family [Candidatus Desulforudis
           audaxviator MP104C]
          Length = 158

 Score =  220 bits (560), Expect = 9e-56,   Method: Composition-based stats.
 Identities = 44/158 (27%), Positives = 86/158 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+E+E+ G + +++V+      M + VP     +IG+R++
Sbjct: 1   MFKIGDKVVYPMHGAGVIEAIEEKEILGERQQYYVLRLPVGNMKVMVPTANGPNIGLRQV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                V++   +++  +      W+RR +    KI SG++  +AEVVR+L R + +   S
Sbjct: 61  IGQEEVQKVFGILKDVSTQMPGNWNRRYRANLEKIKSGNIYEVAEVVRNLARREREKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             E+++ ESA   ++ E+     + E +A +++E   +
Sbjct: 121 SGEKRMLESARQILISELVLATEVEEDKARSMLEEMFA 158


>gi|121602125|ref|YP_988461.1| CarD family transcriptional regulator [Bartonella bacilliformis
           KC583]
 gi|120614302|gb|ABM44903.1| transcriptional regulator, CarD family [Bartonella bacilliformis
           KC583]
          Length = 192

 Score =  220 bits (560), Expect = 9e-56,   Method: Composition-based stats.
 Identities = 117/190 (61%), Positives = 144/190 (75%), Gaps = 4/190 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  QQK+ +   GF T E+IVYP HGVG I  I+EQEVAG KLE FVI F KDKM +KVP
Sbjct: 1   MASQQKKTS--HGFSTSEYIVYPTHGVGQIMVIEEQEVAGHKLELFVIHFAKDKMDVKVP 58

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           + KA+  GMRKLSE   VE+ALK+++GKAR+KR MWSRRAQEYD KINSG+ + IAEVVR
Sbjct: 59  IAKALSTGMRKLSEPASVEKALKILQGKARIKRIMWSRRAQEYDTKINSGNFMFIAEVVR 118

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS--SKSSKTEK 178
           DL R+D QPE+SYSERQLY +AL+RM REI+ +N++SE EA+NLIE +L+   KSS   K
Sbjct: 119 DLFRSDLQPEQSYSERQLYAAALDRMSREISVINNLSETEAVNLIEKHLNEGQKSSFEAK 178

Query: 179 STSENQDKAA 188
               ++D  A
Sbjct: 179 IDEADEDSKA 188


>gi|259417460|ref|ZP_05741379.1| transcriptional regulator, CarD family [Silicibacter sp. TrichCH4B]
 gi|259346366|gb|EEW58180.1| transcriptional regulator, CarD family [Silicibacter sp. TrichCH4B]
          Length = 193

 Score =  220 bits (560), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 102/166 (61%), Positives = 128/166 (77%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  + IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM L+VP  KA+DIG
Sbjct: 28  SKKLEFRPNDFIVYPAHGVGQIISIEEQEVAGYKLELFVITFEKDKMTLRVPTHKAVDIG 87

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 88  MRSLSSPDVINQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 147

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 148 REQSYSERQLYEAALERLTREVAAVSGGDEIAAAKQVDEVLTSRAA 193


>gi|84515406|ref|ZP_01002768.1| putative CarD-like transcriptional regulator [Loktanella
           vestfoldensis SKA53]
 gi|84510689|gb|EAQ07144.1| putative CarD-like transcriptional regulator [Loktanella
           vestfoldensis SKA53]
          Length = 225

 Score =  219 bits (559), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 98/168 (58%), Positives = 118/168 (70%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
               +  F   + +VYPAHGVG I  ++ QEVAG +LE FVIAF+KDKM L+VP  KA D
Sbjct: 58  MTKKKSEFSPDQFVVYPAHGVGKIVSVETQEVAGFELEMFVIAFEKDKMTLRVPTHKATD 117

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMR L+    V  ALK +RGKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D
Sbjct: 118 VGMRALATPDVVNHALKTLRGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRQD 177

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            Q E+SYSERQLYE+AL R+ RE AAV    E  A   I   L  +++
Sbjct: 178 DQREQSYSERQLYEAALERLTREFAAVAGDDENAAAAQIGSVLVGRAA 225


>gi|147676622|ref|YP_001210837.1| transcriptional regulator [Pelotomaculum thermopropionicum SI]
 gi|146272719|dbj|BAF58468.1| transcriptional regulator [Pelotomaculum thermopropionicum SI]
          Length = 158

 Score =  219 bits (559), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 46/154 (29%), Positives = 87/154 (56%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+    ++G+R +
Sbjct: 1   MFKIGDKVVYPMHGAGVIEAIEEKEVLGEKRQYYILRLPVGDMKVMIPITSGEEVGLRGV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   V+R   ++R ++      W+RR +    KI SG++  +AEVVR+L + D +   S
Sbjct: 61  IDREGVQRVFHILRQQSSAMSPNWNRRYRANLEKIKSGNIYEVAEVVRNLVKRDREKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             ER++ ESA   ++ E+     + E +A +L++
Sbjct: 121 SGERKMLESARQILLSELVLATELEEEKAQSLLD 154


>gi|192288919|ref|YP_001989524.1| CarD family transcriptional regulator [Rhodopseudomonas palustris
           TIE-1]
 gi|192282668|gb|ACE99048.1| transcriptional regulator, CarD family [Rhodopseudomonas palustris
           TIE-1]
          Length = 278

 Score =  219 bits (559), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 105/172 (61%), Positives = 135/172 (78%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K 
Sbjct: 80  KKAVTQRQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKV 139

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 140 GNVGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 199

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           ++SQPE+SYSERQLYE+AL+R+ REIA V  I+E EA+  +E  L+    + 
Sbjct: 200 SESQPEQSYSERQLYEAALDRLSREIAVVQHITETEAVKEVESQLAKSPRRG 251


>gi|39933565|ref|NP_945841.1| CarD-like transcriptional regulator [Rhodopseudomonas palustris
           CGA009]
 gi|39647411|emb|CAE25932.1| possible CarD-like transcriptional regulator [Rhodopseudomonas
           palustris CGA009]
          Length = 220

 Score =  219 bits (559), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 105/172 (61%), Positives = 135/172 (78%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K    RQGF+  E +VYPAHGVG I  I+EQE+AG KLE FVI F KDKM L+VP  K 
Sbjct: 22  KKAVTQRQGFKANEFVVYPAHGVGQILAIEEQEIAGAKLELFVINFIKDKMTLRVPTAKV 81

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMRKLS+   V++AL+ ++G+ARVKRTMWSRRAQEY+AKINSGD++AIAEVVRDL+R
Sbjct: 82  GNVGMRKLSDPALVKKALETLKGRARVKRTMWSRRAQEYEAKINSGDIVAIAEVVRDLYR 141

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
           ++SQPE+SYSERQLYE+AL+R+ REIA V  I+E EA+  +E  L+    + 
Sbjct: 142 SESQPEQSYSERQLYEAALDRLSREIAVVQHITETEAVKEVESQLAKSPRRG 193


>gi|319948870|ref|ZP_08022983.1| CarD family transcriptional regulator [Dietzia cinnamea P4]
 gi|319437472|gb|EFV92479.1| CarD family transcriptional regulator [Dietzia cinnamea P4]
          Length = 164

 Score =  219 bits (558), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 50/163 (30%), Positives = 85/163 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG  TI  I+ + V G + E+ V+   +  + +KVP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAATIQAIEMRTVRGTEKEYLVLKVSQGDLTVKVPAENAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +++  +++R +   + T WSRR +    K+ SGD+  +AEVVRDL R D     
Sbjct: 61  VVDQAGLDKVFEVLRTEHAEEPTNWSRRYKANGEKLASGDVNKVAEVVRDLWRRDLDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           S  E+++   A   +V E+A      E  A  L++  L S + 
Sbjct: 121 SAGEKRMLAKARQVLVGELALAERSDEERADALLDEVLGSAAP 163


>gi|296138335|ref|YP_003645578.1| transcriptional regulator, CarD family [Tsukamurella paurometabola
           DSM 20162]
 gi|296026469|gb|ADG77239.1| transcriptional regulator, CarD family [Tsukamurella paurometabola
           DSM 20162]
          Length = 162

 Score =  219 bits (558), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 46/162 (28%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + +KVP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIEIKTIGGREREYLVLKVAQGDLTVKVPAENAEVVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDKVFQVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   +  + +A +L++  L++ S
Sbjct: 121 SAGEKRMLTKARQILVGELALAEATDDGKAESLLDEALAAAS 162


>gi|239832849|ref|ZP_04681178.1| transcriptional regulator [Ochrobactrum intermedium LMG 3301]
 gi|239825116|gb|EEQ96684.1| transcriptional regulator [Ochrobactrum intermedium LMG 3301]
          Length = 209

 Score =  219 bits (558), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 125/178 (70%), Positives = 146/178 (82%), Gaps = 1/178 (0%)

Query: 1   MTFQQKRDA-MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+    R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 17  MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 76

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 77  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 136

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
           RDL R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIE NL+    + +
Sbjct: 137 RDLFRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEANLAKGPKRGK 194


>gi|317123120|ref|YP_004103123.1| CarD family transcriptional regulator [Thermaerobacter marianensis
           DSM 12885]
 gi|315593100|gb|ADU52396.1| transcriptional regulator, CarD family [Thermaerobacter marianensis
           DSM 12885]
          Length = 190

 Score =  219 bits (558), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 45/175 (25%), Positives = 80/175 (45%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+EV G +  ++V+      M + +P   A   G+R +
Sbjct: 1   MFEVGDRVVYPMHGAGVIEAIEEREVLGKRHRYYVLRLPVGDMRVMIPTTTASRCGLRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             A  V   L  +   A      W+ R +E+  K+ +GD++ +A VVR+L     +   S
Sbjct: 61  IPAEQVPAVLDALGDPAPPMDPNWNHRYREHADKLRTGDVLEVAAVVRNLSARQRERGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
             ER+L + A   +V E+   + + +     L++  L   +        E  + +
Sbjct: 121 GGERRLLDQARQILVSELTLASGLDQAAVDALVDRCLEGGAGDGPGPFPERGEAS 175


>gi|153008468|ref|YP_001369683.1| CarD family transcriptional regulator [Ochrobactrum anthropi ATCC
           49188]
 gi|151560356|gb|ABS13854.1| transcriptional regulator, CarD family [Ochrobactrum anthropi ATCC
           49188]
          Length = 193

 Score =  218 bits (557), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 125/178 (70%), Positives = 146/178 (82%), Gaps = 1/178 (0%)

Query: 1   MTFQQKRDA-MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+    R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 1   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+I+EVV
Sbjct: 61  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLISISEVV 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
           RDL R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIE NL+    + +
Sbjct: 121 RDLFRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEANLAKGPKRGK 178


>gi|317126037|ref|YP_004100149.1| CarD family transcriptional regulator [Intrasporangium calvum DSM
           43043]
 gi|315590125|gb|ADU49422.1| transcriptional regulator, CarD family [Intrasporangium calvum DSM
           43043]
          Length = 160

 Score =  218 bits (556), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 81/160 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I EI  + + G    +  +   +  + ++VP      +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEEINTRTIKGEDKLYLKLKVAQGDLTIEVPAENCDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D     
Sbjct: 61  VVGQEGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E +A ++++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTDEDKAESILDEVLAS 160


>gi|84687443|ref|ZP_01015321.1| transcriptional regulator, CarD family protein [Maritimibacter
           alkaliphilus HTCC2654]
 gi|84664601|gb|EAQ11087.1| transcriptional regulator, CarD family protein [Rhodobacterales
           bacterium HTCC2654]
          Length = 169

 Score =  218 bits (556), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 100/166 (60%), Positives = 127/166 (76%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A +  FR  E++VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP  KA ++G
Sbjct: 4   AKKLDFRPNEYVVYPAHGVGQIVSIEEQEVAGLTLELFVISFEKDKMTLRVPTNKATEVG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    V +A+  ++GKARVKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHR D Q
Sbjct: 64  MRSLSSPDVVSKAMDTLKGKARVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRNDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGGDEAAAQEKVDGVLTSRAA 169


>gi|89055799|ref|YP_511250.1| CarD family transcriptional regulator [Jannaschia sp. CCS1]
 gi|88865348|gb|ABD56225.1| transcriptional regulator, CarD family [Jannaschia sp. CCS1]
          Length = 172

 Score =  218 bits (556), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 98/168 (58%), Positives = 121/168 (72%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
             +      F   +++VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP  KA
Sbjct: 1   MTKARKTLDFSPNDYVVYPAHGVGQIITIEEQEVAGLNLELFVISFEKDKMTLRVPTAKA 60

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMR LS+   V +AL  ++GKARVKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHR
Sbjct: 61  TEVGMRPLSDPTVVSKALDTLKGKARVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHR 120

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            D Q E+SYSERQLYE+AL R+ RE+A V  I E  A   +   LS +
Sbjct: 121 ADDQREQSYSERQLYEAALERLTRELAVVKGIDEAGAGAQLVDVLSKR 168


>gi|260434064|ref|ZP_05788035.1| transcriptional regulator, CarD family [Silicibacter
           lacuscaerulensis ITI-1157]
 gi|260417892|gb|EEX11151.1| transcriptional regulator, CarD family [Silicibacter
           lacuscaerulensis ITI-1157]
          Length = 169

 Score =  218 bits (556), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 99/166 (59%), Positives = 129/166 (77%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  + +VYPAHGVG I  I+EQEVAG KLE FVI+F+KDKM L+VP  KA + G
Sbjct: 4   SKKLEFRPNDFVVYPAHGVGKIISIEEQEVAGFKLELFVISFEKDKMTLRVPTNKATESG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R LS    +++A+K +RGKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 64  LRSLSTPDVIDQAMKTLRGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL+R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALDRLTREVAAVSGADEIAAAKQVDEVLTSRAA 169


>gi|313902845|ref|ZP_07836242.1| transcriptional regulator, CarD family [Thermaerobacter
           subterraneus DSM 13965]
 gi|313466965|gb|EFR62482.1| transcriptional regulator, CarD family [Thermaerobacter
           subterraneus DSM 13965]
          Length = 166

 Score =  218 bits (556), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 48/162 (29%), Positives = 80/162 (49%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+E+EV G +  ++++      M L +P   A   G+R +
Sbjct: 1   MFQVGDRVVYPMHGAGVIEAIEEREVLGERHRYYILRLPVGDMRLMIPTASAPQSGLRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             A  V   L+ +        + W+ R +E+  K+ SGD++ +A VVR+L         S
Sbjct: 61  IPADQVPAVLEALCEPVPPLDSNWNHRYREHADKLRSGDILEVAVVVRNLSARQKARGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
             ER+L + A   +V E+A    +   EA  L+E +L +   
Sbjct: 121 GGERRLLDQARQILVSELALAGGMGRDEADALVERHLGAAEP 162


>gi|159043338|ref|YP_001532132.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
 gi|157911098|gb|ABV92531.1| transcriptional regulator [Dinoroseobacter shibae DFL 12]
          Length = 170

 Score =  218 bits (555), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 101/170 (59%), Positives = 125/170 (73%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
             +      FR  E++VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP  KA
Sbjct: 1   MSKANKSNEFRPNEYVVYPAHGVGQIVSIEEQEVAGLTLELFVISFEKDKMTLRVPTNKA 60

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++GMR LS    V +A+  ++GKARVKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR
Sbjct: 61  TEVGMRSLSSPDIVSKAMDTLKGKARVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHR 120

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            D Q E+SYSERQLYE+AL R+ REIAAV+   E  A   ++  L S+++
Sbjct: 121 NDDQREQSYSERQLYEAALERLTREIAAVSGDDEGNAQKRVDDVLVSRAA 170


>gi|294851010|ref|ZP_06791686.1| CarD family transcriptional regulator [Brucella sp. NVSL 07-0026]
 gi|294821653|gb|EFG38649.1| CarD family transcriptional regulator [Brucella sp. NVSL 07-0026]
          Length = 194

 Score =  218 bits (555), Expect = 4e-55,   Method: Composition-based stats.
 Identities = 130/188 (69%), Positives = 152/188 (80%), Gaps = 2/188 (1%)

Query: 1   MTFQQKRDA-MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M+ QQK+    R GF+ GE IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM LKV
Sbjct: 4   MSSQQKKSPVARGGFKAGEAIVYPAHGVGQIVTIEEQEVAGHKLELFVIDFEKDKMRLKV 63

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMW RRAQEYDAKINSGDLI+I+EVV
Sbjct: 64  PVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWLRRAQEYDAKINSGDLISISEVV 123

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           RDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+ K  K  K+
Sbjct: 124 RDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNLA-KGPKRGKA 182

Query: 180 TSENQDKA 187
            +E  D  
Sbjct: 183 EAELDDDE 190


>gi|323138996|ref|ZP_08074056.1| transcriptional regulator, CarD family [Methylocystis sp. ATCC
           49242]
 gi|322395750|gb|EFX98291.1| transcriptional regulator, CarD family [Methylocystis sp. ATCC
           49242]
          Length = 485

 Score =  217 bits (554), Expect = 5e-55,   Method: Composition-based stats.
 Identities = 103/169 (60%), Positives = 131/169 (77%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
            + GF+  E IVYPAHGVG I  ++ QEVAG  LE FV++F KDKM LKVP  K  ++GM
Sbjct: 299 QKHGFKQSEFIVYPAHGVGQIIGVEIQEVAGFSLELFVVSFIKDKMILKVPTSKVANVGM 358

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           RKL+E + V++AL  + G+AR+KRTMWSRRAQEY+AKINSGDL+ IAEVVRDL+R+D+QP
Sbjct: 359 RKLAEGNVVDKALATLSGRARIKRTMWSRRAQEYEAKINSGDLVTIAEVVRDLYRSDTQP 418

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           E+SYSERQLYE+AL+RM REIAAV  + + EA+ LIE  L     + +K
Sbjct: 419 EQSYSERQLYEAALDRMAREIAAVRKLIDSEALKLIESFLQKGPRRGQK 467


>gi|169627671|ref|YP_001701320.1| putative CarD-like transcriptional regulator [Mycobacterium
           abscessus ATCC 19977]
 gi|169239638|emb|CAM60666.1| Putative CarD-like transcriptional regulator [Mycobacterium
           abscessus]
          Length = 162

 Score =  217 bits (554), Expect = 5e-55,   Method: Composition-based stats.
 Identities = 44/162 (27%), Positives = 85/162 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALIEAIETRTIKGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++   +++R     + T WSRR +    K+ SGD+  +AEVVRDL R + +   
Sbjct: 61  VVGREGLDTVFQVLRAPHTEEPTNWSRRFKANQEKLASGDVKKVAEVVRDLWRREQERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E+A   + +  +A  +++  L++ S
Sbjct: 121 SAGEKRMLAKARQILVGELALAENTNAAKADTILDEVLAAAS 162


>gi|217977551|ref|YP_002361698.1| transcriptional regulator, CarD family [Methylocella silvestris
           BL2]
 gi|217502927|gb|ACK50336.1| transcriptional regulator, CarD family [Methylocella silvestris
           BL2]
          Length = 456

 Score =  217 bits (554), Expect = 5e-55,   Method: Composition-based stats.
 Identities = 109/180 (60%), Positives = 133/180 (73%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             + + GF+  E+IVYPAHGVG I  I+EQEVAG KLE FVI+F KDKM LKVP  K   
Sbjct: 268 SGSRQSGFKPNEYIVYPAHGVGQIVAIEEQEVAGFKLELFVISFVKDKMILKVPTPKVTS 327

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKL+EA  V R+L  + G+AR+KRTMWSRRAQEY+AKINSGDLIAIAEVVRDL+R+D
Sbjct: 328 VGMRKLAEADVVRRSLDTLAGRARIKRTMWSRRAQEYEAKINSGDLIAIAEVVRDLYRSD 387

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDK 186
           SQPE+SYSERQLYE+AL+RM RE+  V  ++E EA+  IE  L     +  K+     D 
Sbjct: 388 SQPEQSYSERQLYEAALDRMAREVVIVEKLTETEALKAIEAQLQKGPRRGGKAEEIEVDD 447


>gi|56696304|ref|YP_166661.1| CarD family transcriptional regulator [Ruegeria pomeroyi DSS-3]
 gi|56678041|gb|AAV94707.1| transcriptional regulator, CarD family [Ruegeria pomeroyi DSS-3]
          Length = 169

 Score =  216 bits (552), Expect = 8e-55,   Method: Composition-based stats.
 Identities = 98/166 (59%), Positives = 128/166 (77%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  +++VYPAHGVG I  I+EQEVAG KLE FVI+F+KDKM L+VP  KA + G
Sbjct: 4   SKKLEFRPNDYVVYPAHGVGQILSIEEQEVAGFKLELFVISFEKDKMTLRVPTNKATESG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R LS    + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 64  LRSLSSPDVISQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGADEMAAAKQVDEVLTSRAA 169


>gi|197104173|ref|YP_002129550.1| transcriptional regulator,CarD family [Phenylobacterium zucineum
           HLK1]
 gi|196477593|gb|ACG77121.1| transcriptional regulator,CarD family [Phenylobacterium zucineum
           HLK1]
          Length = 171

 Score =  216 bits (551), Expect = 1e-54,   Method: Composition-based stats.
 Identities = 97/168 (57%), Positives = 125/168 (74%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                  F  G+H+VYPAHGVG +  I+ QEVAG+KLE +VI FD +KM L+VP  KA  
Sbjct: 1   MSKNGHDFSVGDHVVYPAHGVGQVQGIETQEVAGLKLEVYVITFDHEKMTLRVPTAKAKT 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R L++   V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR +
Sbjct: 61  AGLRPLADTGLVSKALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAE 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +QPE+SYSERQLYESAL+RM RE+AA+  I    AI ++  +L   ++
Sbjct: 121 NQPEQSYSERQLYESALDRMAREVAAIERIDREAAIAMLNKSLVKATA 168


>gi|258651110|ref|YP_003200266.1| CarD family transcriptional regulator [Nakamurella multipartita DSM
           44233]
 gi|258554335|gb|ACV77277.1| transcriptional regulator, CarD family [Nakamurella multipartita
           DSM 44233]
          Length = 160

 Score =  216 bits (551), Expect = 1e-54,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 82/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I   + + V G++  + V+   +  + +KVP   A  +G+R 
Sbjct: 1   MVFNVGETVVYPHHGAALIQATETRTVKGVEKLYLVLKVAQGDLTVKVPADNAEIVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   ++   +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D +   
Sbjct: 61  VVDRTGLDHVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E  A  +++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTNEVRAEGILDEVLAS 160


>gi|77462983|ref|YP_352487.1| CarD family transcriptional regulator [Rhodobacter sphaeroides
           2.4.1]
 gi|126461857|ref|YP_001042971.1| CarD family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17029]
 gi|146277597|ref|YP_001167756.1| CarD family transcriptional regulator [Rhodobacter sphaeroides ATCC
           17025]
 gi|221638839|ref|YP_002525101.1| CarD family transcriptional regulator [Rhodobacter sphaeroides
           KD131]
 gi|332557859|ref|ZP_08412181.1| Transcriptional regulator, CarD family protein [Rhodobacter
           sphaeroides WS8N]
 gi|77387401|gb|ABA78586.1| transcriptional regulator, CarD family [Rhodobacter sphaeroides
           2.4.1]
 gi|126103521|gb|ABN76199.1| transcriptional regulator, CarD family [Rhodobacter sphaeroides
           ATCC 17029]
 gi|145555838|gb|ABP70451.1| transcriptional regulator, CarD family [Rhodobacter sphaeroides
           ATCC 17025]
 gi|221159620|gb|ACM00600.1| Transcriptional regulator, CarD family [Rhodobacter sphaeroides
           KD131]
 gi|332275571|gb|EGJ20886.1| Transcriptional regulator, CarD family protein [Rhodobacter
           sphaeroides WS8N]
          Length = 169

 Score =  216 bits (551), Expect = 1e-54,   Method: Composition-based stats.
 Identities = 99/164 (60%), Positives = 127/164 (77%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           +  FR  E +VYPAHGVG I  I+EQE+AG++LE FVI+F+KDKM L+VP  KA ++GMR
Sbjct: 6   KPEFRPNEFVVYPAHGVGRIISIEEQEIAGIRLELFVISFEKDKMTLRVPTHKATEVGMR 65

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            LS    V +AL  ++GKARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHRTD Q E
Sbjct: 66  SLSTPDVVTKALDTLKGKARVKRAMWSRRAQEYEQKINSGDLMSIAEVVRDLHRTDDQRE 125

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +SYSERQLYE+AL R+ RE+AAV+ + E  A   ++  L S+++
Sbjct: 126 QSYSERQLYEAALERLTREVAAVSGVDEAGAQKAVDAVLVSRAA 169


>gi|313835593|gb|EFS73307.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL037PA2]
 gi|314928689|gb|EFS92520.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL044PA1]
 gi|314970294|gb|EFT14392.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL037PA3]
          Length = 181

 Score =  216 bits (551), Expect = 1e-54,   Method: Composition-based stats.
 Identities = 42/166 (25%), Positives = 88/166 (53%), Gaps = 1/166 (0%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAI 65
           +   +  F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP     
Sbjct: 16  KGVAQMTFNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRILGQNDLVVRVPASNLD 75

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +G+R + +   +E+  +++R     + + WSRR +    K++SG+++ +AEVVRDL R 
Sbjct: 76  LVGVRDVVDDEGLEKVFEILRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRR 135

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           +     S  E+++   A   +V E+A    + + +A  +++  L+S
Sbjct: 136 ERDRGLSAGEKRMLSKARQILVSELALAKRVEDDQAEEMLDEVLAS 181


>gi|126733165|ref|ZP_01748912.1| transcriptional regulator, CarD family, putative [Roseobacter sp.
           CCS2]
 gi|126716031|gb|EBA12895.1| transcriptional regulator, CarD family, putative [Roseobacter sp.
           CCS2]
          Length = 168

 Score =  216 bits (550), Expect = 1e-54,   Method: Composition-based stats.
 Identities = 99/168 (58%), Positives = 120/168 (71%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
               +  F   E +VYPAHGVG I  I+ QEVAG +LE FVI+F+KDKM L+VP  KA  
Sbjct: 1   MSKKKYDFSPNEFVVYPAHGVGKIVSIETQEVAGFELEMFVISFEKDKMTLRVPTDKATH 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMR L+    V  A+K +RGKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D
Sbjct: 61  VGMRALATPDVVSHAMKTLRGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRQD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            Q E+SYSERQLYE+AL R+ REIAAV    E  A   I+  L S+++
Sbjct: 121 DQREQSYSERQLYEAALERLTREIAAVAGNDENAAAAEIDSVLVSRAA 168


>gi|126738718|ref|ZP_01754414.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           SK209-2-6]
 gi|126719899|gb|EBA16606.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           SK209-2-6]
          Length = 169

 Score =  215 bits (549), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 99/166 (59%), Positives = 127/166 (76%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  +++VYPAHGVG I  I+EQEVAG  LE FVI F+KDKM L+VP  KA ++G
Sbjct: 4   SKKLEFRPNDYVVYPAHGVGQIISIEEQEVAGFALELFVITFEKDKMTLRVPTNKATEVG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q
Sbjct: 64  MRSLSSPDVINQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGADEILAAKQVDEVLTSRAA 169


>gi|254463989|ref|ZP_05077400.1| transcriptional regulator, CarD family [Rhodobacterales bacterium
           Y4I]
 gi|206684897|gb|EDZ45379.1| transcriptional regulator, CarD family [Rhodobacterales bacterium
           Y4I]
          Length = 169

 Score =  215 bits (549), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 99/166 (59%), Positives = 128/166 (77%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  +++VYPAHGVG I  I+EQEVAG  LE FVI F+KDKM L+VP  KA ++G
Sbjct: 4   SKKLEFRPDDYVVYPAHGVGQIISIEEQEVAGFALELFVITFEKDKMTLRVPTNKATEVG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    +E+A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 64  MRSLSSPDVIEQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGNDEIAAAKQVDEVLTSRAA 169


>gi|309812604|ref|ZP_07706349.1| CarD-like protein [Dermacoccus sp. Ellin185]
 gi|308433455|gb|EFP57342.1| CarD-like protein [Dermacoccus sp. Ellin185]
          Length = 160

 Score =  215 bits (549), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 50/160 (31%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG  TI EIK +++ G   ++ V+   +  + ++VP      +G+R 
Sbjct: 1   MEFKVGETVVYPHHGAATIEEIKVRKIKGEDKQYLVLNVAQGDLTIEVPAENCDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E+  +++R +   + T WSRR +    K+ SGD+I +AEVVRDL R D     
Sbjct: 61  VVDKAGLEKVFEVLRAEHTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A   ++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEHTNEDKAEATLDEVLAS 160


>gi|119384562|ref|YP_915618.1| CarD family transcriptional regulator [Paracoccus denitrificans
           PD1222]
 gi|119374329|gb|ABL69922.1| transcriptional regulator, CarD family [Paracoccus denitrificans
           PD1222]
          Length = 169

 Score =  215 bits (549), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 100/166 (60%), Positives = 129/166 (77%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A +  FR  + +VYP HGVG I  I+EQEVAG++LE FVI+F+KDKM L+VP  +A +IG
Sbjct: 4   AKKTEFRPDDFVVYPTHGVGRIVSIEEQEVAGLRLEMFVISFEKDKMTLRVPTARATEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    VERAL  ++GKARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR D Q
Sbjct: 64  MRGLSTPDLVERALDTLKGKARVKRAMWSRRAQEYEQKINSGDLMSIAEVVRDLHRNDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL+R+ RE+AAV+ + E  A   +E  L+++++
Sbjct: 124 REQSYSERQLYEAALDRLTREVAAVSGMDEAGAQKRVETVLTARAA 169


>gi|260576851|ref|ZP_05844834.1| transcriptional regulator, CarD family [Rhodobacter sp. SW2]
 gi|259020888|gb|EEW24201.1| transcriptional regulator, CarD family [Rhodobacter sp. SW2]
          Length = 169

 Score =  215 bits (549), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 99/166 (59%), Positives = 127/166 (76%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  E +VYPAHGVG I  I+EQE+AG+ LE FVI+F+KDKM L+VP  KA +IG
Sbjct: 4   SKKPEFRPNEFVVYPAHGVGKIISIEEQEIAGLHLELFVISFEKDKMTLRVPTHKATEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    V +AL  ++GKARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR+D Q
Sbjct: 64  MRGLSSPDIVTKALDTLKGKARVKRAMWSRRAQEYEQKINSGDLLSIAEVVRDLHRSDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+ + E  A   +   L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGVDEAGAQKTVGTVLTSRAA 169


>gi|84500895|ref|ZP_00999130.1| transcriptional regulator, CarD family protein [Oceanicola
           batsensis HTCC2597]
 gi|84390962|gb|EAQ03380.1| transcriptional regulator, CarD family protein [Oceanicola
           batsensis HTCC2597]
          Length = 169

 Score =  215 bits (549), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 96/166 (57%), Positives = 126/166 (75%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A +  FR  +++VYPAHGVG I  I+ QE+AG+ LE FVI+F+KDKM L+VP  KA ++G
Sbjct: 4   AKKAEFRPNDYVVYPAHGVGQIVSIESQEIAGISLELFVISFEKDKMTLRVPTNKATEVG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    V +A+  ++GKA+VKR MWSRRAQEY+ KINSGDL+AIAEVVRDLHR D Q
Sbjct: 64  MRSLSTPDVVSKAMSTLKGKAKVKRAMWSRRAQEYEQKINSGDLVAIAEVVRDLHRNDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E +A   ++  L S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGADEVDAARKVDEVLVSRAA 169


>gi|302384121|ref|YP_003819944.1| CarD family transcriptional regulator [Brevundimonas subvibrioides
           ATCC 15264]
 gi|302194749|gb|ADL02321.1| transcriptional regulator, CarD family [Brevundimonas subvibrioides
           ATCC 15264]
          Length = 186

 Score =  215 bits (549), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 99/175 (56%), Positives = 130/175 (74%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ +VYPAHGVG +  ++ QEVAGM LE +V+ FD +KM L+VP  KA   G+R L+
Sbjct: 9   FKVGDAVVYPAHGVGKVAAVEVQEVAGMSLEVYVVTFDHEKMTLRVPTKKAKTAGLRSLA 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V +AL  ++G+AR+KRTMWSRRAQEY+AKINSGDL+ IAEVVRDLHR DSQPE+SY
Sbjct: 69  SEDVVTKALSTLKGRARIKRTMWSRRAQEYEAKINSGDLVCIAEVVRDLHRADSQPEQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKAA 188
           SERQLYESAL+RM RE+AA N I +  A+ L+  +LS+K +    +   ++D  A
Sbjct: 129 SERQLYESALDRMAREVAAANRIDKDAAVQLLSKSLSAKKANAPVAEVADEDSEA 183


>gi|254476379|ref|ZP_05089765.1| transcriptional regulator, CarD family [Ruegeria sp. R11]
 gi|214030622|gb|EEB71457.1| transcriptional regulator, CarD family [Ruegeria sp. R11]
          Length = 169

 Score =  215 bits (548), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 99/166 (59%), Positives = 127/166 (76%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  +++VYPAHGVG I  I+EQEVAG KLE FVI F+KDKM L+VP  KA +IG
Sbjct: 4   SKKPEFRPDDYVVYPAHGVGQIISIEEQEVAGFKLELFVITFEKDKMTLRVPTHKATEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    + +A+  ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 64  MRSLSSPDVIAKAMTTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGGDEISAAKQVDEVLTSRAA 169


>gi|296392879|ref|YP_003657763.1| CarD family transcriptional regulator [Segniliparus rotundus DSM
           44985]
 gi|296180026|gb|ADG96932.1| transcriptional regulator, CarD family [Segniliparus rotundus DSM
           44985]
          Length = 162

 Score =  215 bits (548), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 47/162 (29%), Positives = 83/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   +  I+ + + G++ E+ V+      + ++VP   A  IG+R 
Sbjct: 1   MNFKIGDTVVYPHHGAALVEAIEVRTIKGVEKEYLVLKVGHGDLTVRVPAENAEYIGIRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVSDEGLDKVFNVLRDVHTEEPTNWSRRYKANIEKLASGDVHKVAEVVRDLWRREQGRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E++L   A   +V E+A   S  + +A  L++  L+  S
Sbjct: 121 SAGEKRLLAKARQVLVGELALAESSDDAKAEGLLDEVLAQAS 162


>gi|254511434|ref|ZP_05123501.1| transcriptional regulator, CarD family [Rhodobacteraceae bacterium
           KLH11]
 gi|221535145|gb|EEE38133.1| transcriptional regulator, CarD family [Rhodobacteraceae bacterium
           KLH11]
          Length = 170

 Score =  215 bits (548), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 95/166 (57%), Positives = 126/166 (75%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  +++VYPAHGVG I  I+EQ+VAG  LE FVI+F+KDKM L+VP  K  + G
Sbjct: 4   SKKLEFRPNDYVVYPAHGVGQIISIEEQDVAGFSLELFVISFEKDKMTLRVPTNKVTESG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R LS    + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 64  LRSLSSPDVISQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGADEISAAKQVDEVLTSRAA 169


>gi|317507825|ref|ZP_07965526.1| CarD/TRCF domain-containing protein [Segniliparus rugosus ATCC
           BAA-974]
 gi|316253867|gb|EFV13236.1| CarD/TRCF domain-containing protein [Segniliparus rugosus ATCC
           BAA-974]
          Length = 162

 Score =  215 bits (548), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 47/162 (29%), Positives = 84/162 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   +  I+ + + G++ E+ V+   +  + ++VP   A  IG+R 
Sbjct: 1   MNFKIGDTVVYPHHGAALVEAIEVRTIKGVEKEYLVLKVGQGDLTVRVPAENAEYIGIRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVSDEGLDKVFNVLRDVHTEEPTNWSRRYKANIEKLASGDVHKVAEVVRDLWRREQGRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E++L   A   +V E+A   S  + +A  L++  L+  S
Sbjct: 121 SAGEKRLLAKARQVLVGELALAESSDDEKAECLLDEVLAEAS 162


>gi|163738513|ref|ZP_02145928.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis BS107]
 gi|163743575|ref|ZP_02150952.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis 2.10]
 gi|161383160|gb|EDQ07552.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis 2.10]
 gi|161388434|gb|EDQ12788.1| transcriptional regulator, CarD family protein [Phaeobacter
           gallaeciensis BS107]
          Length = 170

 Score =  215 bits (548), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 98/166 (59%), Positives = 126/166 (75%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  +++VYPAHGVG I  I+EQEVAG  LE FVI F+KDKM L+VP  KA +IG
Sbjct: 4   SKKPEFRPDDYVVYPAHGVGQIISIEEQEVAGFALELFVITFEKDKMTLRVPTNKATEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    + +A+  ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 64  MRSLSSPDVIAKAMTTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGGDEISAAKQVDEVLTSRAA 169


>gi|284028991|ref|YP_003378922.1| CarD family transcriptional regulator [Kribbella flavida DSM 17836]
 gi|283808284|gb|ADB30123.1| transcriptional regulator, CarD family [Kribbella flavida DSM
           17836]
          Length = 161

 Score =  215 bits (548), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 85/161 (52%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I +I+ +++ G    + V+    ++ + ++VP      +G+R
Sbjct: 1   MTFTVGETVVYPNHGAAVIEDIETRQIKGEDKTYLVLRIVAQNDLVVRVPACNLDLVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +   +ER   ++R     + T WSRR +    K++SGD++ +AEVVRDL R +    
Sbjct: 61  DVVDQAGLERVFDVLRAPHTEEPTNWSRRYKANLEKLHSGDVMKVAEVVRDLWRRERDRG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A     +E +A  +++  L+S
Sbjct: 121 LSAGEKRMLAKARQILVSELALAEHTNEDKAEAILDEVLAS 161


>gi|220930938|ref|YP_002507846.1| transcriptional regulator, CarD family [Halothermothrix orenii H
           168]
 gi|219992248|gb|ACL68851.1| transcriptional regulator, CarD family [Halothermothrix orenii H
           168]
          Length = 176

 Score =  215 bits (548), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 43/175 (24%), Positives = 87/175 (49%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
             +   + + F+ G+ +VYP HG GTI  I+ + + G + +++++      M + +PV K
Sbjct: 2   ANEEGLINKMFKVGDKVVYPNHGAGTIVGIETKNILGEEKKYYIMKLPIGDMKVMIPVEK 61

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
             +IG+R + +    +  LKL++G        W+RR +    K+ +GD+  + EVVR+L 
Sbjct: 62  VEEIGVRNIIDEEEADNVLKLLKGDKSKMSQNWNRRYRANMEKLKTGDIYEVGEVVRNLT 121

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
             D +   S  E+++  +A   ++ E+     + E E   +I+       +  E+
Sbjct: 122 IRDHEKGLSTGEKKMLSNARQILISELVLAKDMDEKEVEEIIDNVFEENPNLDEE 176


>gi|99080417|ref|YP_612571.1| CarD family transcriptional regulator [Ruegeria sp. TM1040]
 gi|99036697|gb|ABF63309.1| transcriptional regulator, CarD family [Ruegeria sp. TM1040]
          Length = 169

 Score =  215 bits (548), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 103/166 (62%), Positives = 128/166 (77%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  + IVYPAHGVG I  I+EQEVAG KLE FVI F+KDKM L+VP  KAIDIG
Sbjct: 4   SKKLEFRPNDFIVYPAHGVGQIISIEEQEVAGYKLELFVITFEKDKMTLRVPTHKAIDIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLI+IAEVVRDLHRTD Q
Sbjct: 64  MRSLSSPDVINQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLISIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L+S+++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGGDEIAAAKQVDEVLTSRAA 169


>gi|220927797|ref|YP_002504706.1| CarD family transcriptional regulator [Clostridium cellulolyticum
           H10]
 gi|219998125|gb|ACL74726.1| transcriptional regulator, CarD family [Clostridium cellulolyticum
           H10]
          Length = 159

 Score =  214 bits (547), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 41/157 (26%), Positives = 76/157 (48%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +  G+ IVYP HG G I  I+E+E+ G    ++V+      + + +P     DIG+R +
Sbjct: 1   MYNVGDKIVYPMHGAGVIESIEEKEILGKTCSYYVMKIPIGDLKVMIPTNNITDIGIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +     ++       + W++R +E   KI SGD+  +A+VVR L + + +   S
Sbjct: 61  ISVSEADSVFDFLKNGQHEIPSNWNKRYRENMVKIKSGDIFEVADVVRGLMQREKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             ER++  SA   ++ E+     I++ +    I+  L
Sbjct: 121 TGERKMLSSAKQILISELVLAKGINQHDVEVKIQEYL 157


>gi|152977078|ref|YP_001376595.1| CarD family transcriptional regulator [Bacillus cereus subsp.
           cytotoxis NVH 391-98]
 gi|152025830|gb|ABS23600.1| transcriptional regulator, CarD family [Bacillus cytotoxicus NVH
           391-98]
          Length = 159

 Score =  214 bits (547), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 50/158 (31%), Positives = 85/158 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G I  I+++EV G   ++ VI      M + +P+ K  D G+R +
Sbjct: 1   MFQIGDKIVYPMHGAGIIEAIEDKEVLGKTRQYCVIHMVISDMQVMIPMDKVQDSGIRYV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +  AL  V   A  K   W +R      K+ SGD +  AEVVRDL   + +   +
Sbjct: 61  VDQTTLNHALVDVHNGAPDKSLSWKQRYTLNMEKMKSGDFVDGAEVVRDLLHRNKERTLN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            SE+Q+ ++A   ++ E+A V ++SE +A + ++  ++
Sbjct: 121 ASEKQMLDNARRILISEVALVQNVSENQATDFLQNTIN 158


>gi|312113407|ref|YP_004011003.1| transcriptional regulator, CarD family [Rhodomicrobium vannielii
           ATCC 17100]
 gi|311218536|gb|ADP69904.1| transcriptional regulator, CarD family [Rhodomicrobium vannielii
           ATCC 17100]
          Length = 187

 Score =  214 bits (547), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 107/175 (61%), Positives = 134/175 (76%), Gaps = 1/175 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           GF+  E++VYP HGVG I  I+EQE+AG KLE FVI F+KDKM L+VP  K    GMRKL
Sbjct: 11  GFKANEYVVYPTHGVGRIVAIEEQEIAGCKLELFVINFEKDKMTLRVPTSKTQSAGMRKL 70

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S+A  + RA++ +RG+ARVKRTMWSRRAQEY+AKINSGDLI IAEVVRDL+R+D+QPE+S
Sbjct: 71  SDAAVLARAMETLRGRARVKRTMWSRRAQEYEAKINSGDLITIAEVVRDLYRSDAQPEQS 130

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
           YSERQLYESAL+RM REIAA   + E  AI  +   L +K+ +  K   E+++K 
Sbjct: 131 YSERQLYESALDRMAREIAAAQDVDESIAIQKVAEAL-TKAGRLRKQEVEDEEKK 184


>gi|89069370|ref|ZP_01156729.1| transcriptional regulator, CarD family protein [Oceanicola
           granulosus HTCC2516]
 gi|89045137|gb|EAR51208.1| transcriptional regulator, CarD family protein [Oceanicola
           granulosus HTCC2516]
          Length = 171

 Score =  214 bits (547), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 99/166 (59%), Positives = 124/166 (74%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  F   +H+VYPAHGVG I  I++QEVAG +LE FVI+F+KDKM L+VP  KA ++G
Sbjct: 4   SRKNEFSPNDHVVYPAHGVGQIVSIEKQEVAGFELELFVISFEKDKMTLRVPTHKAEEVG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    V  A+K ++GKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q
Sbjct: 64  MRSLSSPDVVAHAMKTLKGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ REIAAV    E  A   I+  L S+++
Sbjct: 124 REQSYSERQLYEAALERLTREIAAVGGNDEVAAAKEIDDVLVSRAA 169


>gi|326203337|ref|ZP_08193202.1| transcriptional regulator, CarD family [Clostridium papyrosolvens
           DSM 2782]
 gi|325986595|gb|EGD47426.1| transcriptional regulator, CarD family [Clostridium papyrosolvens
           DSM 2782]
          Length = 159

 Score =  214 bits (546), Expect = 5e-54,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 78/157 (49%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +  G+ IVYP HG G I  I+E+E+ G K  ++V+      + + +P     DIG+R +
Sbjct: 1   MYNVGDKIVYPMHGAGVIESIEEKEILGKKCSYYVMKIPIGDLKVMIPTNNITDIGIRGV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +     ++       + W++R +E   KI SGD+  +A+VVR L + + +   S
Sbjct: 61  ISVSEADNVFNFLKDGQHEIPSNWNKRYRENMVKIKSGDIFEVADVVRSLMQREKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             ER++  SA   ++ E+  V  I++ E    I+  L
Sbjct: 121 TGERKMLSSAKQILISELVLVKGINQHEVEIKIQEYL 157


>gi|257068115|ref|YP_003154370.1| transcriptional regulator, CarD family [Brachybacterium faecium DSM
           4810]
 gi|256558933|gb|ACU84780.1| transcriptional regulator, CarD family [Brachybacterium faecium DSM
           4810]
          Length = 160

 Score =  214 bits (545), Expect = 5e-54,   Method: Composition-based stats.
 Identities = 45/160 (28%), Positives = 78/160 (48%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I E+K + + G    +  +   +  + ++VP      +G+R 
Sbjct: 1   MNFAVGETVVYPHHGAALIEEVKTRTIKGEDRTYLKLKVAQGDLTIEVPADNVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   ++    ++R     + T WSRR +    K+ SGD+  +AEVVRDL R D     
Sbjct: 61  VVDKEGLDEVFDVLRQPYTEEPTNWSRRYKANVEKLASGDVKKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E  A ++++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTDEGNAESILDEVLAS 160


>gi|260426540|ref|ZP_05780519.1| transcriptional regulator, CarD family [Citreicella sp. SE45]
 gi|260421032|gb|EEX14283.1| transcriptional regulator, CarD family [Citreicella sp. SE45]
          Length = 170

 Score =  214 bits (545), Expect = 5e-54,   Method: Composition-based stats.
 Identities = 99/170 (58%), Positives = 126/170 (74%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
                 +  FR  +++VYPAHGVG I  I+EQE+AG+KLE FVI+F+KDKM L+VP  KA
Sbjct: 1   MTTKTKKNEFRPNDYVVYPAHGVGQIVLIEEQEIAGIKLELFVISFEKDKMTLRVPTHKA 60

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            +IGMR LS    V +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR
Sbjct: 61  SEIGMRSLSSPDVVSQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHR 120

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            D Q E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L  +++
Sbjct: 121 ADDQREQSYSERQLYEAALERLTREVAAVSGGDEVAAARQVDEVLGLRAA 170


>gi|149202302|ref|ZP_01879275.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           TM1035]
 gi|149144400|gb|EDM32431.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           TM1035]
          Length = 169

 Score =  213 bits (544), Expect = 7e-54,   Method: Composition-based stats.
 Identities = 98/164 (59%), Positives = 126/164 (76%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           +  FR  +++VYPAHGVG I  I+EQE+AG+ LE FVI+F+KDKM L+VP  KA +IGMR
Sbjct: 6   KSEFRPDDYVVYPAHGVGQIVSIEEQEIAGITLELFVISFEKDKMTLRVPTNKATEIGMR 65

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            LS    V +A+  ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR+D Q E
Sbjct: 66  GLSSPDVVSKAMSTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRSDDQRE 125

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L S+++
Sbjct: 126 QSYSERQLYEAALERLTREVAAVSGGDEVLAARKVDEVLVSRAA 169


>gi|114764920|ref|ZP_01444093.1| transcriptional regulator, CarD family protein [Pelagibaca
           bermudensis HTCC2601]
 gi|114542632|gb|EAU45656.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           HTCC2601]
          Length = 169

 Score =  213 bits (544), Expect = 7e-54,   Method: Composition-based stats.
 Identities = 100/166 (60%), Positives = 126/166 (75%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  +++VYPAHGVG I  I+EQEVAGM LE FVI+F+KDKM L+VP  KA +IG
Sbjct: 4   SKKNEFRPNDYVVYPAHGVGQIMSIEEQEVAGMTLELFVISFEKDKMTLRVPTHKATEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    V +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q
Sbjct: 64  MRSLSSPDVVSQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L  +++
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVSGGDEVAAARQVDEVLGLRAA 169


>gi|311741767|ref|ZP_07715578.1| CarD family transcriptional regulator [Aeromicrobium marinum DSM
           15272]
 gi|311314773|gb|EFQ84679.1| CarD family transcriptional regulator [Aeromicrobium marinum DSM
           15272]
          Length = 161

 Score =  213 bits (544), Expect = 8e-54,   Method: Composition-based stats.
 Identities = 48/161 (29%), Positives = 90/161 (55%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I +I+ +++ G + ++ V+    ++ + ++VP      +G+R
Sbjct: 1   MAFTVGETVVYPNHGAAVIEDIETRKIKGEERDYLVLRIIAQNDLVVRVPACNLDLVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +A  +ER   ++R +   + T WSRR +    K++SGD++ +AEVVRDL R D +  
Sbjct: 61  DVVDADGLERVFSVLRAEHVEEPTNWSRRYKANLEKLHSGDVLKVAEVVRDLWRRDHERG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A   + +E +A   ++  L+S
Sbjct: 121 LSAGEKRMLAKARQILVSELALAENTNEDKAELRLDEVLAS 161


>gi|297572193|ref|YP_003697967.1| CarD family transcripitonal regulator [Arcanobacterium haemolyticum
           DSM 20595]
 gi|296932540|gb|ADH93348.1| transcriptional regulator, CarD family [Arcanobacterium
           haemolyticum DSM 20595]
          Length = 181

 Score =  213 bits (543), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 53/177 (29%), Positives = 88/177 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I +I E+ + G K  +  +   +  M ++VP      +G+R 
Sbjct: 1   MSFKVGETVVYPHHGAAYIEDISEKMMRGEKRLYLTLRIIQGDMVIQVPADSIEQVGLRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +S    +ER   ++R +   + + WSRR +    K+ SGD+  +AEVVRDL R +S    
Sbjct: 61  VSNDEQLERVFAVLREENVEEPSNWSRRYKANGEKLTSGDVNKVAEVVRDLTRRNSDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKAA 188
           S  E+++   A   +  E+A    IS+ EA  L+   L   +   + S S    ++A
Sbjct: 121 SAGEKRMLAQARGILGSEVALGRGISDEEAAELLNEILGEFTPSPDSSESAGTPESA 177


>gi|50955384|ref|YP_062672.1| transcriptional regulator, CarD-like regulator [Leifsonia xyli
           subsp. xyli str. CTCB07]
 gi|50951866|gb|AAT89567.1| transcriptional regulator, CarD-like regulator [Leifsonia xyli
           subsp. xyli str. CTCB07]
          Length = 160

 Score =  213 bits (542), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 85/160 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TITE+K++ + G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MLFEVGETVVYPHHGAATITEVKKRTIKGEEKLYLKLNVTQGDLTIEVPADNVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I ++EVVRDL R D     
Sbjct: 61  VIGREGLDRVFEVLRAPFTEEPTNWSRRYKANLEKLASGDVIKVSEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   ++ E+A      + +A +L++  L+S
Sbjct: 121 SAGEKRMLAKARQILISELALAEKTDDEKASSLLDEVLAS 160


>gi|294678311|ref|YP_003578926.1| CarD family transcriptional regulator [Rhodobacter capsulatus SB
           1003]
 gi|294477131|gb|ADE86519.1| transcriptional regulator, CarD family [Rhodobacter capsulatus SB
           1003]
          Length = 169

 Score =  213 bits (542), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 97/164 (59%), Positives = 126/164 (76%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           +  FR  + +VYPAHGVG I  I+EQE+AG++LE FVI+F+KDKM L+VP  KA+DIGMR
Sbjct: 6   KTEFRPDDFVVYPAHGVGKIISIEEQEIAGLRLELFVISFEKDKMTLRVPTHKAVDIGMR 65

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            LS    V +AL+ ++GKA+VKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR D Q E
Sbjct: 66  GLSSPDVVTKALETLKGKAKVKRAMWSRRAQEYEQKINSGDLLSIAEVVRDLHRADDQRE 125

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L  +++
Sbjct: 126 QSYSERQLYEAALERLTREVAAVSGTDEAGAAKKVDEVLVGRAA 169


>gi|16124906|ref|NP_419470.1| hypothetical protein CC_0653 [Caulobacter crescentus CB15]
 gi|221233627|ref|YP_002516063.1| CarD-like transcriptional regulator [Caulobacter crescentus NA1000]
 gi|13421868|gb|AAK22638.1| conserved hypothetical protein [Caulobacter crescentus CB15]
 gi|220962799|gb|ACL94155.1| CarD-like transcriptional regulator [Caulobacter crescentus NA1000]
          Length = 185

 Score =  213 bits (542), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 99/168 (58%), Positives = 124/168 (73%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
                   F  G+H+VYPAHGVG+I  I+ QEVAGM LE +VI FD +KM L+VP  KA 
Sbjct: 18  NMSKTGLEFSVGDHVVYPAHGVGSIQAIETQEVAGMSLEVYVITFDHEKMTLRVPTKKAK 77

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
             G+R L+E   V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR 
Sbjct: 78  TAGLRPLAEGGTVSQALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRA 137

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           ++QPE+SYSERQLYESAL+RM RE+AA+  I    AI ++  +L   +
Sbjct: 138 ENQPEQSYSERQLYESALDRMAREVAAIERIDREAAIGILTKSLVKAA 185


>gi|329890831|ref|ZP_08269174.1| carD-like/TRCF domain protein [Brevundimonas diminuta ATCC 11568]
 gi|328846132|gb|EGF95696.1| carD-like/TRCF domain protein [Brevundimonas diminuta ATCC 11568]
          Length = 181

 Score =  212 bits (541), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 97/168 (57%), Positives = 125/168 (74%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                  F+ G+ +VYPAHGVG +  I+ QEVAGM LE +V+ F+ +KM L+VP  KA  
Sbjct: 2   TSKTGLEFKVGDAVVYPAHGVGKVAAIETQEVAGMALEVYVVTFEHEKMTLRVPTKKAKT 61

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R L+    V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR +
Sbjct: 62  AGLRTLAADDTVSKALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAE 121

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +QPE+SYSERQLYESAL+RM RE+AA N I +  A+ L+  +LS+K  
Sbjct: 122 TQPEQSYSERQLYESALDRMAREVAAANKIDKDAAMALLGKSLSAKKP 169


>gi|254418588|ref|ZP_05032312.1| CarD-like transcriptional regulator family [Brevundimonas sp. BAL3]
 gi|196184765|gb|EDX79741.1| CarD-like transcriptional regulator family [Brevundimonas sp. BAL3]
          Length = 176

 Score =  212 bits (541), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 97/168 (57%), Positives = 125/168 (74%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                  F+ G+ +VYPAHGVG +  ++ QEVAGM LE +V+ FD +KM L+VP  KA  
Sbjct: 2   TSKTGLEFKVGDAVVYPAHGVGKVAAVETQEVAGMSLEVYVVTFDHEKMTLRVPTKKAAT 61

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R L+    V +AL  ++G+AR+KRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR D
Sbjct: 62  AGLRSLAADDVVTKALTTLKGRARIKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAD 121

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +QPE+SYSERQLYESAL+RM RE+AA N I +  A+ L+  +LS+K  
Sbjct: 122 TQPEQSYSERQLYESALDRMAREVAAANKIDKDAAVELLAKSLSAKKP 169


>gi|154252146|ref|YP_001412970.1| CarD family transcriptional regulator [Parvibaculum lavamentivorans
           DS-1]
 gi|154156096|gb|ABS63313.1| transcriptional regulator, CarD family [Parvibaculum
           lavamentivorans DS-1]
          Length = 350

 Score =  212 bits (541), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 108/178 (60%), Positives = 136/178 (76%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           R  F+  E +VYPAHGVG I +I+EQEVAG KLE FVI FDK+KM L+VP  KA  +GMR
Sbjct: 173 RANFKAKEFVVYPAHGVGQILDIEEQEVAGHKLELFVINFDKEKMTLRVPTNKAGAVGMR 232

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           KLS+A  V+ A++ +RG+AR+KRTMWSRRAQEY+AKINSGDLI+IAEVVRDL+R++ QPE
Sbjct: 233 KLSDAGVVDSAIETLRGRARIKRTMWSRRAQEYEAKINSGDLISIAEVVRDLYRSERQPE 292

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKAA 188
           +SYSERQLYE+AL+RM RE+AAV  I E  AI  +E  L   +   +   S+   +AA
Sbjct: 293 QSYSERQLYEAALDRMAREVAAVERIGEDAAIERVEQALQGAAKTDKAPKSDEASEAA 350


>gi|325962196|ref|YP_004240102.1| CarD family transcriptional regulator [Arthrobacter
           phenanthrenivorans Sphe3]
 gi|323468283|gb|ADX71968.1| transcriptional regulator, CarD family [Arthrobacter
           phenanthrenivorans Sphe3]
          Length = 160

 Score =  212 bits (541), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 81/160 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MVFEVGETVVYPHHGAAKIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R D     
Sbjct: 61  VVGKDGLEHVFDVLRAEFTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDHDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   ++ E+A      E +A ++++  L+S
Sbjct: 121 SAGEKRMLAKARQILISELALAEKTDEEKAASVLDEVLAS 160


>gi|332976449|gb|EGK13297.1| CarD family transcriptional regulator [Desmospora sp. 8437]
          Length = 162

 Score =  212 bits (540), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 42/158 (26%), Positives = 81/158 (51%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M + F+ G+ IVYP HG G I  ++E+E+ G K  +++I      + + +P  +  D+G+
Sbjct: 1   MGRLFQVGDKIVYPLHGAGVIDAVEEKEILGKKQRYYIIHMSLGNVQIMIPADRIDDMGL 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R + +   +E    L           W++R +    K+ +GD+    EV+RDL + + + 
Sbjct: 61  RHIVDPDTMENVFLLFNDDPSASSGSWNQRFRMNMDKMKTGDIFKTTEVIRDLAQINKEK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
                E++L ++A   ++ E+  V  I E +AI L++ 
Sbjct: 121 SLGTGEKKLLDNAKQILISELVLVKEIEEEQAIQLLDE 158


>gi|262200966|ref|YP_003272174.1| transcription factor CarD [Gordonia bronchialis DSM 43247]
 gi|262084313|gb|ACY20281.1| transcription factor CarD [Gordonia bronchialis DSM 43247]
          Length = 162

 Score =  212 bits (540), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 41/162 (25%), Positives = 87/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   + +I  + + G ++E+ V+      M +++P  K   +G+R 
Sbjct: 1   MNFKVGDTVVYPHHGAARVEDIVTRTIKGEQIEYLVLKVADGDMTVQIPSTKLEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T W+RR +    K+ SGD+I +AE+VRDL R +     
Sbjct: 61  VVGQEGLDQVFQVLRAPHTEEPTNWARRFKANQEKLISGDIIKVAEIVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E++   +  + +A ++++  L++ S
Sbjct: 121 SAGEKRMLTRARRVLVDELSLAQNTDDEKATSILDEVLAAAS 162


>gi|254449905|ref|ZP_05063342.1| transcriptional regulator, CarD family [Octadecabacter antarcticus
           238]
 gi|198264311|gb|EDY88581.1| transcriptional regulator, CarD family [Octadecabacter antarcticus
           238]
          Length = 170

 Score =  212 bits (540), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 96/168 (57%), Positives = 120/168 (71%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
               +  +   + +VYPAHGVG I  I+ QE+AG +LE FVIAF+KDKM L+VP  KA D
Sbjct: 1   MAKKKYDYSPNDFVVYPAHGVGKIVSIETQEIAGFELEMFVIAFEKDKMTLRVPTNKAED 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMR L+    V   +K ++GKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D
Sbjct: 61  VGMRSLASTEVVADCMKTLKGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            Q E+SYSERQLYE+AL R+ RE AAV + +E EA   I   L S++ 
Sbjct: 121 DQREQSYSERQLYEAALERLTREFAAVGNGNELEAGTEITDTLQSRAP 168


>gi|291297677|ref|YP_003508955.1| CarD family transcriptional regulator [Stackebrandtia nassauensis
           DSM 44728]
 gi|290566897|gb|ADD39862.1| transcriptional regulator, CarD family [Stackebrandtia nassauensis
           DSM 44728]
          Length = 161

 Score =  211 bits (539), Expect = 3e-53,   Method: Composition-based stats.
 Identities = 45/161 (27%), Positives = 86/161 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I  ++ + + G++ E+ V+  ++  + ++VP G    +G+R+
Sbjct: 1   MSFSVGETVVYPHHGAALIEAVETRTIKGVEQEYLVLRVEQGDLTVRVPAGNVELVGVRE 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +  A  +     ++R     + T WSRR +    K+ SG+ + +AEVVRDL R D +   
Sbjct: 61  VVGAEGLTEVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRDRERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A + +V E+A   + ++ +A  L++  L+  
Sbjct: 121 SAGEKRMLTKARDILVGEVALAEASTKDDAEVLLDKVLAEA 161


>gi|188584806|ref|YP_001916351.1| transcriptional regulator, CarD family [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|179349493|gb|ACB83763.1| transcriptional regulator, CarD family [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 161

 Score =  211 bits (538), Expect = 3e-53,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 87/161 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  ++E+EV G K  ++++      M + +P  +   IG+R++
Sbjct: 1   MFKKGDKVVYPMHGAGVIEGVEEREVLGKKHMYYIMKIPVGDMKVMIPKERVDAIGLREI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            + + V++ L +++ +       W++R +    KI SGD+  +AEV+R+L   D +   S
Sbjct: 61  VDKNSVKKVLAILKAEETNVNHNWNQRYRANLEKIRSGDIYQVAEVIRNLVFLDDEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             E+++ E+A   +V E+     I E +A  +I   L + S
Sbjct: 121 TGEKKMLENAKQILVSELVLAKDIEEEQAHEIINDTLLTTS 161


>gi|116669291|ref|YP_830224.1| CarD family transcriptional regulator [Arthrobacter sp. FB24]
 gi|119961222|ref|YP_946691.1| CarD-like transcriptional regulator [Arthrobacter aurescens TC1]
 gi|220911627|ref|YP_002486936.1| CarD family transcripitonal regulator [Arthrobacter
           chlorophenolicus A6]
 gi|116609400|gb|ABK02124.1| transcriptional regulator, CarD family [Arthrobacter sp. FB24]
 gi|119948081|gb|ABM06992.1| putative CarD-like transcriptional regulator [Arthrobacter
           aurescens TC1]
 gi|219858505|gb|ACL38847.1| transcriptional regulator, CarD family [Arthrobacter
           chlorophenolicus A6]
          Length = 160

 Score =  211 bits (538), Expect = 3e-53,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 81/160 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MVFEVGETVVYPHHGAAKIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R D     
Sbjct: 61  VVGKEGLEHVFDVLRAEFTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRRDHDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   ++ E+A      E +A ++++  L+S
Sbjct: 121 SAGEKRMLAKARQILISELALAEKTDEEKAASVLDEVLAS 160


>gi|158319511|ref|YP_001512018.1| CarD family transcriptional regulator [Alkaliphilus oremlandii
           OhILAs]
 gi|158139710|gb|ABW18022.1| transcriptional regulator, CarD family [Alkaliphilus oremlandii
           OhILAs]
          Length = 167

 Score =  211 bits (538), Expect = 4e-53,   Method: Composition-based stats.
 Identities = 47/157 (29%), Positives = 84/157 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  GE +VYP HG G I  I+E+E+ G + +++++      M + +P+ +  DIG+RK+
Sbjct: 1   MFNIGEKVVYPIHGAGVIESIEEREILGERRKYYIMKMPIGDMQVMIPLDQIDDIGIRKV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +   L+++          W+RR +     I +GD+  +A+VVR+L   + +   S
Sbjct: 61  IDVEEIGSVLEILASDTTKMHQNWNRRYRANMDLIKTGDIYEVADVVRNLTLMEKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             ER++  +A   ++ EI  V  ISE EA  L+E  +
Sbjct: 121 TGERKMLNNARQILLSEIVLVAEISEEEASKLVEKVI 157


>gi|326332061|ref|ZP_08198346.1| transcriptional regulator, CarD family [Nocardioidaceae bacterium
           Broad-1]
 gi|325950199|gb|EGD42254.1| transcriptional regulator, CarD family [Nocardioidaceae bacterium
           Broad-1]
          Length = 161

 Score =  211 bits (538), Expect = 4e-53,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 87/161 (54%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I +I+ + + G + ++ V+    +  + ++VP      +G+R
Sbjct: 1   MTFTVGETVVYPNHGAAVIEDIEMRTIKGEERQYLVLRIIAQQDLVVRVPANNLELVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +   ++R  +++R +   + T WSRR +    K++SGD++ +AEVVRDL R +    
Sbjct: 61  DVVDKDGLDRVFEVLRAEHVEEPTNWSRRYKANLEKLHSGDVMKVAEVVRDLWRRERDRG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 121 LSAGEKRMLAKARQILVSELALCEHTNEDKAEVLLDEVLAS 161


>gi|84498455|ref|ZP_00997225.1| transcriptional regulator, CarD-like regulator [Janibacter sp.
           HTCC2649]
 gi|84381198|gb|EAP97082.1| transcriptional regulator, CarD-like regulator [Janibacter sp.
           HTCC2649]
          Length = 160

 Score =  211 bits (537), Expect = 4e-53,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 84/160 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I EI ++ + G++  +  +   +  + ++VP      +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAARIEEINKRTIKGVERLYLKLKVAQGDLVIEVPAENCDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E+  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D     
Sbjct: 61  VVDKAGLEKVFEVLRAPFAEEPTNWSRRFKANLEKLASGDVIKVAEVVRDLWRRDKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 121 SAGEKRMLSKARQILVSELALAEKTDEEKAETILDEVLAS 160


>gi|119718259|ref|YP_925224.1| CarD family transcriptional regulator [Nocardioides sp. JS614]
 gi|119538920|gb|ABL83537.1| transcriptional regulator, CarD family [Nocardioides sp. JS614]
          Length = 161

 Score =  211 bits (537), Expect = 4e-53,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 85/161 (52%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I +I+ +++ G   ++ V+    +  + ++VP      +G+R
Sbjct: 1   MTFTVGETVVYPNHGAAVIEDIEMRKIKGEDRQYLVLRIVAQQDLVVRVPACNLDLVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +   ++R   ++R     + T WSRR +    K++SGD++ +AEVVRDL R +    
Sbjct: 61  DVVDKEGLDRVFDVLRAAHVEEPTNWSRRYKANLEKLHSGDVMKVAEVVRDLWRRERDRG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A     +E +A  L++  L+S
Sbjct: 121 LSAGEKRMLAKARQILVSELALAEHTNEDKAEALLDEVLAS 161


>gi|89893187|ref|YP_516674.1| hypothetical protein DSY0441 [Desulfitobacterium hafniense Y51]
 gi|219666460|ref|YP_002456895.1| CarD family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|89332635|dbj|BAE82230.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219536720|gb|ACL18459.1| transcriptional regulator, CarD family [Desulfitobacterium
           hafniense DCB-2]
          Length = 158

 Score =  211 bits (537), Expect = 5e-53,   Method: Composition-based stats.
 Identities = 45/158 (28%), Positives = 84/158 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+EV G   +++V+      M + +P+     +G+R +
Sbjct: 1   MFDIGDRVVYPMHGAGIIEAIEEREVLGESHQYYVMNIPVGNMKVYIPLKNVNQLGIRGV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             +  V + LK++  ++ +    W+RR +    +I SGD+ ++AEVVR L + D +   S
Sbjct: 61  ISSEEVPQVLKILENESTLPALAWNRRYRANMDRIKSGDIYSVAEVVRSLSQRDREKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             E+++Y++A   +V E+     +   E    I+  L+
Sbjct: 121 TGEKKMYDNAYQILVSELILAEGVQADEMSERIKGLLA 158


>gi|150392190|ref|YP_001322239.1| CarD family transcriptional regulator [Alkaliphilus metalliredigens
           QYMF]
 gi|149952052|gb|ABR50580.1| transcriptional regulator, CarD family [Alkaliphilus
           metalliredigens QYMF]
          Length = 159

 Score =  210 bits (536), Expect = 6e-53,   Method: Composition-based stats.
 Identities = 45/156 (28%), Positives = 77/156 (49%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ IVYP HG G I  I+E+E+ G K +++++      M + +P+    ++G+R +
Sbjct: 1   MFNIGDKIVYPMHGAGVIEAIEEKEILGKKRKYYIMKMPLGDMQVMIPLDHIEEVGIRSI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                VE+   ++          W+RR +     I  GD+ A+AEVVR+L   D +   S
Sbjct: 61  IGLAEVEQVFAVLAADTTKMPQNWNRRYRANMDLIKGGDIYAVAEVVRNLLLRDREKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             ER++  +A   +V E+       E E ++ IE  
Sbjct: 121 TGERKMLNNAKQILVSEVVLSTDKEEQEVLDWIENV 156


>gi|328908150|gb|EGG27909.1| putative transcriptional regulator [Propionibacterium sp. P08]
          Length = 161

 Score =  210 bits (536), Expect = 6e-53,   Method: Composition-based stats.
 Identities = 42/161 (26%), Positives = 86/161 (53%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP      +G+R
Sbjct: 1   MTFNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRILGQNDLVVRVPASNLDLVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +   +E+  +++R     + + WSRR +    K++SG+++ +AEVVRDL R +    
Sbjct: 61  DVVDDEGLEKVFEILRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRRERDRG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A    + + +A  +++  L+S
Sbjct: 121 LSAGEKRMLSKARQILVSELALAKRVEDDQAEEMLDEVLAS 161


>gi|332669115|ref|YP_004452123.1| CarD family transcriptional regulator [Cellulomonas fimi ATCC 484]
 gi|332338153|gb|AEE44736.1| transcriptional regulator, CarD family [Cellulomonas fimi ATCC 484]
          Length = 160

 Score =  210 bits (536), Expect = 6e-53,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 81/160 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G    +  +   +  + ++VP      +G+R 
Sbjct: 1   MTFTVGETVVYPHHGAALIEEIKTRTIRGEDKIYLKLKVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D+    
Sbjct: 61  VVGQEGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLSRRDADRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEHTEEEKAEAILDEVLAS 160


>gi|229087271|ref|ZP_04219415.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-44]
 gi|228696061|gb|EEL48902.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-44]
          Length = 164

 Score =  210 bits (535), Expect = 7e-53,   Method: Composition-based stats.
 Identities = 46/157 (29%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+++EV G   ++ VI      M + +P+ K    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEDKEVLGKTRQYCVIHMVISDMQVMIPMDKVATSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           + + +   L             W +R      K+ +GDL   AEVVRDL R + +   + 
Sbjct: 67  DKNTLNDVLVGFHNGEADSSLSWKQRYTMNMEKMKNGDLSDGAEVVRDLIRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   ++ E+A V ++SE +A + ++  ++
Sbjct: 127 SEKQMLDNARRILISEVALVQNVSENQATDFLQDTIN 163


>gi|302870278|ref|YP_003838915.1| transcription factor CarD [Micromonospora aurantiaca ATCC 27029]
 gi|315503446|ref|YP_004082333.1| transcriptional regulator, card family [Micromonospora sp. L5]
 gi|302573137|gb|ADL49339.1| transcription factor CarD [Micromonospora aurantiaca ATCC 27029]
 gi|315410065|gb|ADU08182.1| transcriptional regulator, CarD family [Micromonospora sp. L5]
          Length = 161

 Score =  210 bits (535), Expect = 7e-53,   Method: Composition-based stats.
 Identities = 45/161 (27%), Positives = 82/161 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I  I+ + + G   E+ V+   +  + ++VP   A  +G+R+
Sbjct: 1   MVFSVGETVVYPHHGAALIEAIETRVIKGEPREYLVLRVAQGDLTVRVPAENAEIVGVRE 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     + T WSRR +    K+ SG+ + +AEVVRDL R + +   
Sbjct: 61  VVGEEGLGKVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A + +V E+A     ++ EA  L++  L+  
Sbjct: 121 SAGEKRMLAKARDILVGEVALAEKSTKDEAETLLDKVLTEA 161


>gi|238061419|ref|ZP_04606128.1| CarD family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|330470463|ref|YP_004408206.1| transcriptional regulator, card family protein [Verrucosispora
           maris AB-18-032]
 gi|237883230|gb|EEP72058.1| CarD family transcriptional regulator [Micromonospora sp. ATCC
           39149]
 gi|328813434|gb|AEB47606.1| transcriptional regulator, card family protein [Verrucosispora
           maris AB-18-032]
          Length = 161

 Score =  210 bits (535), Expect = 7e-53,   Method: Composition-based stats.
 Identities = 44/161 (27%), Positives = 82/161 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I  I+ + + G   ++ V+   +  + ++VP   A  +G+R+
Sbjct: 1   MVFSVGETVVYPHHGAALIEAIETRVIKGEPKQYLVLRVAQGDLTVRVPAENAEIVGVRE 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     + T WSRR +    K+ SG+ + +AEVVRDL R + +   
Sbjct: 61  VVGEEGLGKVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A + +V E+A     ++ EA  L++  L+  
Sbjct: 121 SAGEKRMLAKARDILVGEVALAEKSTKDEAETLLDKVLTEA 161


>gi|295691061|ref|YP_003594754.1| CarD family transcriptional regulator [Caulobacter segnis ATCC
           21756]
 gi|295432964|gb|ADG12136.1| transcriptional regulator, CarD family [Caulobacter segnis ATCC
           21756]
          Length = 167

 Score =  210 bits (535), Expect = 8e-53,   Method: Composition-based stats.
 Identities = 99/167 (59%), Positives = 123/167 (73%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                  F  G+H+VYPAHGVG I  I+ QEVAGM LE +VI FD +KM L+VP  KA  
Sbjct: 1   MSKTGLEFSVGDHVVYPAHGVGNIQAIETQEVAGMSLEVYVITFDHEKMTLRVPTKKAKT 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R L+E   V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR +
Sbjct: 61  AGLRPLAEGGTVSQALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAE 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           +QPE+SYSERQLYESAL+RM RE+AA+  I    AI ++  +L   +
Sbjct: 121 NQPEQSYSERQLYESALDRMAREVAAIERIDREAAIGILTKSLVKAA 167


>gi|269796457|ref|YP_003315912.1| CarD family transcriptional regulator [Sanguibacter keddieii DSM
           10542]
 gi|269098642|gb|ACZ23078.1| transcriptional regulator, CarD family [Sanguibacter keddieii DSM
           10542]
          Length = 160

 Score =  209 bits (534), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 49/160 (30%), Positives = 81/160 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G    +  +   +  + ++VP      +G+R 
Sbjct: 1   MTFTVGETVVYPHHGAALIEEIKTRTIRGEDKLYLKLKVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    
Sbjct: 61  VVGQEGLDRVFEVLRAPYTEEPTNWSRRYKANVEKIASGDVIKVAEVVRDLSRRDADRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 121 SAGEKRMLARARQILVSELALAEHTEEEKAEAILDEVLAS 160


>gi|126727502|ref|ZP_01743336.1| putative CarD-like transcriptional regulator [Rhodobacterales
           bacterium HTCC2150]
 gi|126703282|gb|EBA02381.1| putative CarD-like transcriptional regulator [Rhodobacterales
           bacterium HTCC2150]
          Length = 172

 Score =  209 bits (534), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 99/164 (60%), Positives = 123/164 (75%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
              FR  E +VYPAHGVG I  I++QE+AG+++E FV+AF+KDKM L+VP  KA+ +GMR
Sbjct: 6   NYAFRPNEFVVYPAHGVGQIVRIEDQEIAGIEMELFVVAFEKDKMTLRVPTEKALHVGMR 65

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            LS    V RA+  ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E
Sbjct: 66  SLSSPETVTRAMTTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDEQRE 125

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +SYSERQLYE+AL R+ RE+AAV    E  A   I+  L S++ 
Sbjct: 126 QSYSERQLYEAALERLTREVAAVGGTDEVVAGQQIDGVLMSRAP 169


>gi|144899571|emb|CAM76435.1| Transcription factor CarD-like [Magnetospirillum gryphiswaldense
           MSR-1]
          Length = 164

 Score =  209 bits (534), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 86/160 (53%), Positives = 118/160 (73%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG +  I+ QE+ GMKL+ FVI F++D+M L+VPV KA   G+RKL
Sbjct: 5   SFAEGDYVVYPTHGVGQVMAIENQEIGGMKLQLFVITFERDRMTLRVPVAKATKSGLRKL 64

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    ++ AL  ++G+A+VKRTMWSRRAQEY+AKINSGD ++IAEVVRDL+R  +QP++S
Sbjct: 65  SSRKDMDTALSTLKGRAKVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLYRNANQPDQS 124

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           YSERQ+YE+AL R+  E+AAV  I    A   +   L++ 
Sbjct: 125 YSERQIYEAALERLAAELAAVEGIDAEAAAAKLCELLAAA 164


>gi|126729325|ref|ZP_01745139.1| transcriptional regulator, CarD family protein [Sagittula stellata
           E-37]
 gi|126710315|gb|EBA09367.1| transcriptional regulator, CarD family protein [Sagittula stellata
           E-37]
          Length = 171

 Score =  209 bits (534), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 98/166 (59%), Positives = 124/166 (74%), Gaps = 1/166 (0%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A +  FR  +++VYPAHGVG I  I+EQE+AG+ LE FVI+F+KDKM L+VP  KA ++G
Sbjct: 7   AKKAEFRPNDYVVYPAHGVGQIVSIEEQEIAGISLELFVISFEKDKMTLRVPTHKASEVG 66

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    V  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D Q
Sbjct: 67  MRSLSSPDVVSEAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRADDQ 126

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE+AL R+ RE+AAV    E  A   ++  L  +++
Sbjct: 127 REQSYSERQLYEAALERLTREVAAVTG-DEAAAAKQVDEVLGLRAA 171


>gi|83859720|ref|ZP_00953240.1| hypothetical protein OA2633_06964 [Oceanicaulis alexandrii
           HTCC2633]
 gi|83852079|gb|EAP89933.1| hypothetical protein OA2633_06964 [Oceanicaulis alexandrii
           HTCC2633]
          Length = 172

 Score =  209 bits (534), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 91/170 (53%), Positives = 128/170 (75%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K     + F+  +++VYPAHGVG +  ++++ VAG  +E +V++F++DKM L+VP  KA
Sbjct: 3   KKSANDNKTFKKSDYVVYPAHGVGRVVGVEKESVAGFDIEVYVVSFEQDKMTLRVPTAKA 62

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              GMR L+    ++ ALK ++GK +VKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR
Sbjct: 63  TAAGMRPLASDDVLKDALKTLKGKPKVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHR 122

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            + QPE SYSERQLYESAL+RMVRE+AAV  +   +A+ ++   L+ K++
Sbjct: 123 QEDQPEPSYSERQLYESALDRMVREVAAVEKVDREKALEMLTTTLTKKAA 172


>gi|269957734|ref|YP_003327523.1| CarD family transcriptional regulator [Xylanimonas cellulosilytica
           DSM 15894]
 gi|269306415|gb|ACZ31965.1| transcriptional regulator, CarD family [Xylanimonas cellulosilytica
           DSM 15894]
          Length = 160

 Score =  209 bits (533), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 83/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MTFEVGETVVYPHHGAALIEEIKVRTIRGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D+    
Sbjct: 61  VVDQQGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLSRRDADRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 121 SAGEKRMLSKARQILVSELALAEHTEEDKAEAILDEVLAS 160


>gi|145596771|ref|YP_001161068.1| transcription factor CarD [Salinispora tropica CNB-440]
 gi|159040183|ref|YP_001539436.1| CarD family transcriptional regulator [Salinispora arenicola
           CNS-205]
 gi|145306108|gb|ABP56690.1| transcriptional regulator, CarD family [Salinispora tropica
           CNB-440]
 gi|157919018|gb|ABW00446.1| transcriptional regulator, CarD family [Salinispora arenicola
           CNS-205]
          Length = 161

 Score =  209 bits (533), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 44/161 (27%), Positives = 83/161 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I  I+ + + G + ++ V+   +  + ++VP   A  +G+R+
Sbjct: 1   MVFSVGETVVYPHHGAALIEAIETRVIKGEEKQYLVLRVAQGDLTVRVPAENAEIVGVRE 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     + T WSRR +    K+ SG+ + +AEVVRDL R + +   
Sbjct: 61  VVGEEGLGKVFDVLRAPHTEEPTNWSRRYKANLEKLASGNPLKVAEVVRDLWRRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A + +V E+A     ++ EA  L++  L+  
Sbjct: 121 SAGEKRMLAKARDILVGEVALAEKSTKDEAETLLDKVLTEA 161


>gi|225022144|ref|ZP_03711336.1| hypothetical protein CORMATOL_02177 [Corynebacterium matruchotii
           ATCC 33806]
 gi|224945077|gb|EEG26286.1| hypothetical protein CORMATOL_02177 [Corynebacterium matruchotii
           ATCC 33806]
          Length = 235

 Score =  209 bits (533), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 77/157 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+++E+ G  LE+ V+   +  + ++VP   A  +G+R 
Sbjct: 40  MEFKVGDTVVYPHHGAAVIEAIEQREMGGETLEYLVLQIHQSDLVVRVPSKNAETVGVRD 99

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 100 VVGEAGLRKVFGFLRETDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGKGL 159

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           S  E+++   A   +V E+A      E +A  L+   
Sbjct: 160 SAGEKRMLAKARQVLVGELALAEIKDEAKANELLAEV 196


>gi|308176321|ref|YP_003915727.1| CarD transcriptional regulator-like protein [Arthrobacter
           arilaitensis Re117]
 gi|307743784|emb|CBT74756.1| CarD transcriptional regulator-like protein [Arthrobacter
           arilaitensis Re117]
          Length = 161

 Score =  209 bits (532), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 84/161 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK +++ G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MVFEVGETVVYPHHGAAMIEEIKMRKIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++    ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R ++    
Sbjct: 61  VVGQEGLDHVFDVLRAEFTEEPTNWSRRYKANVEKLASGDVIKVAEVVRDLWRRENDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   ++ E+A    + E +A +L++  L+S 
Sbjct: 121 SAGEKRMLAKARQVLISELALAKDLDEAKAESLLDEVLASA 161


>gi|50841843|ref|YP_055070.1| putative transcriptional regulator [Propionibacterium acnes
           KPA171202]
 gi|289424334|ref|ZP_06426117.1| CarD-like protein [Propionibacterium acnes SK187]
 gi|289428813|ref|ZP_06430493.1| CarD-like protein [Propionibacterium acnes J165]
 gi|295129919|ref|YP_003580582.1| CarD-like protein [Propionibacterium acnes SK137]
 gi|50839445|gb|AAT82112.1| putative transcriptional regulator [Propionibacterium acnes
           KPA171202]
 gi|289155031|gb|EFD03713.1| CarD-like protein [Propionibacterium acnes SK187]
 gi|289157814|gb|EFD06037.1| CarD-like protein [Propionibacterium acnes J165]
 gi|291375973|gb|ADD99827.1| CarD-like protein [Propionibacterium acnes SK137]
 gi|313765551|gb|EFS36915.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL013PA1]
 gi|313772900|gb|EFS38866.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL074PA1]
 gi|313793078|gb|EFS41145.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA1]
 gi|313802474|gb|EFS43696.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA2]
 gi|313806489|gb|EFS44996.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL087PA2]
 gi|313811040|gb|EFS48754.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL083PA1]
 gi|313814459|gb|EFS52173.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL025PA1]
 gi|313815048|gb|EFS52762.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL059PA1]
 gi|313817358|gb|EFS55072.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL046PA2]
 gi|313821898|gb|EFS59612.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL036PA1]
 gi|313824206|gb|EFS61920.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL036PA2]
 gi|313826574|gb|EFS64288.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL063PA1]
 gi|313828758|gb|EFS66472.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL063PA2]
 gi|313831803|gb|EFS69517.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL007PA1]
 gi|313834653|gb|EFS72367.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL056PA1]
 gi|313840116|gb|EFS77830.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL086PA1]
 gi|314915809|gb|EFS79640.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA4]
 gi|314917081|gb|EFS80912.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL050PA1]
 gi|314921357|gb|EFS85188.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL050PA3]
 gi|314922287|gb|EFS86118.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL001PA1]
 gi|314926712|gb|EFS90543.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL036PA3]
 gi|314931320|gb|EFS95151.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL067PA1]
 gi|314954856|gb|EFS99262.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL027PA1]
 gi|314958792|gb|EFT02894.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL002PA1]
 gi|314961081|gb|EFT05182.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL002PA2]
 gi|314964491|gb|EFT08591.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL082PA1]
 gi|314965395|gb|EFT09494.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL082PA2]
 gi|314969590|gb|EFT13688.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL037PA1]
 gi|314974656|gb|EFT18751.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL053PA1]
 gi|314977148|gb|EFT21243.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL045PA1]
 gi|314980436|gb|EFT24530.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL072PA2]
 gi|314982506|gb|EFT26599.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA3]
 gi|314985754|gb|EFT29846.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA1]
 gi|314987277|gb|EFT31368.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA2]
 gi|314989179|gb|EFT33270.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL005PA3]
 gi|315078494|gb|EFT50525.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL053PA2]
 gi|315082043|gb|EFT54019.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL078PA1]
 gi|315082817|gb|EFT54793.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL027PA2]
 gi|315086173|gb|EFT58149.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL002PA3]
 gi|315087758|gb|EFT59734.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL072PA1]
 gi|315091050|gb|EFT63026.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL110PA4]
 gi|315094138|gb|EFT66114.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL060PA1]
 gi|315097488|gb|EFT69464.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL038PA1]
 gi|315099939|gb|EFT71915.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL059PA2]
 gi|315101748|gb|EFT73724.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL046PA1]
 gi|315104787|gb|EFT76763.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL050PA2]
 gi|315106406|gb|EFT78382.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL030PA1]
 gi|315110296|gb|EFT82272.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL030PA2]
 gi|327329340|gb|EGE71100.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL103PA1]
 gi|327331426|gb|EGE73165.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL096PA2]
 gi|327333413|gb|EGE75133.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL096PA3]
 gi|327334936|gb|EGE76647.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL097PA1]
 gi|327445569|gb|EGE92223.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL013PA2]
 gi|327447189|gb|EGE93843.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL043PA1]
 gi|327449777|gb|EGE96431.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL043PA2]
 gi|327454626|gb|EGF01281.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL087PA3]
 gi|327456698|gb|EGF03353.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL083PA2]
 gi|327457026|gb|EGF03681.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL092PA1]
 gi|328755681|gb|EGF69297.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL087PA1]
 gi|328756461|gb|EGF70077.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL025PA2]
 gi|328758809|gb|EGF72425.1| CarD-like transcriptional regulator [Propionibacterium acnes
           HL020PA1]
 gi|328761841|gb|EGF75353.1| transcriptional regulator, CarD family [Propionibacterium acnes
           HL099PA1]
 gi|332674759|gb|AEE71575.1| putative transcriptional regulator [Propionibacterium acnes 266]
          Length = 161

 Score =  209 bits (532), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 42/161 (26%), Positives = 85/161 (52%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP      +G+R
Sbjct: 1   MTFNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRILGQNDLVVRVPASNLDLVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +   +E   +++R     + + WSRR +    K++SG+++ +AEVVRDL R +    
Sbjct: 61  DVVDDEGLENVFEVLRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRRERDRG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A    +++  A  +++  L+S
Sbjct: 121 LSAGEKRMLSKARQILVSELALAKKVADDRAEEMLDEVLAS 161


>gi|125975421|ref|YP_001039331.1| CarD family transcriptional regulator [Clostridium thermocellum
           ATCC 27405]
 gi|256005283|ref|ZP_05430249.1| transcriptional regulator, CarD family [Clostridium thermocellum
           DSM 2360]
 gi|281419382|ref|ZP_06250397.1| transcriptional regulator, CarD family [Clostridium thermocellum
           JW20]
 gi|125715646|gb|ABN54138.1| transcriptional regulator, CarD family [Clostridium thermocellum
           ATCC 27405]
 gi|255990719|gb|EEU00835.1| transcriptional regulator, CarD family [Clostridium thermocellum
           DSM 2360]
 gi|281407002|gb|EFB37265.1| transcriptional regulator, CarD family [Clostridium thermocellum
           JW20]
 gi|316939546|gb|ADU73580.1| transcriptional regulator, CarD family [Clostridium thermocellum
           DSM 1313]
          Length = 158

 Score =  209 bits (532), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 44/158 (27%), Positives = 84/158 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +  G+ IVYP HG G I  I+E+E+ G K  ++V+     +M + +P+     IG+R++
Sbjct: 1   MYNIGDKIVYPMHGAGVIESIEEREILGKKQSYYVVKIPIGEMKVLIPIKNVDGIGIREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 ++   +++ KA    T W++R +E  +KI SG++  +A+VVR L   D     S
Sbjct: 61  ISEEDADKVFLILKNKALPSNTNWNKRYRENMSKIKSGNIFEVADVVRCLMLRDKLKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             E+++  SA   ++ E+    +++  E   +I+  +S
Sbjct: 121 TGEKKMLNSAKQILISELVLAKNMNPMEIEGMIDKYIS 158


>gi|312144273|ref|YP_003995719.1| transcriptional regulator, CarD family [Halanaerobium sp.
           'sapolanicus']
 gi|311904924|gb|ADQ15365.1| transcriptional regulator, CarD family [Halanaerobium sp.
           'sapolanicus']
          Length = 166

 Score =  209 bits (532), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 40/155 (25%), Positives = 77/155 (49%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++ G+ +VYP HG GTI  I+ + +   K +++++     +M + +PV K   IG+R +
Sbjct: 1   MYKIGDKVVYPNHGAGTIVGIETKTILDEKKKYYIMKLPIGEMKVMIPVDKIDKIGIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                     KL+ G+       W+RR +    K+ +GD+  +AEVVR+L   D +   S
Sbjct: 61  ISEEKANDVFKLLNGEKSKMSQNWNRRYRANQEKLKTGDIFEVAEVVRNLSIRDREKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             E+++  +A   ++ E+     + E E    ++ 
Sbjct: 121 TGEKKMLSNARKILISELVLAKDMDEEEIAEKMDD 155


>gi|256833291|ref|YP_003162018.1| transcriptional regulator, CarD family [Jonesia denitrificans DSM
           20603]
 gi|256686822|gb|ACV09715.1| transcriptional regulator, CarD family [Jonesia denitrificans DSM
           20603]
          Length = 161

 Score =  208 bits (530), Expect = 3e-52,   Method: Composition-based stats.
 Identities = 48/161 (29%), Positives = 80/161 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G    +  +   +  + ++VP      +G+R 
Sbjct: 1   MSFTVGETVVYPHHGAALIEEIKTRTIRGEDKTYLKLRVAQGDLVIEVPAENIDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++   +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    
Sbjct: 61  VVGKEGLDEVFEVLRAPYTEEPTNWSRRYKANVEKIASGDVIKVAEVVRDLSRRDTDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A      E +A  +++  L+S 
Sbjct: 121 SAGEKRMLSRARQILVSELALAERTEEDKAEAILDEVLASS 161


>gi|296284819|ref|ZP_06862817.1| transcriptional regulator [Citromicrobium bathyomarinum JL354]
          Length = 182

 Score =  208 bits (530), Expect = 3e-52,   Method: Composition-based stats.
 Identities = 89/176 (50%), Positives = 127/176 (72%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A    F  G+++VYP HGVG + E++ +E+AGM+LE +V+ F+K++M L+VPV K   
Sbjct: 6   MAAKALAFDVGDYVVYPKHGVGRVVELQSEEIAGMQLELYVLRFEKERMTLRVPVNKVEA 65

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           IGMRKLS    ++ A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D
Sbjct: 66  IGMRKLSSDKTLKEAMETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRPD 125

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
            QPE+SYSERQ++E+A +R+ RE+AA+    EP A+  I   L   + +  ++T E
Sbjct: 126 DQPEQSYSERQIFEAASSRLARELAAMEKTDEPAALEKILSVLREHAPQYYENTEE 181


>gi|329848406|ref|ZP_08263434.1| carD-like/TRCF domain protein [Asticcacaulis biprosthecum C19]
 gi|328843469|gb|EGF93038.1| carD-like/TRCF domain protein [Asticcacaulis biprosthecum C19]
          Length = 172

 Score =  208 bits (530), Expect = 3e-52,   Method: Composition-based stats.
 Identities = 93/171 (54%), Positives = 123/171 (71%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
                   R  F  G+ +VYPAHGVGT+  ++ QEVAG  LE FV+ FD +KM L+VP  
Sbjct: 2   SADTLTLSRFDFSVGDKVVYPAHGVGTVAAVETQEVAGYALEVFVVTFDHEKMTLRVPTK 61

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
           KA   G+R L+    + +AL  ++G+AR+KRTMWSRRAQEY+AKINSG L+++AEVVRDL
Sbjct: 62  KAKTAGLRHLAAEAVMSQALVTLKGRARIKRTMWSRRAQEYEAKINSGCLVSLAEVVRDL 121

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           +R+DSQPE+SYSERQLYESAL+RM RE+AA+  I    A+ L+  NL+  +
Sbjct: 122 YRSDSQPEQSYSERQLYESALDRMAREVAAIEKIDRDAAVALLNKNLTKAA 172


>gi|309389958|gb|ADO77838.1| transcriptional regulator, CarD family [Halanaerobium praevalens
           DSM 2228]
          Length = 168

 Score =  208 bits (530), Expect = 3e-52,   Method: Composition-based stats.
 Identities = 39/165 (23%), Positives = 78/165 (47%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++ G+ +VYP HG GTI  I  + +   K E++++     +M + +PV K   IG+R +
Sbjct: 1   MYKIGDKVVYPNHGAGTIVGIDTKTILDEKKEYYIMKLPIGEMKVMIPVDKIDKIGIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +   +L+ G+       W+RR +    K+ +GD+  +AEVVR+L   D     S
Sbjct: 61  ISEEKADEVFELLDGEKSKMSQNWNRRFRANQEKLKTGDIFEVAEVVRNLSIRDRDKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
             E+++  +A   ++ E+     + E      ++   +    + +
Sbjct: 121 TGEKKMLSNARQILISELVLAKDMDEESVSEKMDDLFTLSEEEVD 165


>gi|88855757|ref|ZP_01130420.1| transcriptional regulator, CarD-like regulator [marine
           actinobacterium PHSC20C1]
 gi|88815081|gb|EAR24940.1| transcriptional regulator, CarD-like regulator [marine
           actinobacterium PHSC20C1]
          Length = 160

 Score =  208 bits (530), Expect = 3e-52,   Method: Composition-based stats.
 Identities = 46/160 (28%), Positives = 84/160 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TITE+K++ + G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MLFEVGETVVYPHHGAATITEVKKRTIKGEEKIYLKLNVTQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    K+ SGD+I ++EVVRDL R D     
Sbjct: 61  VIGREGLDQVFEVLRAPFTEEPTNWSRRYKANLEKLASGDVIKVSEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   ++ E+A      E +A  +++  L+S
Sbjct: 121 SAGEKRMLAKARQILISELALAEKTDEEKASLVLDEVLAS 160


>gi|323359180|ref|YP_004225576.1| CarD family transcriptional regulator [Microbacterium testaceum
           StLB037]
 gi|323275551|dbj|BAJ75696.1| transcriptional regulator, similar to M. xanthus CarD
           [Microbacterium testaceum StLB037]
          Length = 160

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 81/160 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TI E+KE+ + G   ++  +   +  + ++VP      +G+R 
Sbjct: 1   MLFEVGETVVYPHHGAATIIEVKERVIKGETKKYLKLNVTQGDLVIEVPADNVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R   ++R     + T WSRR +    K+ SGD+I ++EVVRDL R D     
Sbjct: 61  VIGKEGLDRVFDVLRAPFTEEPTNWSRRYKANLEKLASGDVIKVSEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E  A  +++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTDEDRASVVLDEVLAS 160


>gi|56551117|ref|YP_161956.1| CarD family transcriptional regulator [Zymomonas mobilis subsp.
           mobilis ZM4]
 gi|241761475|ref|ZP_04759563.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
 gi|260753230|ref|YP_003226123.1| CarD family transcriptional regulator [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
 gi|56542691|gb|AAV88845.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis ZM4]
 gi|241374382|gb|EER63879.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
 gi|258552593|gb|ACV75539.1| transcriptional regulator, CarD family [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
          Length = 184

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 85/182 (46%), Positives = 130/182 (71%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             +    F  G+++VYP HGVG + E++ QE+AG +LE +V+ F+K++M L+VP  KA  
Sbjct: 1   MASKALSFVVGDYVVYPKHGVGRVVELQSQEIAGTRLELYVLRFEKERMTLRVPTNKAEA 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKLS +  ++ A++ ++GK R+KRTMWSRRAQEY+ KINSGDL++IAEVVRDL R D
Sbjct: 61  VGMRKLSSSATLQEAIQTLKGKPRIKRTMWSRRAQEYETKINSGDLVSIAEVVRDLFRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDK 186
            QPE+SYSERQ++E A +R+ RE+ A+ +  E +A++ I   L + +++  ++  E   +
Sbjct: 121 DQPEQSYSERQIFEGAASRLARELGAMENTDEAQALDKIFDVLKAAAAEHRQAVKELAKE 180

Query: 187 AA 188
            A
Sbjct: 181 EA 182


>gi|310815308|ref|YP_003963272.1| transcriptional regulator, CarD family protein [Ketogulonicigenium
           vulgare Y25]
 gi|308754043|gb|ADO41972.1| transcriptional regulator, CarD family protein [Ketogulonicigenium
           vulgare Y25]
          Length = 169

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 103/166 (62%), Positives = 124/166 (74%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  F   ++IVYPAHGVG I  I+EQEVAG KLE FVIAF+KDKM L+VP  KAI+IG
Sbjct: 4   SKKPEFHPNDYIVYPAHGVGQILSIEEQEVAGFKLELFVIAFEKDKMTLRVPTNKAIEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR L+ +  V+ ALK ++GKA+VK+ MWSRRAQEYD KINSGDLIAIAEVVRDLHR D Q
Sbjct: 64  MRALASSDVVDHALKTLKGKAKVKKAMWSRRAQEYDEKINSGDLIAIAEVVRDLHRADDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            E+SYSERQLYE AL R+ RE+AAVN   E      I   L  +++
Sbjct: 124 REQSYSERQLYERALERLTRELAAVNGKDEVSMAREIGTLLVGRAA 169


>gi|87198150|ref|YP_495407.1| CarD family transcriptional regulator [Novosphingobium
           aromaticivorans DSM 12444]
 gi|87133831|gb|ABD24573.1| transcriptional regulator, CarD family [Novosphingobium
           aromaticivorans DSM 12444]
          Length = 174

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 88/174 (50%), Positives = 124/174 (71%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                  F  G+++VYP HGVG + E++++E+AGMKL+ +V+ F+K++M L+VPV K   
Sbjct: 1   MAGKALAFDVGDYVVYPKHGVGRVVELQDEEIAGMKLQLYVLRFEKERMTLRVPVNKVEA 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           IGMRKLS    +  AL  ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D
Sbjct: 61  IGMRKLSSDKTLREALDTLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
            QPE+SYSERQ++E+A +R+ RE+AA+    EP A+  I   L+  + K  ++ 
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEKTDEPAALKKILAILNEHAPKYYETA 174


>gi|282853418|ref|ZP_06262755.1| CarD-like protein [Propionibacterium acnes J139]
 gi|282582871|gb|EFB88251.1| CarD-like protein [Propionibacterium acnes J139]
          Length = 161

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 42/161 (26%), Positives = 85/161 (52%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I +I+ + + G +  + V+    ++ + ++VP      +G+R
Sbjct: 1   MTFNVGETVVYPNHGAAVIEDIETRTIKGEEKLYLVLRVLGQNDLVVRVPASNLDLVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +   +E   +++R     + + WSRR +    K++SG+++ +AEVVRDL R +    
Sbjct: 61  DVVDDEGLENVFEVLRKTNVEEPSNWSRRYKANLEKLHSGNVLKVAEVVRDLWRRERDRG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A    +++  A  +++  L+S
Sbjct: 121 LSAGEKRMLSKARQILVSELALAKKVADDRAEEMLDEVLAS 161


>gi|255325865|ref|ZP_05366957.1| transcriptional regulator, CarD family [Corynebacterium
           tuberculostearicum SK141]
 gi|311740175|ref|ZP_07714007.1| CarD family transcriptional regulator [Corynebacterium
           pseudogenitalium ATCC 33035]
 gi|255297077|gb|EET76402.1| transcriptional regulator, CarD family [Corynebacterium
           tuberculostearicum SK141]
 gi|311304730|gb|EFQ80801.1| CarD family transcriptional regulator [Corynebacterium
           pseudogenitalium ATCC 33035]
          Length = 194

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 47/172 (27%), Positives = 89/172 (51%), Gaps = 4/172 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             ++ GE +VYP HG   I +I+ +E+ G  LE+ V+  ++  + ++VP+  A ++G+R 
Sbjct: 1   MEYKVGEVVVYPHHGAAVIEDIETREMGGETLEYLVLHINQSDLVVRVPIKNADNVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E+   ++R +   +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGKEGLEKVFSVLRDEDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           S  E+++   A   +V E+A    + E +A  ++E       +  E+  +  
Sbjct: 121 SAGEKRMLGKARTILVGELALAKPVDEKKADTMMEEI----DATIERHRAAG 168


>gi|302390930|ref|YP_003826750.1| CarD family transcriptional regulator [Acetohalobium arabaticum DSM
           5501]
 gi|302203007|gb|ADL11685.1| transcriptional regulator, CarD family [Acetohalobium arabaticum
           DSM 5501]
          Length = 169

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 44/141 (31%), Positives = 81/141 (57%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F TG+ IVYP HG GTIT+I+++EV G   +++V+     +M + +P+    DIG+R++
Sbjct: 1   MFETGDKIVYPNHGAGTITDIEKKEVLGETKKYYVMQLPIGEMRVMIPMDNVDDIGIREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             +  V+   ++++G+       W+RR +    KI SGD+  +AEVVR+L   D +   S
Sbjct: 61  ISSDRVDDVFQILKGEKSEMSQNWNRRYRANTEKIKSGDIFEVAEVVRNLTLRDIEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAV 153
             E+++  ++   ++ E+   
Sbjct: 121 TGEKKMLSNSRQILISELVLA 141


>gi|326383079|ref|ZP_08204768.1| transcription factor CarD [Gordonia neofelifaecis NRRL B-59395]
 gi|326198215|gb|EGD55400.1| transcription factor CarD [Gordonia neofelifaecis NRRL B-59395]
          Length = 162

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 41/162 (25%), Positives = 87/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   + +I  + + G ++E+ V+      M +++P  K   +G+R 
Sbjct: 1   MNFKVGDTVVYPHHGAARVEDIVIRTIKGEEIEYLVLKVADGDMTVQIPSSKLEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T W+RR +    K+ SGD+I +AE+VRDL R +     
Sbjct: 61  VVGQEGLDQVFQVLRAPHTEEPTNWARRFKANQEKLISGDIIKVAEIVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +V E++     ++ +A ++++  L++ S
Sbjct: 121 SAGEKRMLTRARRVLVDELSLAQHTNDEKADSMLDEILAAAS 162


>gi|255262370|ref|ZP_05341712.1| transcriptional regulator, CarD family [Thalassiobium sp. R2A62]
 gi|255104705|gb|EET47379.1| transcriptional regulator, CarD family [Thalassiobium sp. R2A62]
          Length = 171

 Score =  208 bits (529), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 104/174 (59%), Positives = 128/174 (73%), Gaps = 5/174 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M+ ++KRD     F   + +VYPAHGVG +  I+EQEVAG +LE FVIAF+KDKM L+VP
Sbjct: 1   MSKKKKRD-----FEPNDFVVYPAHGVGKVVSIEEQEVAGFELELFVIAFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KAI++GMR LS    V  A+K ++GKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKAIEVGMRSLSTPDVVNHAMKTLKGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           DLHR D Q E+SYSERQLYE+AL R+ REIAA  S  E  A   I   L S+++
Sbjct: 116 DLHRADDQREQSYSERQLYEAALERLTREIAATGSGDEAIAAQEITDVLQSRAA 169


>gi|163746984|ref|ZP_02154341.1| transcriptional regulator, CarD family, putative [Oceanibulbus
           indolifex HEL-45]
 gi|161380098|gb|EDQ04510.1| transcriptional regulator, CarD family, putative [Oceanibulbus
           indolifex HEL-45]
          Length = 170

 Score =  207 bits (528), Expect = 5e-52,   Method: Composition-based stats.
 Identities = 105/172 (61%), Positives = 126/172 (73%), Gaps = 5/172 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K D     FR  E +VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP
Sbjct: 1   MTKSKKLD-----FRPNEFVVYPAHGVGQIVSIEEQEVAGIALELFVISFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA +IGMR LS    +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKATEIGMRALSTPDVINHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           DLHRTD Q E+SYSERQLYE+AL R+ RE+AAV+   E  A   +   L S+
Sbjct: 116 DLHRTDDQREQSYSERQLYEAALERLTREVAAVSGGDELAAAKQVGDVLESR 167


>gi|254441381|ref|ZP_05054874.1| CarD-like transcriptional regulator family [Octadecabacter
           antarcticus 307]
 gi|198251459|gb|EDY75774.1| CarD-like transcriptional regulator family [Octadecabacter
           antarcticus 307]
          Length = 170

 Score =  207 bits (528), Expect = 5e-52,   Method: Composition-based stats.
 Identities = 95/166 (57%), Positives = 119/166 (71%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
               +  +   + +VYPAHGVG +  I+ QE+AG +LE FVIAF+KDKM L+VP  KA +
Sbjct: 1   MAKKKYDYSPNDFVVYPAHGVGKVVSIETQEIAGFELEMFVIAFEKDKMTLRVPTNKAEE 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMR L+    V   +K +RGKA+VK+ MWSRRAQEY+ KINSGDLIAIAEVVRDLHR D
Sbjct: 61  VGMRSLASTDVVADCMKTLRGKAKVKKAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            Q E+SYSERQLYE+AL R+ RE AAV + +E EA   I   L S+
Sbjct: 121 DQREQSYSERQLYEAALERLTREFAAVGNGNELEAGTEITDTLQSR 166


>gi|229819270|ref|YP_002880796.1| CarD family transcriptional regulator [Beutenbergia cavernae DSM
           12333]
 gi|229565183|gb|ACQ79034.1| transcriptional regulator, CarD family [Beutenbergia cavernae DSM
           12333]
          Length = 160

 Score =  207 bits (528), Expect = 5e-52,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 79/160 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EI  + + G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MTFNVGETVVYPHHGAALIEEISTRVIRGEEKLYLRLRVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D     
Sbjct: 61  VVGKEGLDKVFEVLRAPYTEEPTNWSRRYKANVEKIASGDVIKVAEVVRDLSRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E  A  +++  L+S
Sbjct: 121 SAGEKRMLARARQILVSELALAEKTEEDRAEAILDEVLAS 160


>gi|167648071|ref|YP_001685734.1| CarD family transcriptional regulator [Caulobacter sp. K31]
 gi|167350501|gb|ABZ73236.1| transcriptional regulator, CarD family [Caulobacter sp. K31]
          Length = 170

 Score =  207 bits (528), Expect = 5e-52,   Method: Composition-based stats.
 Identities = 97/168 (57%), Positives = 126/168 (75%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                  F  G+H+VYPAHGVG+I  ++ QEVAGM LE ++I FD +KM L+VP  KA  
Sbjct: 1   MSKSGLEFSVGDHVVYPAHGVGSIQGVETQEVAGMSLEVYIITFDHEKMTLRVPTKKAKT 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R L+E + V +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDLI+IAEVVRDLHR +
Sbjct: 61  AGLRPLAEGNVVSQALTTLKGRARVKRTMWSRRAQEYEAKINSGDLISIAEVVRDLHRAE 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +QPE+SYSERQLYESAL+RM RE+AA+  I    AI ++  +L   ++
Sbjct: 121 NQPEQSYSERQLYESALDRMAREVAAIERIDREAAIGILTKSLVKTAA 168


>gi|46201683|ref|ZP_00208209.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Magnetospirillum magnetotacticum MS-1]
          Length = 164

 Score =  207 bits (528), Expect = 5e-52,   Method: Composition-based stats.
 Identities = 87/160 (54%), Positives = 118/160 (73%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG +  ++ QE+ GMKL+ FVI FD+D+M L+VPV KA   G+RKL
Sbjct: 5   SFTQGDYVVYPTHGVGQVVAVETQEIGGMKLQLFVITFDRDRMTLRVPVTKAQKSGLRKL 64

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    ++ AL  ++G+A+VKRTMWSRRAQEY+AKINSGD ++IAEVVRDLHR  +QP++S
Sbjct: 65  SSRSVMDTALSTLKGRAKVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLHRNANQPDQS 124

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           YSERQ+YE+AL R+  E+AAV  I    A   ++  L + 
Sbjct: 125 YSERQIYEAALERLASELAAVERIDTQAATEKLQGLLEAA 164


>gi|301060351|ref|ZP_07201214.1| CarD-like protein [delta proteobacterium NaphS2]
 gi|300445547|gb|EFK09449.1| CarD-like protein [delta proteobacterium NaphS2]
          Length = 159

 Score =  207 bits (527), Expect = 6e-52,   Method: Composition-based stats.
 Identities = 46/155 (29%), Positives = 86/155 (55%), Gaps = 1/155 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+  VYPAHGVG I +I+ QE++G K +F+V+    + M + +P      +G+R +
Sbjct: 1   MFQVGDLAVYPAHGVGVIEKIESQEISGCKQDFYVMRILDNDMIIMIPTTNVDHVGLRDI 60

Query: 73  SEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                + +   +++ +   +    W+RR +EY  KI +G +  +AEV RDL       E 
Sbjct: 61  IPKTELPKLFSILKKRDVTLDSQTWNRRYREYMEKIKTGSVFEVAEVYRDLLILRYDKEL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           S+ ER++ ++A   +V+EI+    I+E +  + ++
Sbjct: 121 SFGERKMLDTARTLLVKEISLAKEITESQVESDLD 155


>gi|320095399|ref|ZP_08027078.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           178 str. F0338]
 gi|319977670|gb|EFW09334.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           178 str. F0338]
          Length = 171

 Score =  207 bits (527), Expect = 7e-52,   Method: Composition-based stats.
 Identities = 46/171 (26%), Positives = 83/171 (48%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG  TI EI  + + G +  +  +  ++  + ++VP      +G+R 
Sbjct: 1   MSFEIGQTVVYPHHGAATIEEITTRSIRGAEKTYLKLRVNQGDLTIEVPADNVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E  L ++R     + T WSRR +    KI +GD++ +AEVVRDL R D   + 
Sbjct: 61  IVDEDGLEEVLSVLRAPYVEEPTNWSRRFKANQEKIATGDIVKVAEVVRDLTRRDDLKKL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
           S  E+++   A   +  E+A    I + +A   ++  L+          +E
Sbjct: 121 STGEKRMLTKARGILTSELALARGIDKADAAARLDGILAEGRIDEAGLDAE 171


>gi|51894260|ref|YP_076951.1| transcriptional regulator [Symbiobacterium thermophilum IAM 14863]
 gi|51857949|dbj|BAD42107.1| transcriptional regulator [Symbiobacterium thermophilum IAM 14863]
          Length = 159

 Score =  206 bits (526), Expect = 8e-52,   Method: Composition-based stats.
 Identities = 45/159 (28%), Positives = 84/159 (52%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+++EV G +  ++V+      M + VP       G+R +
Sbjct: 1   MFQVGDKVVYPMHGAGIIEAIEDREVLGERKRYYVLRLPVADMQVLVPCDGPQSTGLRAV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 ++ L+++R +       W+ R +    KI SGD++A+AEVVR L + + +   S
Sbjct: 61  MSEQVFQQVLEVLRSRPTQAEKNWNHRYRMNMEKIRSGDVLALAEVVRTLSQREREKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
             ER++ +SA   ++ EI  +  +   +A +L++  L+ 
Sbjct: 121 TGERKMLDSARQILLSEIVLIRGLELEQASSLLDRVLAQ 159


>gi|163736061|ref|ZP_02143484.1| transcriptional regulator, CarD family, putative [Roseobacter
           litoralis Och 149]
 gi|161390657|gb|EDQ15003.1| transcriptional regulator, CarD family, putative [Roseobacter
           litoralis Och 149]
          Length = 170

 Score =  206 bits (526), Expect = 9e-52,   Method: Composition-based stats.
 Identities = 104/172 (60%), Positives = 126/172 (73%), Gaps = 5/172 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K D     FR  E +VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP
Sbjct: 1   MTKSKKLD-----FRPNEFVVYPAHGVGQILSIEEQEVAGISLELFVISFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA +IGMR LS    +  A++ ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKATEIGMRALSSPDVISHAMRTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           DLHRTD Q E+SYSERQLYE+AL R+ RE+AAV+   E  A   +   L S+
Sbjct: 116 DLHRTDDQREQSYSERQLYEAALERLTREVAAVSGGDELAASKQVGDVLESR 167


>gi|256824253|ref|YP_003148213.1| CarD family transcriptional regulator [Kytococcus sedentarius DSM
           20547]
 gi|256687646|gb|ACV05448.1| transcriptional regulator, CarD family [Kytococcus sedentarius DSM
           20547]
          Length = 160

 Score =  206 bits (526), Expect = 9e-52,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 84/160 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I E+K+++V G ++ +  +   +  + ++VP      +G+R 
Sbjct: 1   MTFEVGETVVYPHHGAALIEEVKQRKVKGKEMTYLKLKVAQGDLTIEVPAENCDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A  +E+   ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R +     
Sbjct: 61  VVDAEGLEKVFGVLRAENCEEPTNWSRRYKANLEKLASGDVIKVAEVVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E  A   ++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTDEERAEATLDEVLAS 160


>gi|260887702|ref|ZP_05898965.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
 gi|260862582|gb|EEX77082.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
          Length = 175

 Score =  206 bits (526), Expect = 9e-52,   Method: Composition-based stats.
 Identities = 43/171 (25%), Positives = 77/171 (45%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M F   R       + G+ +VYP HG G I+ I++ EV G    ++V+      M + +P
Sbjct: 1   MRFAWGRAGGVVLLQVGDTVVYPMHGAGVISGIEDCEVLGEGKSYYVLQMPLGNMKVMIP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
                ++G+R +     VE    +++         W++R      ++ SGD+  +A V R
Sbjct: 61  TDNVDNMGLRDVIPETQVEEVKDILQMAPERATGSWNKRFHANLERMKSGDICDVAAVAR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           +L   D   + S  ER+L + A   +V E+    S S  E  + ++  L+ 
Sbjct: 121 NLVLQDRLRKISSGERRLLDLARQIIVSELVYACSKSPEEVKSWMDGILAE 171


>gi|110679120|ref|YP_682127.1| CarD family transcriptional regulator [Roseobacter denitrificans
           OCh 114]
 gi|109455236|gb|ABG31441.1| transcriptional regulator, CarD family, putative [Roseobacter
           denitrificans OCh 114]
          Length = 170

 Score =  206 bits (526), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 104/172 (60%), Positives = 126/172 (73%), Gaps = 5/172 (2%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT  +K D     FR  E +VYPAHGVG I  I+EQEVAG+ LE FVI+F+KDKM L+VP
Sbjct: 1   MTKSKKLD-----FRPNEFVVYPAHGVGQILSIEEQEVAGLSLELFVISFEKDKMTLRVP 55

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA +IGMR LS    +  A++ ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVR
Sbjct: 56  THKATEIGMRALSSPDVISHAMRTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVR 115

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           DLHRTD Q E+SYSERQLYE+AL R+ RE+AAV+   E  A   +   L S+
Sbjct: 116 DLHRTDDQREQSYSERQLYEAALERLTREVAAVSGGDELAASKQVGDVLESR 167


>gi|228993464|ref|ZP_04153374.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
 gi|228999501|ref|ZP_04159079.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|229007057|ref|ZP_04164684.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228754206|gb|EEM03624.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228760212|gb|EEM09180.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|228766286|gb|EEM14930.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
          Length = 164

 Score =  206 bits (526), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 85/157 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+++EV G   ++ VI      M + +P+ K  + G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEDKEVLGKIRQYCVIHMVISDMQVMIPMDKVENSGIRYVV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           + + +   L  +          W +R      K+ +G+L+  AEVVRDL R + +   + 
Sbjct: 67  DKNTLNDVLVDIHNGEADHSLSWKQRYTMNMEKMKNGNLLDGAEVVRDLIRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   ++ E+A V ++SE +A  +++  ++
Sbjct: 127 SEKQMLDNARRILISEVALVQNVSENQATYILQDTIN 163


>gi|227876780|ref|ZP_03994889.1| transcription factor CarD [Mobiluncus mulieris ATCC 35243]
 gi|269976308|ref|ZP_06183304.1| CarD family transcriptional regulator [Mobiluncus mulieris 28-1]
 gi|306817728|ref|ZP_07451470.1| CarD family transcriptional regulator [Mobiluncus mulieris ATCC
           35239]
 gi|307701599|ref|ZP_07638616.1| CarD-like protein [Mobiluncus mulieris FB024-16]
 gi|227842677|gb|EEJ52877.1| transcription factor CarD [Mobiluncus mulieris ATCC 35243]
 gi|269935637|gb|EEZ92175.1| CarD family transcriptional regulator [Mobiluncus mulieris 28-1]
 gi|304649542|gb|EFM46825.1| CarD family transcriptional regulator [Mobiluncus mulieris ATCC
           35239]
 gi|307613278|gb|EFN92530.1| CarD-like protein [Mobiluncus mulieris FB024-16]
          Length = 160

 Score =  206 bits (525), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 85/160 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EI  + + G++ E+  +   +  + +++P      +G+R 
Sbjct: 1   MTFTVGETVVYPHHGAAVIEEITTRVIGGVEREYLKLRVAQADLTIQIPSENVEMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E   +++R     + + WSRR +    KI +GD++ +AEVVRDL R DS+   
Sbjct: 61  VVDKEGLEHVFEVLRTTKTEEPSNWSRRYKANVEKIATGDVVKVAEVVRDLSRRDSKKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A N ++  L+S
Sbjct: 121 SAGEKRMLSKARQILVSELALAEKTNEEDASNRLDEVLAS 160


>gi|300859178|ref|YP_003784161.1| putative transcription factor [Corynebacterium pseudotuberculosis
           FRC41]
 gi|300686632|gb|ADK29554.1| putative transcription factor [Corynebacterium pseudotuberculosis
           FRC41]
 gi|302206868|gb|ADL11210.1| Transcriptional regulator [Corynebacterium pseudotuberculosis C231]
 gi|308277120|gb|ADO27019.1| Transcriptional regulator [Corynebacterium pseudotuberculosis I19]
          Length = 193

 Score =  206 bits (525), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 49/174 (28%), Positives = 88/174 (50%), Gaps = 4/174 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+++E+ G  LEF V+  ++  + ++VP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAAVIEAIEQREMNGETLEFLVLHINQSDLVVRVPSKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +++    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVDDEGLQKVFGFLREIDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQD 185
           S  E+++   A   +V E+A   +I E +A    +  L+   +  E+  +   D
Sbjct: 121 SAGEKRMLAKARQVLVGELALAENIDENKA----DELLAQVDATVERHRAAGVD 170


>gi|117927289|ref|YP_871840.1| CarD family transcriptional regulator [Acidothermus cellulolyticus
           11B]
 gi|117647752|gb|ABK51854.1| transcriptional regulator, CarD family [Acidothermus cellulolyticus
           11B]
          Length = 160

 Score =  206 bits (525), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 82/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G +  + V+   +  + ++VP   A  +G+R 
Sbjct: 1   MTFKVGETVVYPHHGAALIEAIETRVINGQEKTYLVLKVAQGDLTVRVPAENAEFVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R D     
Sbjct: 61  VVSQDGLDRVFEVLRAPHTEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDRDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A  +++  L S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEGTNEDKAEAILDEVLGS 160


>gi|298345944|ref|YP_003718631.1| putative transcription factor CarD [Mobiluncus curtisii ATCC 43063]
 gi|304390353|ref|ZP_07372306.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|315654533|ref|ZP_07907439.1| CarD family transcriptional regulator [Mobiluncus curtisii ATCC
           51333]
 gi|298236005|gb|ADI67137.1| possible transcription factor CarD [Mobiluncus curtisii ATCC 43063]
 gi|304326109|gb|EFL93354.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|315490997|gb|EFU80616.1| CarD family transcriptional regulator [Mobiluncus curtisii ATCC
           51333]
          Length = 160

 Score =  206 bits (525), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 86/160 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG  TI EI  + + G++ E+  +   +  + +++P      +G+R 
Sbjct: 1   MTFKVGETVVYPHHGAATIEEIITRVIGGVEREYLKLRVAQGDLTIQIPSENVEMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E   +++R K   + + WSRR +    KI +GD++ +AEVVRDL R DS    
Sbjct: 61  VVDEAGLEHVFEVLRAKKTDEPSNWSRRYKANVEKIATGDVVKVAEVVRDLSRRDSNRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A   ++  L+S
Sbjct: 121 SAGEKRMLTKARQILVSELALAEKTNEEDASLRLDEVLAS 160


>gi|239916921|ref|YP_002956479.1| transcriptional regulator, CarD family [Micrococcus luteus NCTC
           2665]
 gi|289706880|ref|ZP_06503221.1| CarD-like transcriptional regulator [Micrococcus luteus SK58]
 gi|239838128|gb|ACS29925.1| transcriptional regulator, CarD family [Micrococcus luteus NCTC
           2665]
 gi|289556430|gb|EFD49780.1| CarD-like transcriptional regulator [Micrococcus luteus SK58]
          Length = 160

 Score =  206 bits (525), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 48/159 (30%), Positives = 82/159 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MVFEVGETVVYPHHGAARIEEIKMRTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A  +E  ++++R +   + T WSRR +    K+ SGD+  +AEVVRDL R D     
Sbjct: 61  VVDAEGLEHVMEVLRAEHVEEPTNWSRRYKANLEKLASGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++   A   +V E+A    ++E EA   ++  L 
Sbjct: 121 SAGEKRMLSKARQVLVSELALAKKVTEEEAEGRLDKVLE 159


>gi|315657561|ref|ZP_07910443.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
 gi|315492033|gb|EFU81642.1| CarD family transcriptional regulator [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
          Length = 160

 Score =  206 bits (525), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 86/160 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG  TI EI  + + G++ E+  +   +  + +++P      +G+R 
Sbjct: 1   MTFKVGETVVYPHHGAATIEEIITRVIGGVEREYLKLRVAQGDLTIQIPSENVEMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E   +++R K   + + WSRR +    KI +GD++ +AEVVRDL R DS    
Sbjct: 61  VVDEAGLEHVFEVLRAKKTDEPSNWSRRYKANVEKIATGDVVKVAEVVRDLSRRDSNRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     +E +A   ++  L+S
Sbjct: 121 SAGEKRMLSKARQILVSELALAEKTNEEDASLRLDEVLAS 160


>gi|114799783|ref|YP_762092.1| CarD family transcriptional regulator [Hyphomonas neptunium ATCC
           15444]
 gi|114739957|gb|ABI78082.1| transcriptional regulator, CarD family [Hyphomonas neptunium ATCC
           15444]
          Length = 174

 Score =  206 bits (524), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 101/160 (63%), Positives = 126/160 (78%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            +K +A    F  G+ +VYPAHGVG IT I+ Q VAGM+LE +V+AFD+DKM L+VP  +
Sbjct: 2   AKKAEARTHAFEVGQSVVYPAHGVGKITGIESQTVAGMQLEVYVVAFDQDKMILRVPTNR 61

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
           A   GMR L+ +  V+ ALK + GKAR+KRTMWSRRAQEY+AKINSGDLI+IAEVVRDLH
Sbjct: 62  AEASGMRALAGSKLVDDALKTLGGKARIKRTMWSRRAQEYEAKINSGDLISIAEVVRDLH 121

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAIN 163
           R D QPE+SYSERQLYESAL+RM RE+AAV +I + +A+ 
Sbjct: 122 RGDDQPEQSYSERQLYESALDRMARELAAVENIDKGKAME 161


>gi|83313417|ref|YP_423681.1| transcriptional regulator [Magnetospirillum magneticum AMB-1]
 gi|82948258|dbj|BAE53122.1| Transcriptional regulator [Magnetospirillum magneticum AMB-1]
          Length = 167

 Score =  206 bits (524), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 86/160 (53%), Positives = 117/160 (73%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+++VYP HGVG +  ++ QE+ GMKL+ FVI FD+D+M L+VPV KA   G+R L
Sbjct: 8   SFTQGDYVVYPTHGVGQVVAVETQEIGGMKLQLFVITFDRDRMTLRVPVTKAQKSGLRML 67

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    ++ AL  ++G+A+VKRTMWSRRAQEY+AKINSGD ++IAEVVRDLHR  +QP++S
Sbjct: 68  SSRSVMDTALSTLKGRAKVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLHRNANQPDQS 127

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           YSERQ+YE+AL R+  E+AAV  I    A   ++  L + 
Sbjct: 128 YSERQIYEAALERLASELAAVERIDTQAATEKLQGLLEAA 167


>gi|83591305|ref|YP_431314.1| CarD family transcriptional regulator [Moorella thermoacetica ATCC
           39073]
 gi|83574219|gb|ABC20771.1| transcriptional regulator, CarD family [Moorella thermoacetica ATCC
           39073]
          Length = 158

 Score =  206 bits (524), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 42/158 (26%), Positives = 86/158 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG G I  I+E+EV G K +++++      M + +P+     +G+R++
Sbjct: 1   MFKVGDKVVYPMHGAGVIEAIEEREVLGKKRKYYILRLPLGDMKVMIPLESEQAVGLREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++  +K+++         W+RR +    K+ SG++  +AEVV +L R +     S
Sbjct: 61  IDEKEIQEVIKILKEPRSNGSGNWNRRYRANLEKMRSGNIYQLAEVVGNLSRREHDQGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++ E+A   ++ E+A   +  + +  N++E  L+
Sbjct: 121 TGERKMLENARQMLISELALARNAEKNQVENMLEKLLA 158


>gi|25029078|ref|NP_739132.1| putative transcription factor [Corynebacterium efficiens YS-314]
 gi|23494365|dbj|BAC19332.1| putative transcription factor [Corynebacterium efficiens YS-314]
          Length = 200

 Score =  206 bits (524), Expect = 2e-51,   Method: Composition-based stats.
 Identities = 44/178 (24%), Positives = 90/178 (50%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G+ +VYP HG   IT ++++E+ G  +++ V+  ++  + ++VP   A  +G+
Sbjct: 1   MGMDFKVGDTVVYPHHGAAMITALEQRELNGETMDYLVLKINQSDLVVRVPAKNAELVGV 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R +     +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D   
Sbjct: 61  RDVVGEEGLQKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDR 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
             S  E+++   A   +V E+A   ++ E +A   +     + +        ++++K 
Sbjct: 121 GLSAGEKRMLAKARQVLVGELALAETVDEAKADAFLAEVDETIARHRADLLGDDEEKK 178


>gi|297627026|ref|YP_003688789.1| CarD family transcriptional regulator [Propionibacterium
           freudenreichii subsp. shermanii CIRM-BIA1]
 gi|296922791|emb|CBL57369.1| transcriptional regulator CarD [Propionibacterium freudenreichii
           subsp. shermanii CIRM-BIA1]
          Length = 161

 Score =  205 bits (523), Expect = 2e-51,   Method: Composition-based stats.
 Identities = 43/161 (26%), Positives = 83/161 (51%), Gaps = 1/161 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIGMR 70
             F  GE +VYP HG   I + + +++ G    + V+    +  + ++VP      +G+R
Sbjct: 1   MTFTVGETVVYPNHGAAVIEDTETRKIKGEDTLYLVLRILGQTDLVVRVPACNLDLVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            + +   +E+   ++R     + T WSRR +    K++SGD++ ++EVVRDL R + +  
Sbjct: 61  DVVDEEGLEKVFSVLRAPHTEEPTNWSRRYKANLEKLHSGDVMKVSEVVRDLWRREKERG 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            S  E+++   A   +V E+A    + E  A  +++  L+S
Sbjct: 121 LSAGEKRMLAKARQILVSELALAEKVEEERAEVMLDEVLAS 161


>gi|229106940|ref|ZP_04237040.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|229118992|ref|ZP_04248336.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228664467|gb|EEL19964.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228676495|gb|EEL31241.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
          Length = 158

 Score =  205 bits (523), Expect = 2e-51,   Method: Composition-based stats.
 Identities = 42/153 (27%), Positives = 83/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + +     K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIMHIFQHGESDKLLPWKQRYKVNTDKIKTGEIQDGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 125 NTSEKKMLDNAHEFLISELGLIKGITENQIKSF 157


>gi|212716130|ref|ZP_03324258.1| hypothetical protein BIFCAT_01045 [Bifidobacterium catenulatum DSM
           16992]
 gi|212661497|gb|EEB22072.1| hypothetical protein BIFCAT_01045 [Bifidobacterium catenulatum DSM
           16992]
          Length = 198

 Score =  205 bits (523), Expect = 2e-51,   Method: Composition-based stats.
 Identities = 57/181 (31%), Positives = 97/181 (53%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAAKVEAITERTVKGITREYLQLSVLSSDGLVINVPVDNAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A N +  EI+    + E EA  L++VNL  + ++   EK  +E  ++A
Sbjct: 121 GLSAGEKRMLTKARNILTSEISLSEKLDETEAQRLLDVNLGYEPAQPGDEKHHTEAPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|114570846|ref|YP_757526.1| CarD family transcriptional regulator [Maricaulis maris MCS10]
 gi|114341308|gb|ABI66588.1| transcriptional regulator, CarD family [Maricaulis maris MCS10]
          Length = 169

 Score =  205 bits (522), Expect = 2e-51,   Method: Composition-based stats.
 Identities = 96/166 (57%), Positives = 122/166 (73%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                + F+ G+ IVYPAHGVG +T +++  VAG  +E +V+ F++DKM L+VP  K   
Sbjct: 1   MTKNDKSFKKGDFIVYPAHGVGRVTGVEKDSVAGFDIEVYVVTFEQDKMTLRVPTAKTEA 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            GMR LS    V+ ALK ++GKA+VKRTMWSRRAQEY+AKINSGDLI IAEVVRDLHR +
Sbjct: 61  SGMRPLSSDKIVKDALKTLKGKAKVKRTMWSRRAQEYEAKINSGDLIQIAEVVRDLHRAE 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            QPE+SYSERQLYESAL+RMVRE+AAV  I    A  ++  +L+ K
Sbjct: 121 DQPEQSYSERQLYESALDRMVRELAAVEEIEHEAAREMLSTSLAKK 166


>gi|254486669|ref|ZP_05099874.1| transcriptional regulator, CarD family [Roseobacter sp. GAI101]
 gi|214043538|gb|EEB84176.1| transcriptional regulator, CarD family [Roseobacter sp. GAI101]
          Length = 171

 Score =  205 bits (522), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 100/164 (60%), Positives = 122/164 (74%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  E +VYPAHGVG I  ++EQE+AG+ LE FVIAF+KDKM L+VP  KA +IG
Sbjct: 4   SKKLDFRPNEFVVYPAHGVGQIVSVEEQEIAGISLELFVIAFEKDKMTLRVPTHKATEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q
Sbjct: 64  MRSLSSPDTITHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            E+SYSERQLYE+AL R+ RE+AAV    E  A   +   L S+
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVAGGDELAAAKQVGDVLESR 167


>gi|302331432|gb|ADL21626.1| Transcriptional regulator [Corynebacterium pseudotuberculosis 1002]
          Length = 193

 Score =  205 bits (522), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 49/174 (28%), Positives = 88/174 (50%), Gaps = 4/174 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+++E+ G  LEF V+  ++  + ++VP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAAVIEAIEQREMNGETLEFLVLHINQSDLVVRVPSKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +++    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVDDEGLQKVFGFLREIDVEEAGNWSRRFKANQGRLASGDVNKVAEVVRDLWRRDQGRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQD 185
           S  E+++   A   +V E+A   +I E +A    +  L+   +  E+  +   D
Sbjct: 121 SAGEKRMLAKARQVLVGELALAENIDENKA----DELLAQVDATVERHRAAGVD 170


>gi|300934651|ref|ZP_07149907.1| putative transcription factor [Corynebacterium resistens DSM 45100]
          Length = 199

 Score =  205 bits (522), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 43/156 (27%), Positives = 80/156 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+++E  G K+++ V+  ++  + ++VP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAAVIEGIEQREFKGEKVDYLVLRINQGDLSVRVPAANAEKVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLRKVFSVLRETDVEEAGNWSRRYKANQERLTSGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
           S  E+++   A   +V E+A    + + +   L+E 
Sbjct: 121 SAGEKRMLAKARQILVGELALAEGVDDKKTDALLEE 156


>gi|332981599|ref|YP_004463040.1| CarD family transcriptional regulator [Mahella australiensis 50-1
           BON]
 gi|332699277|gb|AEE96218.1| transcriptional regulator, CarD family [Mahella australiensis 50-1
           BON]
          Length = 162

 Score =  204 bits (521), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 48/154 (31%), Positives = 81/154 (52%), Gaps = 1/154 (0%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +VYP HG G +  I+E+E+ G+  +++++      + + +P+  A DIG+R + +
Sbjct: 3   QIGDKVVYPMHGAGVVEAIEEKEILGVTQKYYILKLPVCDVKIMIPLSSADDIGIRHIID 62

Query: 75  AHFVERALKLV-RGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +R L  + +       T W+RR +    KI SGD+  +A+VVR L   + Q   S 
Sbjct: 63  EDESKRVLAALSQNNQDGDNTNWNRRYRINMDKIKSGDIYEVADVVRSLMIREKQKGLSA 122

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
            ER++  SA   +V E+A  NS    E   LIE 
Sbjct: 123 GERKMLNSAKQILVSELALANSTGTDEIERLIEE 156


>gi|68535372|ref|YP_250077.1| putative transcription factor [Corynebacterium jeikeium K411]
 gi|68262971|emb|CAI36459.1| putative transcription factor [Corynebacterium jeikeium K411]
          Length = 196

 Score =  204 bits (521), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 42/166 (25%), Positives = 80/166 (48%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   I  I+++E  G  +++ V+  ++  + ++VP   A  +G+R 
Sbjct: 1   MEFAVGDTVVYPHHGAAVIEGIEQREFKGETVDYLVLRINQGDLSVRVPAANAEKVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLRKVFSVLRETDVEEAGNWSRRYKANQERLTSGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
           S  E+++   A   +V E+A    + + +   L+    ++     E
Sbjct: 121 SAGEKRMLAKARQILVGELALAEGVDDKKTDTLLAEMQAAIKRHRE 166


>gi|260578403|ref|ZP_05846317.1| transcription factor [Corynebacterium jeikeium ATCC 43734]
 gi|258603425|gb|EEW16688.1| transcription factor [Corynebacterium jeikeium ATCC 43734]
          Length = 196

 Score =  204 bits (521), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 41/154 (26%), Positives = 77/154 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   I  I+++E  G  +++ V+  ++  + ++VP   A  +G+R 
Sbjct: 1   MEFAVGDTVVYPHHGAAVIEGIEQREFKGETVDYLVLRINQGDLSVRVPAANAEKVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLRKVFSVLRETDVEEAGNWSRRYKANQERLTSGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           S  E+++   A   +V E+A    + + +   L+
Sbjct: 121 SAGEKRMLAKARQILVGELALAEGVDDKKTDALL 154


>gi|85709786|ref|ZP_01040851.1| transcriptional regulator [Erythrobacter sp. NAP1]
 gi|85688496|gb|EAQ28500.1| transcriptional regulator [Erythrobacter sp. NAP1]
          Length = 178

 Score =  204 bits (521), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 84/178 (47%), Positives = 125/178 (70%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             +    F  G+++VYP HGVG + E++ +E+AGM+LE +V+ F+K++M L+VPV K   
Sbjct: 1   MASNAPAFTVGDYVVYPKHGVGRVIELQSEEIAGMQLELYVLRFEKERMTLRVPVNKVES 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           IGMRKLS    ++ A+  ++GK +VKRTMWSRRAQEY+AKINSG+++ IAEV RDL R D
Sbjct: 61  IGMRKLSSDKTLKEAMDTLKGKPKVKRTMWSRRAQEYEAKINSGEIVLIAEVTRDLFRPD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
            QPE+SYSERQ++E+A +R+ RE+AA+    EP A+  I   L   + +   +  +++
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEETDEPTALEKILEVLREHAPQYYDNDDDSK 178


>gi|227502085|ref|ZP_03932134.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49725]
 gi|306836888|ref|ZP_07469843.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49726]
 gi|227077144|gb|EEI15107.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49725]
 gi|304567229|gb|EFM42839.1| CarD family transcriptional regulator [Corynebacterium accolens
           ATCC 49726]
          Length = 194

 Score =  204 bits (521), Expect = 4e-51,   Method: Composition-based stats.
 Identities = 46/172 (26%), Positives = 89/172 (51%), Gaps = 4/172 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             ++ GE +VYP HG   I +I+ +E+ G +LE+ V+  ++  + ++VP   A ++G+R 
Sbjct: 1   MEYKVGEVVVYPHHGAAVIEDIETREMGGEELEYLVLHINQSDLVVRVPKKNADNVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E+   ++R +   +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGKEGLEKVFSVLRDEDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           S  E+++   A   +V E+A    + + +A  ++E       +  E+  +  
Sbjct: 121 SAGEKRMLGKARTILVGELALAQPVDDKKADTMMEEI----DATIERHRAAG 168


>gi|86137857|ref|ZP_01056433.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           MED193]
 gi|85825449|gb|EAQ45648.1| transcriptional regulator, CarD family protein [Roseobacter sp.
           MED193]
          Length = 170

 Score =  204 bits (520), Expect = 4e-51,   Method: Composition-based stats.
 Identities = 100/164 (60%), Positives = 124/164 (75%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  E++VYPAHGVG I  ++EQEVAG  LE FVI F+KDKM L+VP  KAI++G
Sbjct: 4   SKKLAFRPDEYVVYPAHGVGQIISVEEQEVAGFALELFVITFEKDKMTLRVPTNKAIEVG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    + +A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q
Sbjct: 64  MRSLSSPDVIAQAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            E+SYSERQLYE+AL R+ RE+AAV    E  A   +   L+S+
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVAGGDEILAAKQVGDVLTSR 167


>gi|325000162|ref|ZP_08121274.1| CarD family transcriptional regulator [Pseudonocardia sp. P1]
          Length = 163

 Score =  204 bits (520), Expect = 4e-51,   Method: Composition-based stats.
 Identities = 44/163 (26%), Positives = 84/163 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ + + G ++++ V+   +  + +++P      +G+R 
Sbjct: 1   MVFKVGETVVYPHHGAALIEAIETRTIKGEEVQYLVLKVQQGDLTVRIPADNVEVVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+  +AEVVRDL R +     
Sbjct: 61  VVGQEGLDRVFEVLRAPHTEEPTNWSRRYKANWEKLTSGDVNKVAEVVRDLWRREKDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           S  E+++   A   +V E+A      E  A  L++  L++ ++
Sbjct: 121 SAGEKRMLGKARQILVSELALAEGTDEERAEVLLDEVLATATA 163


>gi|42782726|ref|NP_979973.1| CarD family transcriptional regulator [Bacillus cereus ATCC 10987]
 gi|42738652|gb|AAS42581.1| transcriptional regulator, CarD family [Bacillus cereus ATCC 10987]
          Length = 158

 Score =  204 bits (520), Expect = 4e-51,   Method: Composition-based stats.
 Identities = 43/151 (28%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E+AG K +++VI      M L +P G+ +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEIAGEKQQYYVIKMLGSNMELMIPAGRILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITAIAHILDVFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITESQIKSF 157


>gi|254461053|ref|ZP_05074469.1| transcriptional regulator, CarD family [Rhodobacterales bacterium
           HTCC2083]
 gi|206677642|gb|EDZ42129.1| transcriptional regulator, CarD family [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 172

 Score =  204 bits (520), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 103/159 (64%), Positives = 120/159 (75%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  E +VYPAHGVG +  ++EQEVA +KLE +VIAF+KDKM L+VP  KAIDIGMR LS
Sbjct: 9   FRVNEFVVYPAHGVGKVVSVEEQEVADVKLELYVIAFEKDKMTLRVPTHKAIDIGMRSLS 68

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+SY
Sbjct: 69  TGDEVAHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQSY 128

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SERQLYE+AL R+ REI AV    E  A   I   L S+
Sbjct: 129 SERQLYEAALERLTREIGAVQGGDEDAAARQITDVLMSR 167


>gi|329946263|ref|ZP_08293857.1| CarD-like protein [Actinomyces sp. oral taxon 170 str. F0386]
 gi|328527555|gb|EGF54550.1| CarD-like protein [Actinomyces sp. oral taxon 170 str. F0386]
          Length = 160

 Score =  204 bits (520), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 49/160 (30%), Positives = 84/160 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             +  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R 
Sbjct: 1   MTYEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVELIGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E+  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    
Sbjct: 61  VVDETGLEKVFEVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E EA + ++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAQKTPEDEAESRLDEVLAS 160


>gi|75760996|ref|ZP_00741000.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74491513|gb|EAO54725.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 167

 Score =  204 bits (520), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 44/153 (28%), Positives = 83/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R 
Sbjct: 14  YMFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRP 73

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 74  VTDILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTL 133

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 134 NTSEKKLLDDAYKFLVSELELIKGITENQIKSF 166


>gi|94497220|ref|ZP_01303792.1| transcriptional regulator, CarD family protein [Sphingomonas sp.
           SKA58]
 gi|94423325|gb|EAT08354.1| transcriptional regulator, CarD family protein [Sphingomonas sp.
           SKA58]
          Length = 175

 Score =  204 bits (520), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 88/174 (50%), Positives = 126/174 (72%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A    F  G+++VYP HGVG + E++++++AGM+LE +V+ F+K++M L+VP  KA  
Sbjct: 1   MAAKALSFDVGDYVVYPKHGVGRVIELQKEQIAGMELELYVLRFEKERMTLRVPTNKAEG 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKLS    +E A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D
Sbjct: 61  VGMRKLSSNKTLEEAMETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
            QPE+SYSERQ++E+A +R+ RE+AA+    EP A+  I   L+  + K  K  
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEETDEPSALQKILRILNEAAPKYAKVE 174


>gi|288957083|ref|YP_003447424.1| transcriptional regulator [Azospirillum sp. B510]
 gi|288909391|dbj|BAI70880.1| transcriptional regulator [Azospirillum sp. B510]
          Length = 166

 Score =  204 bits (519), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 82/165 (49%), Positives = 122/165 (73%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  F  G+ +VYPAHGVG +  I+   +AG++++ + I F+K++M LKVPV KA + G
Sbjct: 2   SNKLDFDAGDFVVYPAHGVGRVEGIETHSIAGLEVQLYAITFEKERMTLKVPVTKARNAG 61

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R+LS    ++ AL+ ++G++RV+RTMWSRRAQEY+AKINSGD ++IAEVVRDL+R   Q
Sbjct: 62  LRRLSSKDRIKVALETLQGRSRVRRTMWSRRAQEYEAKINSGDPVSIAEVVRDLYRGADQ 121

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            ++SYSERQ+Y++AL R+ RE+AAV  I E +A   +E  LS  +
Sbjct: 122 SDQSYSERQIYQAALERLARELAAVEKIDETKATERLESVLSKAA 166


>gi|83955682|ref|ZP_00964262.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           NAS-14.1]
 gi|83839976|gb|EAP79152.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           NAS-14.1]
          Length = 171

 Score =  204 bits (519), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 101/164 (61%), Positives = 122/164 (74%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  FR  E +VYPAHGVG I  ++EQEVAG+ LE FVIAF+KDKM L+VP  KA +IG
Sbjct: 4   SKKLDFRPNEFVVYPAHGVGQIISVEEQEVAGISLELFVIAFEKDKMTLRVPTHKATEIG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           MR LS    +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q
Sbjct: 64  MRALSSPDVISHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQ 123

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            E+SYSERQLYE+AL R+ RE+AAV    E  A   +   L S+
Sbjct: 124 REQSYSERQLYEAALERLTREVAAVAGGDELAASKQVGDVLESR 167


>gi|315498116|ref|YP_004086920.1| transcriptional regulator, card family [Asticcacaulis excentricus
           CB 48]
 gi|315416128|gb|ADU12769.1| transcriptional regulator, CarD family [Asticcacaulis excentricus
           CB 48]
          Length = 169

 Score =  204 bits (519), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 95/169 (56%), Positives = 126/169 (74%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
               A    F+TG+ +VYPAHGVGT+  ++ QEVAG +LE +V+ FD +KM L+VP  KA
Sbjct: 1   MTTVAAELEFKTGDKVVYPAHGVGTVAAVESQEVAGYQLEVYVVTFDHEKMTLRVPTKKA 60

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              G+R L+ A  + +AL  ++G+ARVKRTMWSRRAQEY+AKINSGDL++IAEVVRDLHR
Sbjct: 61  KTAGLRHLAPAAVMSQALVTLKGRARVKRTMWSRRAQEYEAKINSGDLVSIAEVVRDLHR 120

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            ++QPE+SYSERQLYESAL+RM RE+AA+  I    A+ L+  +L   +
Sbjct: 121 AENQPEQSYSERQLYESALDRMAREVAAIEKIDRDAAVALLNKSLIKAA 169


>gi|296118942|ref|ZP_06837515.1| transcriptional regulator, CarD family [Corynebacterium
           ammoniagenes DSM 20306]
 gi|295968040|gb|EFG81292.1| transcriptional regulator, CarD family [Corynebacterium
           ammoniagenes DSM 20306]
          Length = 195

 Score =  204 bits (519), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 47/173 (27%), Positives = 85/173 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I  I+ +E+ G  LE+ V+  ++  + ++VP      +G+R 
Sbjct: 1   MEFKVGEVVVYPHHGAAKIEAIEHREMGGEMLEYLVLQINQSDLVVRVPSKNVEQVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGKEGLEKVFSVLRETDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           S  E+++   A   +V E+A    + E +A  +++   S+          E++
Sbjct: 121 SAGEKRMLAKARQILVGELALAQPVDEKKADTMMDEIESTIQRHRAAGLVEDK 173


>gi|315226414|ref|ZP_07868202.1| CarD family transcriptional regulator [Parascardovia denticolens
           DSM 10105]
 gi|315120546|gb|EFT83678.1| CarD family transcriptional regulator [Parascardovia denticolens
           DSM 10105]
          Length = 260

 Score =  204 bits (519), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 54/181 (29%), Positives = 92/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   I EI E+ + G+   +  +       + + VP      +G+R
Sbjct: 31  MEYKVGDTVVYPRHGAARIEEITERTLRGVTRIYLRLTVLSSDGLEISVPADAVDKVGVR 90

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQP 129
           ++     V +  +++R     ++T WSRR +    KI +GD+  IAEVVRDL  R D + 
Sbjct: 91  EVVNGVAVAKVFEILRTPIVEEKTNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDDDEH 150

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A N +  EIA    I + EA  L++VNL  +  +   EK  ++  ++A
Sbjct: 151 GLSAGEKRMLSKARNILTSEIALSEKIDDEEAQRLLDVNLGYQDPEPGDEKHHAQAPEEA 210

Query: 188 A 188
           A
Sbjct: 211 A 211


>gi|308274564|emb|CBX31163.1| hypothetical protein N47_E46750 [uncultured Desulfobacterium sp.]
          Length = 183

 Score =  204 bits (519), Expect = 6e-51,   Method: Composition-based stats.
 Identities = 50/168 (29%), Positives = 89/168 (52%), Gaps = 2/168 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + F  G+  VYPAHGVG I  I+ + V G K +F++I   ++ M + +P      +G+R 
Sbjct: 16  REFHVGDLAVYPAHGVGRIEAIENKIVNGEKHDFYIIKVLENGMVIMIPTWNVDSVGLRD 75

Query: 72  LSEAHFVERALKLVRGK--ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +     V +    ++ K    +    W+RR ++Y  KI +G L  +AEV RDL+      
Sbjct: 76  VISEGEVPKIYDFMKSKKETPIDTQTWNRRYRDYMDKIKTGSLYDVAEVFRDLYLLKLTK 135

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
           + S+ ER+L+++A   +V+E++   + SE +  + IE    SK +  +
Sbjct: 136 DLSFGERKLFDTAQTLLVKELSTARNTSEDKIFSEIESLFISKENPKD 183


>gi|325066494|ref|ZP_08125167.1| CarD family transcriptional regulator [Actinomyces oris K20]
 gi|326772504|ref|ZP_08231788.1| transcriptional regulator, CarD family [Actinomyces viscosus C505]
 gi|326637136|gb|EGE38038.1| transcriptional regulator, CarD family [Actinomyces viscosus C505]
          Length = 160

 Score =  204 bits (519), Expect = 6e-51,   Method: Composition-based stats.
 Identities = 49/160 (30%), Positives = 84/160 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             +  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R 
Sbjct: 1   MTYEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVELIGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E+  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    
Sbjct: 61  VVDETGLEKVFEVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E EA + ++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAQKTPEEEAESRLDEVLAS 160


>gi|172041356|ref|YP_001801070.1| putative transcription factor [Corynebacterium urealyticum DSM
           7109]
 gi|171852660|emb|CAQ05636.1| putative transcription factor [Corynebacterium urealyticum DSM
           7109]
          Length = 190

 Score =  204 bits (519), Expect = 6e-51,   Method: Composition-based stats.
 Identities = 41/156 (26%), Positives = 78/156 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+++E  G  +++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MDFKVGDTVVYPHHGAAQIEGIEQREFKGETVDYLVLRLYQGDLSVRVPAANAEKVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD   +AEVVRDL R D     
Sbjct: 61  VVGEEGLLKVFSVLRETDVEEAGNWSRRYKANQERLTSGDQNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
           S  E+++   A   +V E+A  + + + +A  ++  
Sbjct: 121 SAGEKRMLAKARQILVGELALADGVDDKKADAMLAE 156


>gi|153005358|ref|YP_001379683.1| CarD family transcriptional regulator [Anaeromyxobacter sp.
           Fw109-5]
 gi|152028931|gb|ABS26699.1| transcriptional regulator, CarD family [Anaeromyxobacter sp.
           Fw109-5]
          Length = 171

 Score =  203 bits (518), Expect = 7e-51,   Method: Composition-based stats.
 Identities = 50/168 (29%), Positives = 92/168 (54%), Gaps = 1/168 (0%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
             +   M   F+ G+  VYP  GVG +  I+ +EVAG +  F+V+   ++ M + +P+ K
Sbjct: 3   ATQATQMAPNFKVGDKAVYPGQGVGEVMGIEHKEVAGQRQSFYVLRILENGMKIMIPMNK 62

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
              +G+R++     V R   ++R K   V  T W+RR +EY  KI +G +  IAEV+RDL
Sbjct: 63  VGSVGLREIIGEKDVRRVYTILREKEVSVDSTTWNRRYREYMDKIKTGSVFEIAEVLRDL 122

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +   S  + S+ ER++ ++A + +++E+A      E +  + ++   +
Sbjct: 123 YLLRSDKDLSFGERKMLDTARSLLIKELAIAKECGEDDVEDDLKKIFN 170


>gi|305680364|ref|ZP_07403172.1| CarD-like protein [Corynebacterium matruchotii ATCC 14266]
 gi|305659895|gb|EFM49394.1| CarD-like protein [Corynebacterium matruchotii ATCC 14266]
          Length = 196

 Score =  203 bits (518), Expect = 7e-51,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 77/157 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+++E+ G  LE+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAAVIEAIEQREMGGETLEYLVLQIHQSDLVVRVPSKNAETVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEAGLRKVFGFLRETDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           S  E+++   A   +V E+A      E +A  L+   
Sbjct: 121 SAGEKRMLAKARQVLVGELALAEIKDEAKANELLAEV 157


>gi|163939058|ref|YP_001643942.1| CarD family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|163861255|gb|ABY42314.1| transcriptional regulator, CarD family [Bacillus weihenstephanensis
           KBAB4]
          Length = 153

 Score =  203 bits (518), Expect = 7e-51,   Method: Composition-based stats.
 Identities = 42/152 (27%), Positives = 84/152 (55%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R +
Sbjct: 1   MFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  +++ +     K   W +R +    KI +G++   AEVVRDL R   +   +
Sbjct: 61  TDILALKHIIQIFQHGESDKLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 121 TSEKKMLDNAHEFLISELGLIKGITENQIKSF 152


>gi|167629441|ref|YP_001679940.1| transcriptional regulator, card family, putative [Heliobacterium
           modesticaldum Ice1]
 gi|167592181|gb|ABZ83929.1| transcriptional regulator, card family, putative [Heliobacterium
           modesticaldum Ice1]
          Length = 158

 Score =  203 bits (518), Expect = 7e-51,   Method: Composition-based stats.
 Identities = 46/158 (29%), Positives = 85/158 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  ++E+EV G K  ++V+      M + VP G+  +IG+R++
Sbjct: 1   MFAIGDKVVYPMHGAGVIEAVEEREVLGEKRLYYVLRLSLGDMRILVPSGQIAEIGLRQV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +A   ++ + +++ +  V    W RR +    K+ +GD+ A+AEVVR+L R + +   S
Sbjct: 61  IDAIEADQVMSVLQSRKSVMSNNWHRRYRANLDKMKTGDVYAVAEVVRNLIRRNQEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++ E+A   +V E+         +   ++   L+
Sbjct: 121 TGERRMLENAKQILVSELVLAYDTPPEQIEAMLSRLLA 158


>gi|259505930|ref|ZP_05748832.1| transcription factor [Corynebacterium efficiens YS-314]
 gi|259166411|gb|EEW50965.1| transcription factor [Corynebacterium efficiens YS-314]
          Length = 198

 Score =  203 bits (518), Expect = 8e-51,   Method: Composition-based stats.
 Identities = 43/176 (24%), Positives = 89/176 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   IT ++++E+ G  +++ V+  ++  + ++VP   A  +G+R 
Sbjct: 1   MDFKVGDTVVYPHHGAAMITALEQRELNGETMDYLVLKINQSDLVVRVPAKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLQKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
           S  E+++   A   +V E+A   ++ E +A   +     + +        ++++K 
Sbjct: 121 SAGEKRMLAKARQVLVGELALAETVDEAKADAFLAEVDETIARHRADLLGDDEEKK 176


>gi|184201518|ref|YP_001855725.1| hypothetical protein KRH_18720 [Kocuria rhizophila DC2201]
 gi|183581748|dbj|BAG30219.1| hypothetical protein [Kocuria rhizophila DC2201]
          Length = 161

 Score =  203 bits (518), Expect = 8e-51,   Method: Composition-based stats.
 Identities = 47/161 (29%), Positives = 83/161 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TI EIK + V G +  +  +   +  + ++VP      +G+R 
Sbjct: 1   MVFEVGETVVYPHHGAATIEEIKTRTVKGEEKMYLRLKVTQGDLMIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +++ + +++ +   + + WSRR +    K+ SGD++ +AEVVRDL R D     
Sbjct: 61  VVDEDGLKQVIAVLQAQDAEEASNWSRRYKANLEKLASGDVLKVAEVVRDLWRRDRGKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +  E+A    I E EA   ++  LS+ 
Sbjct: 121 SAGEKRMLTKARQILTSELALAKKIDEEEAEKRLDDILSAA 161


>gi|218898141|ref|YP_002446552.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|218543299|gb|ACK95693.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
          Length = 153

 Score =  203 bits (517), Expect = 9e-51,   Method: Composition-based stats.
 Identities = 44/152 (28%), Positives = 83/152 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R +
Sbjct: 1   MFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   +
Sbjct: 61  TDILALKHIIHIFQHEKSCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTLN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE++L + A   +V E+  +  I+E +  + 
Sbjct: 121 TSEKKLLDDAYKFLVSELELIKGITENQIKSF 152


>gi|227834038|ref|YP_002835745.1| putative transcription factor [Corynebacterium aurimucosum ATCC
           700975]
 gi|262183476|ref|ZP_06042897.1| putative transcription factor [Corynebacterium aurimucosum ATCC
           700975]
 gi|227455054|gb|ACP33807.1| putative transcription factor [Corynebacterium aurimucosum ATCC
           700975]
          Length = 194

 Score =  203 bits (517), Expect = 9e-51,   Method: Composition-based stats.
 Identities = 47/173 (27%), Positives = 87/173 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   IT I+ +E+ G +LE+ V+  ++  + ++VP      +G+R 
Sbjct: 1   MEFKVGEVVVYPHHGAAKITAIETREMGGEELEYLVLQINQSDLVVRVPSKNVEMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGKEGLEKVFSVLREVDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           S  E+++   A   +V E++    + E +A  ++E   ++          E++
Sbjct: 121 SAGEKRMLAKARQILVGELSLAKPVDEKKADTMMEEINATIERHRAAGLVEDK 173


>gi|229132055|ref|ZP_04260918.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|228651455|gb|EEL07427.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
          Length = 158

 Score =  203 bits (517), Expect = 9e-51,   Method: Composition-based stats.
 Identities = 42/153 (27%), Positives = 84/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  +++ +     K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIQIFQHGESDKLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 125 NTSEKKMLDNAHEFLISELGLIKGITENQIKSF 157


>gi|228901595|ref|ZP_04065773.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228908832|ref|ZP_04072664.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228850842|gb|EEM95664.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228858007|gb|EEN02489.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score =  203 bits (517), Expect = 9e-51,   Method: Composition-based stats.
 Identities = 44/153 (28%), Positives = 83/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLVSELELIKGITENQIKSF 157


>gi|302390636|ref|YP_003826457.1| transcriptional regulator, CarD family [Thermosediminibacter oceani
           DSM 16646]
 gi|302201264|gb|ADL08834.1| transcriptional regulator, CarD family [Thermosediminibacter oceani
           DSM 16646]
          Length = 158

 Score =  203 bits (517), Expect = 9e-51,   Method: Composition-based stats.
 Identities = 51/158 (32%), Positives = 88/158 (55%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+E+ G K +++V+      M + +P+    +IG+R++
Sbjct: 1   MFNIGDKVVYPMHGAGIIEAIEEKEILGEKQKYYVMRMPFGNMRVMIPINSVKEIGVRQI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                +++ LK++RG+       W+ R +    KI SG++  +AEVVR+L   + +   S
Sbjct: 61  VSDEEIDQVLKILRGEKSKMPANWNHRYRANMEKIKSGNIFQVAEVVRNLGLREKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER+++E+A   +V EIA   +I E  A  +IE  L 
Sbjct: 121 AGERRMFENAKQILVSEIALSKNIDEKSAHEMIENALG 158


>gi|288556410|ref|YP_003428345.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
 gi|288547570|gb|ADC51453.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
          Length = 158

 Score =  203 bits (517), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGKKQQYYVIKMSIGNMQVMIPTGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +         W +R +    KI +G L   AEVVRDL +   +   + 
Sbjct: 67  DIIALKNIIHIFQHGESDSLLSWKQRYKVNTDKIKTGKLQECAEVVRDLMQMKKEKTLNT 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGFIKGITENQIKSF 157


>gi|228994492|ref|ZP_04154342.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
 gi|228765250|gb|EEM13954.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
          Length = 167

 Score =  203 bits (517), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 41/149 (27%), Positives = 81/149 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R 
Sbjct: 14  YMFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVLIPTGKILSSSIRP 73

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 74  VTDILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 133

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPE 160
           + SE+++ ++A   ++ E+  +  I+E +
Sbjct: 134 NTSEKKMLDNAHEFLISELGLIKGITENQ 162


>gi|237784959|ref|YP_002905664.1| putative transcription factor [Corynebacterium kroppenstedtii DSM
           44385]
 gi|237757871|gb|ACR17121.1| putative transcription factor [Corynebacterium kroppenstedtii DSM
           44385]
          Length = 196

 Score =  203 bits (517), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 42/175 (24%), Positives = 85/175 (48%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   I + +++++ G  +++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MEFNIGDTVVYPHHGAAVIEKKEQRQIKGETVDYLVLKVHQGDLTVRVPEKNAESVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLLKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDK 186
           S  E+++   A   +V E+A  +   + +A  + +    + +    K   E++D 
Sbjct: 121 SAGEKRMLAKARQVLVGELALADGTDDAKADAMYQEAQEAIARHRAKLLGEDEDS 175


>gi|229162478|ref|ZP_04290439.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
 gi|228620957|gb|EEK77822.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
          Length = 158

 Score =  203 bits (517), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 82/151 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|320532511|ref|ZP_08033328.1| CarD-like transcriptional regulator [Actinomyces sp. oral taxon 171
           str. F0337]
 gi|320135273|gb|EFW27404.1| CarD-like transcriptional regulator [Actinomyces sp. oral taxon 171
           str. F0337]
          Length = 160

 Score =  203 bits (516), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 83/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             +  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R 
Sbjct: 1   MTYEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVELIGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E+  +++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    
Sbjct: 61  VVDETGLEKVFEVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
              E+++   A   +V E+A      E EA + ++  L+S
Sbjct: 121 PAGEKRMLAKARQILVSELALAQKTPEEEAESRLDEVLAS 160


>gi|108760890|ref|YP_630846.1| CarD family transcriptional regulator CdnL [Myxococcus xanthus DK
           1622]
 gi|108464770|gb|ABF89955.1| transcriptional regulator, CarD family [Myxococcus xanthus DK 1622]
          Length = 164

 Score =  203 bits (516), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 49/162 (30%), Positives = 93/162 (57%), Gaps = 1/162 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M+  F+TG+  VYP  GVG +  I+  EVAG +  F+V+   ++ M + +P+ K   +G+
Sbjct: 1   MQTSFKTGDKAVYPGQGVGEVMGIEHTEVAGQRQSFYVLRILENGMRIMIPINKVGSVGL 60

Query: 70  RKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R++     V++   +++ K   V  T W+RR +EY  KI +G +  IAEV+RDL+     
Sbjct: 61  REIISEEDVKQVYSILKEKDISVDSTTWNRRYREYMEKIKTGSVFEIAEVLRDLYLLKGD 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            + S+ ER++ ++A + +++E++     SE E  + ++   +
Sbjct: 121 KDLSFGERKMLDTARSLLIKELSLAKDCSEDEIESDLKKIFN 162


>gi|229015358|ref|ZP_04172376.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
 gi|228745937|gb|EEL95922.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
          Length = 158

 Score =  203 bits (516), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 41/153 (26%), Positives = 83/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P+GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISNMQVMIPMGKILSSSIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLIRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 125 NTSEKKMLDNAHEFLISELGLIKGITENQIKSF 157


>gi|85375450|ref|YP_459512.1| transcriptional regulator [Erythrobacter litoralis HTCC2594]
 gi|84788533|gb|ABC64715.1| transcriptional regulator [Erythrobacter litoralis HTCC2594]
          Length = 178

 Score =  202 bits (515), Expect = 1e-50,   Method: Composition-based stats.
 Identities = 84/177 (47%), Positives = 123/177 (69%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A    F  G+++VYP HGVG + E++ +E+AGM+LE +V+ F+K++M L+VP  K   
Sbjct: 1   MAAKALAFDVGDYVVYPKHGVGRVIELQNEEIAGMQLELYVLRFEKERMTLRVPTNKVES 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           IGMRKLS    ++ A++ ++GK +VKRTMWSRRAQEY+AKINSG+++ IAEV RDL R D
Sbjct: 61  IGMRKLSSDKTLKEAMETLKGKPKVKRTMWSRRAQEYEAKINSGEIVLIAEVTRDLFRPD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
            QPE+SYSERQ++E+A +R+ RE+AA+    E  A+  I   L   + +   +  E+
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEKTDEATALEKILDVLREHAPQYYNNEEED 177


>gi|227505965|ref|ZP_03936014.1| CarD family transcriptional regulator [Corynebacterium striatum
           ATCC 6940]
 gi|227197487|gb|EEI77535.1| CarD family transcriptional regulator [Corynebacterium striatum
           ATCC 6940]
          Length = 195

 Score =  202 bits (515), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 47/173 (27%), Positives = 87/173 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I +I+ +E+ G  LE+ V+  ++  + ++VP      +G+R 
Sbjct: 1   MEFKVGEVVVYPHHGAARIADIEHREMGGETLEYLVLQINQSDLVVRVPSKNVELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGKEGLEKVFSVLREIDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           S  E+++   A   +V E+A  + + E +A  ++E   ++          E++
Sbjct: 121 SAGEKRMLAKARQILVGELALASPVDEKKADTMLEEIDATIERHRAAGIVEDK 173


>gi|332186920|ref|ZP_08388661.1| carD-like/TRCF domain protein [Sphingomonas sp. S17]
 gi|332012930|gb|EGI54994.1| carD-like/TRCF domain protein [Sphingomonas sp. S17]
          Length = 177

 Score =  202 bits (515), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 87/169 (51%), Positives = 124/169 (73%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++VYP HGVG + E+++QE+AGM+LE +V+ F+K++M L+VP  KA  +GMRKLS
Sbjct: 8   FDVGDYVVYPKHGVGRVIELQKQEIAGMQLELYVLRFEKERMTLRVPTNKAESVGMRKLS 67

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +  A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEVVRDL R D QPE+SY
Sbjct: 68  SDKTMREAMETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVVRDLFRADDQPEQSY 127

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
           SERQ++E+A +R+ RE+AA+  + E  A   I   L + ++   K    
Sbjct: 128 SERQIFEAATSRLARELAAMEEVDEQRAQEKILEILRAAAAIYNKEKPA 176


>gi|302342168|ref|YP_003806697.1| CarD family transcriptional regulator [Desulfarculus baarsii DSM
           2075]
 gi|301638781|gb|ADK84103.1| transcriptional regulator, CarD family [Desulfarculus baarsii DSM
           2075]
          Length = 161

 Score =  202 bits (515), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 47/155 (30%), Positives = 86/155 (55%), Gaps = 1/155 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+  VYPAHGVG I  ++E+ + G +  F+++   ++ M + VP   A  +G+R +
Sbjct: 1   MFDLGQLAVYPAHGVGRIEAVEEKTIGGAQQCFYILRILENDMIIMVPTANAGAVGLRPI 60

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                V + L ++R     ++   W+RR ++Y +KI +G +  +AEV+RDL    S  E 
Sbjct: 61  IPTEEVPQVLSILRDHDVIIENQTWNRRYRDYMSKIKTGSVYEVAEVLRDLFILKSDKEL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           S+ ER++ ++A N +V+E++     +E      +E
Sbjct: 121 SFGERKMLDTARNLLVKELSIAQQQTEDVVAAQVE 155


>gi|229007995|ref|ZP_04165557.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228753269|gb|EEM02745.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
          Length = 167

 Score =  202 bits (515), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 42/149 (28%), Positives = 81/149 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R 
Sbjct: 14  YMFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVLIPTGKILSSSIRP 73

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 74  VTDILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 133

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPE 160
           + SE+++ E+A   ++ E+  +  I+E +
Sbjct: 134 NTSEKKMLENAHEFLISELGLIKGITENQ 162


>gi|296537276|ref|ZP_06899162.1| CarD family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
 gi|296262394|gb|EFH09133.1| CarD family transcriptional regulator [Roseomonas cervicalis ATCC
           49957]
          Length = 226

 Score =  202 bits (515), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 74/165 (44%), Positives = 114/165 (69%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
                 F+ G+H+VYP HGVG +  I+   VAG +L+  ++ F++++M L+VP+ KA   
Sbjct: 62  GNQGSEFKAGDHVVYPTHGVGQVQGIESMAVAGTELKVIIVTFEENRMTLRVPLNKAASS 121

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           G+RKL+    +  A++ ++G+AR+KRTMWSRRAQEY+ KINSGD + IAEVVRDLHR   
Sbjct: 122 GLRKLAGGDRMGEAMETLKGRARIKRTMWSRRAQEYEQKINSGDPVQIAEVVRDLHRNAG 181

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           QP++S+SERQ+YE A++R+  E+AA++   +  A+  +  +L   
Sbjct: 182 QPDQSFSERQIYELAMDRLAAEVAAIDGTDKNGAMTKLLEHLKQG 226


>gi|206973195|ref|ZP_03234117.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|229191421|ref|ZP_04318406.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|206732079|gb|EDZ49279.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|228592103|gb|EEK49937.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
          Length = 158

 Score =  202 bits (515), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 45/153 (29%), Positives = 81/153 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VIDILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYRFLVSELELIKGITENQIKSF 157


>gi|294012721|ref|YP_003546181.1| CarD-family transcriptional regulator [Sphingobium japonicum UT26S]
 gi|292676051|dbj|BAI97569.1| CarD-family transcriptional regulator [Sphingobium japonicum UT26S]
          Length = 175

 Score =  202 bits (515), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 88/174 (50%), Positives = 126/174 (72%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A    F  G+++VYP HGVG + E++++++AGM+LE +V+ F+K++M L+VP  KA  
Sbjct: 1   MAAKALSFDVGDYVVYPKHGVGRVIELQKEQIAGMELELYVLRFEKERMTLRVPTNKAEG 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKLS    +E A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D
Sbjct: 61  VGMRKLSSNKTLEEAVETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
            QPE+SYSERQ++E+A +R+ RE+AA+    EP A+  I   L+  + K  K  
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEETDEPSALKKILRILNEAAPKHAKVE 174


>gi|149185279|ref|ZP_01863596.1| transcriptional regulator [Erythrobacter sp. SD-21]
 gi|148831390|gb|EDL49824.1| transcriptional regulator [Erythrobacter sp. SD-21]
          Length = 177

 Score =  202 bits (514), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 84/176 (47%), Positives = 125/176 (71%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             +    F  G+++VYP HGVG + E++ +E+AGM+L+ +V+ F+K++M L+VPV K   
Sbjct: 1   MASKADAFDVGDYVVYPKHGVGRVIELQSEEIAGMQLDLYVLRFEKERMTLRVPVNKVES 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           IGMRKLS    ++ A++ ++GK +VKRTMWSRRAQEY+AKINSG+++ IAEV RDL R D
Sbjct: 61  IGMRKLSSDKTLKEAMETLKGKPKVKRTMWSRRAQEYEAKINSGEIVLIAEVTRDLFRPD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSE 182
            QPE+SYSERQ++E+A +R+ RE+AA+    E  A+  I   L   + +  ++T E
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEKTDEATALEKILDVLREHAPQYYENTEE 176


>gi|148273673|ref|YP_001223234.1| CarD family transcriptional regulator [Clavibacter michiganensis
           subsp. michiganensis NCPPB 382]
 gi|147831603|emb|CAN02571.1| putative transcriptional regulator, CarD family [Clavibacter
           michiganensis subsp. michiganensis NCPPB 382]
          Length = 160

 Score =  202 bits (514), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 82/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TI E+K++ + G +  +  +  ++  + ++VP      +G+R 
Sbjct: 1   MLFEVGETVVYPHHGAATIIEVKKRVIRGEEKLYLKLDVNQGGLQIEVPAENVDMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     VE    ++R +   + T WSRR +    K+ SGD++ +AEVVRDL R +     
Sbjct: 61  VIGREGVESVFAVLRAEFTEEPTNWSRRYKANLEKLASGDVLKVAEVVRDLWRRNQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+ + + A   +V E+A      E  A  L++  L+S
Sbjct: 121 SAGEKSMLQKARGILVGELALAEKTDEEHASTLLDEVLAS 160


>gi|114769349|ref|ZP_01446975.1| transcriptional regulator, CarD family protein [alpha
           proteobacterium HTCC2255]
 gi|114550266|gb|EAU53147.1| transcriptional regulator, CarD family protein [alpha
           proteobacterium HTCC2255]
          Length = 170

 Score =  202 bits (514), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 93/161 (57%), Positives = 122/161 (75%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR  + +VYPAHGVG I  ++ QE+AG ++E FVIAF+KDKM L+VP  KA  +GMR L+
Sbjct: 10  FRLNDFVVYPAHGVGKIMTVETQEIAGTQMELFVIAFEKDKMTLRVPTAKATAVGMRNLA 69

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               VE+A+K ++G+ARVKR MWSRRAQEY+ KINSGDL++IAEVVRDLHR D + E+SY
Sbjct: 70  SEELVEKAMKTLKGRARVKRAMWSRRAQEYEQKINSGDLMSIAEVVRDLHRNDEEREQSY 129

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           SERQLYE+AL R+ RE+AAV+   E  A   +   L +++S
Sbjct: 130 SERQLYEAALERLTREVAAVDGTDEGVAAEKVTDILVARAS 170


>gi|229073467|ref|ZP_04206599.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228709655|gb|EEL61697.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
          Length = 158

 Score =  202 bits (514), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 45/153 (29%), Positives = 82/153 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYRFLVSELELIKGITENQIKSF 157


>gi|260905792|ref|ZP_05914114.1| transcriptional regulator, CarD family protein [Brevibacterium
           linens BL2]
          Length = 160

 Score =  202 bits (514), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 82/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG  TI +IK++ + G +  +  +      + ++VP      +G+R 
Sbjct: 1   MSFEVGDTVVYPHHGAATIQDIKKRTIKGEEKLYLKLQVAHGDLVIEVPAENCDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     VE+   ++R +   + T WSRR +    K+ SGD+I +AEVVRDL R +     
Sbjct: 61  VVGEEGVEKVFNVLRAEFVEEPTNWSRRYKANLEKLQSGDVIKVAEVVRDLWRREQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E EA  +++  L+S
Sbjct: 121 STGEKRMLSKARQILVSELALAEKKEESEAEAILDEVLAS 160


>gi|229191260|ref|ZP_04318247.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|228592177|gb|EEK50009.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
          Length = 158

 Score =  202 bits (514), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 45/153 (29%), Positives = 84/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI     KM + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISKMQVMIPTGKILNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLVSELELIKGITEKQIKSF 157


>gi|260881580|ref|ZP_05404736.2| transcriptional regulator, CarD family [Mitsuokella multacida DSM
           20544]
 gi|260848409|gb|EEX68416.1| transcriptional regulator, CarD family [Mitsuokella multacida DSM
           20544]
          Length = 166

 Score =  201 bits (513), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 40/159 (25%), Positives = 76/159 (47%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +VYP HG G I+ I+  EV G    ++V+      M + +P   A ++G+R +  
Sbjct: 5   QIGDKVVYPMHGAGVISGIENCEVLGEGKSYYVLEMPLGNMKVMIPTDNADNVGLRDVIP 64

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              V+   +++  +    +  W++R      ++ SGD+  +A V R+L   D +   S  
Sbjct: 65  QQKVDEVREVLEEEPEKPKGSWNKRFHANLDRMKSGDICDVAAVARNLILQDRRRHISSG 124

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           ER+L + A   +V E+      +  E  N +   LS+ +
Sbjct: 125 ERRLLDLAKQILVSELVYACDKTPKEVENWLTSVLSANA 163


>gi|227500782|ref|ZP_03930831.1| transcription factor CarD [Anaerococcus tetradius ATCC 35098]
 gi|227217087|gb|EEI82445.1| transcription factor CarD [Anaerococcus tetradius ATCC 35098]
          Length = 159

 Score =  201 bits (513), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 40/158 (25%), Positives = 81/158 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G I  I+++E  G + ++F++      M + +P  K  D+ +R +
Sbjct: 1   MFKIGDKIVYPMHGAGIIDSIEKKEFLGEEKDYFILKMPIGDMDISIPTNKINDMNIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +R LK++  +     + W+ R ++    + +GD+  IA++VR+L   D     S
Sbjct: 61  ISKEEGDRVLKILDDEPSDMSSNWTVRYRQNQEILKTGDIFEIAKMVRNLAILDKDKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            +E++L   +   +  E+    S+ + EA  +I+ ++ 
Sbjct: 121 TTEKKLLNRSRRILASELVMAGSLEKEEAEKMIDESIG 158


>gi|86157697|ref|YP_464482.1| CarD family transcriptional regulator [Anaeromyxobacter
           dehalogenans 2CP-C]
 gi|197122995|ref|YP_002134946.1| CarD family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|220917784|ref|YP_002493088.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
 gi|85774208|gb|ABC81045.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-C]
 gi|196172844|gb|ACG73817.1| transcriptional regulator, CarD family [Anaeromyxobacter sp. K]
 gi|219955638|gb|ACL66022.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
          Length = 171

 Score =  201 bits (513), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 49/169 (28%), Positives = 93/169 (55%), Gaps = 1/169 (0%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
              +   +   F+ G+  VYP  GVG +  I+ +EVAG +  F+V+   ++ M + +P+ 
Sbjct: 2   SATQATQVAPNFKVGDKAVYPGQGVGEVMGIEHKEVAGQRQSFYVLRILENGMKIMIPMN 61

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
           K   +G+R++     V R   ++R K   V  T W+RR +EY  KI +G +  IAEV+RD
Sbjct: 62  KVGSVGLREIIGEKDVRRVYGILREKEVSVDSTTWNRRYREYMDKIKTGSVFEIAEVLRD 121

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           L+   S  + S+ ER++ ++A + +++E+A   +  E +  + ++   +
Sbjct: 122 LYLLRSDKDLSFGERKMLDTARSLLIKELAIAKACDEQDVEDDLKKIFN 170


>gi|225351869|ref|ZP_03742892.1| hypothetical protein BIFPSEUDO_03471 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225157116|gb|EEG70455.1| hypothetical protein BIFPSEUDO_03471 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 198

 Score =  201 bits (513), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 55/181 (30%), Positives = 97/181 (53%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAAKVEAITERTVKGITREYLQLSVLSSDGLVINVPVDNAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EI+    + E EA  L++VNL  + ++   E+  +E  ++A
Sbjct: 121 GLSAGEKRMLTKARSILTSEISLSEHLDEAEAQRLLDVNLGYEPAQPGDEEHHTEAPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|170783048|ref|YP_001711382.1| putative transcription factor regulator [Clavibacter michiganensis
           subsp. sepedonicus]
 gi|169157618|emb|CAQ02816.1| putative transcription factor regulator [Clavibacter michiganensis
           subsp. sepedonicus]
          Length = 160

 Score =  201 bits (513), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 83/160 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TI E+K++ + G++  +  +  ++  + ++VP      +G+R 
Sbjct: 1   MLFEVGETVVYPHHGAATIIEVKKRVIRGVEKLYLKLDVNQGGLQIEVPAENVDMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     VE    ++R +   + T WSRR +    K+ SGD++ +AEVVRDL R +     
Sbjct: 61  VIGREGVESVFAVLRAEFTEEPTNWSRRYKANLEKLASGDVLKVAEVVRDLWRRNQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+ + + A   +V E+A      E  A  L++  L+S
Sbjct: 121 SAGEKSMLQKARGILVGELALAEKTDEEHASTLLDEVLAS 160


>gi|229018847|ref|ZP_04175694.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
 gi|229025088|ref|ZP_04181515.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228736198|gb|EEL86766.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228742468|gb|EEL92621.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
          Length = 158

 Score =  201 bits (513), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 82/151 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M + +P+GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGEKQQYYVIKMSASNMEVMIPMGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  TLKALTHIIDVFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|229002840|ref|ZP_04160720.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|228758404|gb|EEM07571.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
          Length = 158

 Score =  201 bits (512), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 42/149 (28%), Positives = 81/149 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVLIPTGKILSSSIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFQHGESDRLLPWKQRYKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPE 160
           + SE+++ E+A   ++ E+  +  I+E +
Sbjct: 125 NTSEKKMLENAHEFLISELGLIKGITENQ 153


>gi|213965110|ref|ZP_03393308.1| transcriptional regulator, CarD family protein [Corynebacterium
           amycolatum SK46]
 gi|213952224|gb|EEB63608.1| transcriptional regulator, CarD family protein [Corynebacterium
           amycolatum SK46]
          Length = 191

 Score =  201 bits (512), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 47/177 (26%), Positives = 86/177 (48%), Gaps = 4/177 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   I  I E+E+ G  +++ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MEFSIGDTVVYPHHGAAKIENIIERELNGETVQYLVLQILQSDLNIQVPAKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLLKVFSVLRETDVEEAGNWSRRYKANQERLGSGDINKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKAA 188
           S  E+++   A   +V E+A  + + E +    +E   +   +  E+  +  Q+ AA
Sbjct: 121 SAGEKRMLSKARQVLVGELALADGVDEAK----VEEVFARVDATIERHRALAQEGAA 173


>gi|228998394|ref|ZP_04157985.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
 gi|229005881|ref|ZP_04163575.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228755345|gb|EEM04696.1| Transcriptional regulator, CarD [Bacillus mycoides Rock1-4]
 gi|228761315|gb|EEM10270.1| Transcriptional regulator, CarD [Bacillus mycoides Rock3-17]
          Length = 158

 Score =  201 bits (512), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 40/151 (26%), Positives = 80/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMEVMIPTGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALTHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKIQEGAEVVRDLMRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIKGITENQMKSF 157


>gi|260892305|ref|YP_003238402.1| transcriptional regulator, CarD family [Ammonifex degensii KC4]
 gi|260864446|gb|ACX51552.1| transcriptional regulator, CarD family [Ammonifex degensii KC4]
          Length = 159

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 51/159 (32%), Positives = 89/159 (55%), Gaps = 1/159 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPVGKAIDIGMRK 71
            F+ G+ +VYP HG G I  I+E+E+ G K E++V+ F   + M + VP+    +IG+R+
Sbjct: 1   MFKVGDKVVYPMHGAGIIEAIEEKEILGQKREYYVLRFPIGNNMKVMVPIDNCQEIGLRR 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   V+  LKL+R         W+ R +    KI SG++ A+AEVVR+L R + +   
Sbjct: 61  VIDKSEVQNVLKLLRSSCTAMPANWNHRYRANLEKIKSGNIYAVAEVVRNLARRERERGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  E+++ E+A   ++ E+     + E EA  L++   +
Sbjct: 121 SSGEKRMLENAKQILISELVLAMEMKEEEARQLLDRAFA 159


>gi|163941254|ref|YP_001646138.1| CarD family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|229012829|ref|ZP_04169997.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
 gi|229061220|ref|ZP_04198570.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|229134451|ref|ZP_04263264.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|229168365|ref|ZP_04296090.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|163863451|gb|ABY44510.1| transcriptional regulator, CarD family [Bacillus weihenstephanensis
           KBAB4]
 gi|228615191|gb|EEK72291.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|228649072|gb|EEL05094.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|228718091|gb|EEL69731.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|228748431|gb|EEL98288.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
          Length = 158

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 82/151 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E++G K +++VI      M + +P+GK +   +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEISGEKRQYYVIKMSASNMEVMIPMGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DIKALTNIIDIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|115378642|ref|ZP_01465793.1| transcriptional regulator, CarD family [Stigmatella aurantiaca
           DW4/3-1]
 gi|310820620|ref|YP_003952978.1| carD domain-containing protein transcriptional regulator
           [Stigmatella aurantiaca DW4/3-1]
 gi|115364354|gb|EAU63438.1| transcriptional regulator, CarD family [Stigmatella aurantiaca
           DW4/3-1]
 gi|309393692|gb|ADO71151.1| Transcriptional regulator, CarD domain protein [Stigmatella
           aurantiaca DW4/3-1]
          Length = 165

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 49/162 (30%), Positives = 93/162 (57%), Gaps = 1/162 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M+  F+TG+  VYP  GVG +  I+  EVAG +  F+V+   ++ M + +P+ K   +G+
Sbjct: 1   MQTSFKTGDKAVYPGQGVGEVMGIEHTEVAGQRQSFYVLRILENGMRIMIPINKVGLVGL 60

Query: 70  RKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R++     V++   +++ K   V  T W+RR +EY  KI +G +  IAEV+RDL+     
Sbjct: 61  REIISEEDVKQVYSILKEKDISVDSTTWNRRYREYMEKIKTGSVFEIAEVLRDLYLLKGD 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            + S+ ER++ ++A + +++E++     SE E  + ++   +
Sbjct: 121 KDLSFGERKMLDTARSLLIKELSLAKDCSEEEIESDLKKIFN 162


>gi|148556439|ref|YP_001264021.1| CarD family transcriptional regulator [Sphingomonas wittichii RW1]
 gi|148501629|gb|ABQ69883.1| transcriptional regulator, CarD family [Sphingomonas wittichii RW1]
          Length = 172

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 87/168 (51%), Positives = 123/168 (73%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A    F  G+++VYP HGVG + E++ QE+AG KLE +V+ F+K++M L+VP  KA  
Sbjct: 1   MAAKALSFVVGDYVVYPKHGVGRVVELQSQEIAGAKLELYVLRFEKERMTLRVPTNKAEA 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKLS +  +  AL  ++GK ++KRTMWSRRAQEY+AKINSGDL++I+EVVRDL R D
Sbjct: 61  VGMRKLSSSVTMGEALTTLKGKPKIKRTMWSRRAQEYEAKINSGDLVSISEVVRDLFRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            QPE+SYSERQ++E+A +R+ RE+AA+ ++ EP A   I   L   ++
Sbjct: 121 DQPEQSYSERQIFEAATSRLARELAAMEAVDEPTAQEKILDILRKAAA 168


>gi|119025686|ref|YP_909531.1| transcriptional regulator [Bifidobacterium adolescentis ATCC 15703]
 gi|118765270|dbj|BAF39449.1| possible transcriptional regulator [Bifidobacterium adolescentis
           ATCC 15703]
          Length = 198

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 56/181 (30%), Positives = 93/181 (51%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVGAKEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EIA    + E EA  L++VNL  +  +   E   +E  ++A
Sbjct: 121 GLSAGEKRMLTKARSILTSEIALSEHLDENEAQRLLDVNLGYEPPRPGDEDHHTEAPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|311114871|ref|YP_003986092.1| CarD family transcriptional regulator [Gardnerella vaginalis ATCC
           14019]
 gi|310946365|gb|ADP39069.1| CarD family transcriptional regulator [Gardnerella vaginalis ATCC
           14019]
          Length = 235

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 54/180 (30%), Positives = 91/180 (50%), Gaps = 4/180 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMRK 71
           G++ G+ +VYP HG   + EI E+ V G+  ++  +       + + VPV     +G+R 
Sbjct: 39  GYQVGDMVVYPRHGAARVEEISERTVKGITRQYLRLVVLSSDGLEINVPVDNVKKVGVRD 98

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQPE 130
           +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  +  
Sbjct: 99  IVGAKEVAKVFEILRTPILEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDVDEHG 158

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
            S  E+++   A + ++ EIA    I E +A  L+ VNL         E+  ++  ++AA
Sbjct: 159 LSAGEKRMLARARSILISEIALSEKIDEEQAERLLNVNLGYADPLPGDEQHHTQAPEEAA 218


>gi|229817858|ref|ZP_04448140.1| hypothetical protein BIFANG_03144 [Bifidobacterium angulatum DSM
           20098]
 gi|229784758|gb|EEP20872.1| hypothetical protein BIFANG_03144 [Bifidobacterium angulatum DSM
           20098]
          Length = 197

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 59/181 (32%), Positives = 97/181 (53%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+  E+  ++    D + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAARVEAITERTVRGVTREYLELSVLSADGLVINVPVDNAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EIA    I E EA  L++VNL    +K   EK  ++  ++A
Sbjct: 121 GLSAGEKRMLTKARSILTSEIALSEKIEESEAQRLLDVNLGYSPAKPGDEKHHTQEPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|254293138|ref|YP_003059161.1| CarD family transcriptional regulator [Hirschia baltica ATCC 49814]
 gi|254041669|gb|ACT58464.1| transcriptional regulator, CarD family [Hirschia baltica ATCC
           49814]
          Length = 171

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 99/174 (56%), Positives = 129/174 (74%), Gaps = 3/174 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  Q    +M   F   +HIVYPAHGVG +T ++ QEVA MKLE +V+AF++DK+ L+VP
Sbjct: 1   MANQAGTGSM---FEVEQHIVYPAHGVGRVTAVEVQEVADMKLEVYVVAFEQDKLILRVP 57

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             KA   GMR L+    V  A+K + G+AR+KRTMWSRRAQEY+AKINSGDLI+IAEVVR
Sbjct: 58  TAKAKSSGMRSLASTKVVGDAIKTLGGRARIKRTMWSRRAQEYEAKINSGDLISIAEVVR 117

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           DLHR D QP++SYSERQLYESAL+RM RE+A V +I   EA+  +  +L+ +++
Sbjct: 118 DLHRADDQPDQSYSERQLYESALDRMARELAVVENIEHTEAVARLSQSLAQRAA 171


>gi|19553858|ref|NP_601860.1| transcriptional regulator [Corynebacterium glutamicum ATCC 13032]
 gi|62391499|ref|YP_226901.1| CarD-like transcriptional regulator [Corynebacterium glutamicum
           ATCC 13032]
 gi|21325433|dbj|BAC00055.1| Transcriptional regulators, similar to M. xanthus CarD
           [Corynebacterium glutamicum ATCC 13032]
 gi|41326841|emb|CAF20685.1| CarD-like transcriptional regulator [Corynebacterium glutamicum
           ATCC 13032]
          Length = 198

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 41/176 (23%), Positives = 87/176 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I+ ++++E+ G  +++ V+  +   + ++VP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAAIISALEQREMNGETVDYLVLQINHSDLVVRVPAKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLQKVFSVLREIDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
           S  E+++   A   +V E+A   ++ + +A   +     + +        + ++K 
Sbjct: 121 SAGEKRMLSKARQVLVGELALAETVDDEKADAFLSQVDETIARHRADLLGDEEEKK 176


>gi|307294532|ref|ZP_07574374.1| transcriptional regulator, CarD family [Sphingobium
           chlorophenolicum L-1]
 gi|306879006|gb|EFN10224.1| transcriptional regulator, CarD family [Sphingobium
           chlorophenolicum L-1]
          Length = 175

 Score =  201 bits (512), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 88/174 (50%), Positives = 126/174 (72%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A    F  G+++VYP HGVG + E++++++AGM+LE +V+ F+K++M L+VP  KA  
Sbjct: 1   MAAKALSFDVGDYVVYPKHGVGRVIELQKEQIAGMELELYVLRFEKERMTLRVPTNKAEG 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKLS    +E A++ ++GK +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D
Sbjct: 61  VGMRKLSSNKTLEEAVETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
            QPE+SYSERQ++E+A +R+ RE+AA+    EP A+  I   L+  + K  K  
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEETDEPSALKKILRILNEAAPKHVKVE 174


>gi|116751073|ref|YP_847760.1| CarD family transcriptional regulator [Syntrophobacter fumaroxidans
           MPOB]
 gi|116700137|gb|ABK19325.1| transcriptional regulator, CarD family [Syntrophobacter
           fumaroxidans MPOB]
          Length = 159

 Score =  201 bits (511), Expect = 4e-50,   Method: Composition-based stats.
 Identities = 49/158 (31%), Positives = 86/158 (54%), Gaps = 1/158 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+  VYPAHGVG I  ++ + + G K +F+++    + M + +PV  A  +G+R L
Sbjct: 1   MFKIGDLAVYPAHGVGKIESVETKSIGGKKQDFYIMRILDNDMKIMIPVPNAHTVGLRGL 60

Query: 73  SEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                + +   +++ +   V    W+RR +EY  KI +G +  +AEV+RDL       E 
Sbjct: 61  IGLEDISKVYDILQKREVSVNGGTWNRRYREYMEKIKTGSIYELAEVLRDLTVLKGDKEL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           S+ ER++ ++A   +++E++ V  ISE E    I   L
Sbjct: 121 SFGERKMLDTARTLLLKELSIVQDISEEEVDKGIRDML 158


>gi|154487498|ref|ZP_02028905.1| hypothetical protein BIFADO_01353 [Bifidobacterium adolescentis
           L2-32]
 gi|154084016|gb|EDN83061.1| hypothetical protein BIFADO_01353 [Bifidobacterium adolescentis
           L2-32]
          Length = 198

 Score =  201 bits (511), Expect = 5e-50,   Method: Composition-based stats.
 Identities = 56/181 (30%), Positives = 94/181 (51%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVGAKEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EIA    + E EA  L++VNL  ++ +   E   +E  ++A
Sbjct: 121 GLSAGEKRMLTKARSILTSEIALSEHLDENEAQRLLDVNLGYEAPRPGDEDHHTEAPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|296128524|ref|YP_003635774.1| transcriptional regulator, CarD family [Cellulomonas flavigena DSM
           20109]
 gi|296020339|gb|ADG73575.1| transcriptional regulator, CarD family [Cellulomonas flavigena DSM
           20109]
          Length = 160

 Score =  201 bits (511), Expect = 5e-50,   Method: Composition-based stats.
 Identities = 48/160 (30%), Positives = 81/160 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I EIK + + G +  +  +      + ++VP      +G+R 
Sbjct: 1   MTFTVGETVVYPHHGAAKIEEIKSRTIRGEEKIYLKLKVAHGDLTIEVPAENVDLVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     ++R  +++R     + T WSRR +    K+ SGD+I +AEVVRDL R D+    
Sbjct: 61  VVGQEGLDRVFEVLRAPYTEEPTNWSRRYKANLEKLQSGDVIKVAEVVRDLSRRDADRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A      E +A  +++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEKTEEEKAEAILDEVLAS 160


>gi|75758584|ref|ZP_00738703.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74493930|gb|EAO57027.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 167

 Score =  201 bits (511), Expect = 5e-50,   Method: Composition-based stats.
 Identities = 44/153 (28%), Positives = 81/153 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R 
Sbjct: 14  YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRP 73

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   ++  + +   +   K   W +R +    K+ +G++   AEVVRDL R   +   
Sbjct: 74  VIDILALKHIIHIFHHEESCKLLPWKQRHKVNTDKVKTGEIQEGAEVVRDLMRMKKEKAL 133

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 134 NTSEKKLLDDAYRFLVSELELIKGITENQIKSF 166


>gi|103485742|ref|YP_615303.1| CarD family transcriptional regulator [Sphingopyxis alaskensis
           RB2256]
 gi|98975819|gb|ABF51970.1| transcriptional regulator, CarD family [Sphingopyxis alaskensis
           RB2256]
          Length = 175

 Score =  200 bits (510), Expect = 6e-50,   Method: Composition-based stats.
 Identities = 86/168 (51%), Positives = 120/168 (71%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A    F  G+++VYP HGVG + E+++ E+AGM+LE +V+ F+K+KM L+VP  KA  
Sbjct: 1   MSASTLVFEVGDYVVYPKHGVGRVIELQKSEIAGMQLELYVLRFEKEKMTLRVPTNKAEG 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +GMRKLS    ++ AL+++  K +VKRTMWSRRAQEY+AKINSGDL++IAEV RDL R D
Sbjct: 61  VGMRKLSSDKTLKEALQVLTTKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRAD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            QPE+SYSERQ++E+A +R+ RE+AA+    E  A   I   L+  + 
Sbjct: 121 DQPEQSYSERQIFEAASSRLARELAAMEESDEKTAQAKILQILNEHAP 168


>gi|315605258|ref|ZP_07880304.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           180 str. F0310]
 gi|315313075|gb|EFU61146.1| CarD family transcriptional regulator [Actinomyces sp. oral taxon
           180 str. F0310]
          Length = 172

 Score =  200 bits (510), Expect = 6e-50,   Method: Composition-based stats.
 Identities = 45/166 (27%), Positives = 84/166 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG  TI E+  + + G +  +  +  ++  + ++VP      +G+R 
Sbjct: 1   MSFEIGQTVVYPHHGAATIEEVMTRTIRGEERTYLKLRVNQGDLEIQVPAENVDMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E  L ++R     + T WSRR +    KI +GD++ +AEVVRDL R D   + 
Sbjct: 61  IVDEDGLEEVLSVLRAPYVEEPTNWSRRFKANQEKIATGDIVKVAEVVRDLTRRDDLKKL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
           S  E+++   A + +  E+A   +I +  A   ++  L+    + E
Sbjct: 121 STGEKRMLTKARSILTSELALARNIEKTAAAERLDSVLAEGRIEIE 166


>gi|171743211|ref|ZP_02919018.1| hypothetical protein BIFDEN_02339 [Bifidobacterium dentium ATCC
           27678]
 gi|283455808|ref|YP_003360372.1| CarD family transcriptional regulator [Bifidobacterium dentium Bd1]
 gi|306823056|ref|ZP_07456432.1| transcriptional regulator [Bifidobacterium dentium ATCC 27679]
 gi|309801155|ref|ZP_07695284.1| CarD-like protein [Bifidobacterium dentium JCVIHMP022]
 gi|171278825|gb|EDT46486.1| hypothetical protein BIFDEN_02339 [Bifidobacterium dentium ATCC
           27678]
 gi|283102442|gb|ADB09548.1| CarD family transcriptional regulator [Bifidobacterium dentium Bd1]
 gi|304553688|gb|EFM41599.1| transcriptional regulator [Bifidobacterium dentium ATCC 27679]
 gi|308222044|gb|EFO78327.1| CarD-like protein [Bifidobacterium dentium JCVIHMP022]
          Length = 198

 Score =  200 bits (510), Expect = 6e-50,   Method: Composition-based stats.
 Identities = 54/181 (29%), Positives = 96/181 (53%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +A+ V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVDANEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EI+    + E EA  L++VNL  ++ +   ++  +E   +A
Sbjct: 121 GLSAGEKRMLTKARSILTSEISLSEHLEEGEAQRLLDVNLGYEAPQPGDDQHHTEAPQEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|228924323|ref|ZP_04087573.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228835349|gb|EEM80740.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 158

 Score =  200 bits (510), Expect = 6e-50,   Method: Composition-based stats.
 Identities = 46/153 (30%), Positives = 83/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K ++FVI     KM + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISKMQVMIPTGKIVNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYRFLVSELELIKGITENQIKSF 157


>gi|229031301|ref|ZP_04187307.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|228730059|gb|EEL81033.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
          Length = 158

 Score =  200 bits (510), Expect = 6e-50,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 80/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P G+ +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSGSNMEVMIPAGRILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITAIAHILNIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITESQIKSF 157


>gi|228905766|ref|ZP_04069681.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228853883|gb|EEM98626.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score =  200 bits (510), Expect = 6e-50,   Method: Composition-based stats.
 Identities = 44/153 (28%), Positives = 81/153 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K ++FVI      M + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYFVIKMSISNMQVMIPTGKILNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   ++  + +   +   K   W +R +    K+ +G++   AEVVRDL R   +   
Sbjct: 65  VIDILALKHIIHIFHHEESCKLLPWKQRHKVNTDKVKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYRFLVSELELIKGITENQIKSF 157


>gi|228905590|ref|ZP_04069538.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228854065|gb|EEM98775.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score =  200 bits (510), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 40/153 (26%), Positives = 82/153 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSIRNMQVMIPTGKILSSSIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFQHGESDRLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + S++++ ++A   ++ E+  +  I+E +  + 
Sbjct: 125 NTSDKKMLDNAHEFLISELGLIKGITENQIKSF 157


>gi|47565141|ref|ZP_00236184.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
 gi|47557927|gb|EAL16252.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
          Length = 162

 Score =  200 bits (510), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 45/161 (27%), Positives = 83/161 (51%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+
Sbjct: 1   MDDLFQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGI 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R + +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + + 
Sbjct: 61  RYIVDKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKER 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             + SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 121 ALNASEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTIN 161


>gi|23465567|ref|NP_696170.1| transcriptional regulator [Bifidobacterium longum NCC2705]
 gi|23326233|gb|AAN24806.1| possible transcriptional regulator [Bifidobacterium longum NCC2705]
          Length = 197

 Score =  200 bits (510), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 55/181 (30%), Positives = 91/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MSYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVSASEVAKVFDILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A   +  EIA    I E EA  L++VNL  + ++   +K  +   ++A
Sbjct: 121 GLSAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|229174309|ref|ZP_04301842.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
 gi|228609166|gb|EEK66455.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
          Length = 158

 Score =  200 bits (510), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 40/151 (26%), Positives = 79/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+ G K +++VI      M + +P G+ +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEITGEKQQYYVIKMSGSNMEVMIPAGRILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITAIAHILDIFQHGESDRLLTWKQRYKLNTDKIKTGKIQEGAEVVRDLLRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITESQIKSF 157


>gi|228992334|ref|ZP_04152265.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
 gi|228767359|gb|EEM15991.1| Transcriptional regulator, CarD [Bacillus pseudomycoides DSM 12442]
          Length = 158

 Score =  200 bits (510), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMEVMIPTGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   + R + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALTRIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKIQEGAEVVRDLMRMQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIKGITENQMKSF 157


>gi|300780458|ref|ZP_07090314.1| CarD family transcriptional regulator [Corynebacterium genitalium
           ATCC 33030]
 gi|300534568|gb|EFK55627.1| CarD family transcriptional regulator [Corynebacterium genitalium
           ATCC 33030]
          Length = 197

 Score =  200 bits (510), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 47/153 (30%), Positives = 81/153 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I +I+++E+ G  L+F V+   +  + ++VPV  A  +G+R 
Sbjct: 1   MDFKVGEVVVYPHHGAARIADIEQREMGGETLDFLVLNILQSDLSVRVPVKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVNEDGLRKVFSVLRETDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQGRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           S  E+++   A   +V E+A    I E +A ++
Sbjct: 121 SAGEKRMLGKARQILVGELALAEPIDEAKADDM 153


>gi|256397245|ref|YP_003118809.1| CarD family transcriptional regulator [Catenulispora acidiphila DSM
           44928]
 gi|256363471|gb|ACU76968.1| transcriptional regulator, CarD family [Catenulispora acidiphila
           DSM 44928]
          Length = 160

 Score =  200 bits (509), Expect = 8e-50,   Method: Composition-based stats.
 Identities = 52/160 (32%), Positives = 87/160 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I +I+ + + G   E+ V+   +  + ++VP  KA  +G+R 
Sbjct: 1   MTFKVGETVVYPHHGAALIEDIEIRVIKGEPKEYLVLKVAQGDLTVRVPSEKAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +ER   ++R     + T WSRR +    KI SGD+I +AEVVRDL R D     
Sbjct: 61  VVDQGGLERVFDVLRAPHTEEPTNWSRRYKANIEKIQSGDVIKVAEVVRDLWRRDRDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A   + +E +A  +++  L+S
Sbjct: 121 SAGEKRMLAKARQILVSELALAEATNEDKADAILDEVLAS 160


>gi|16077580|ref|NP_388394.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str.
           168]
 gi|81345932|sp|P96659|YDEB_BACSU RecName: Full=Uncharacterized protein ydeB
 gi|1881322|dbj|BAA19349.1| ydeB [Bacillus subtilis]
 gi|2632813|emb|CAB12320.1| putative transcriptional regulator [Bacillus subtilis subsp.
           subtilis str. 168]
          Length = 153

 Score =  200 bits (509), Expect = 9e-50,   Method: Composition-based stats.
 Identities = 39/152 (25%), Positives = 79/152 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E    K +++VI      M + +P  K +   +R +
Sbjct: 1   MFQIGDNIVYPMHGAGIIEAIEEKEFLEEKQQYYVIRMSISNMTVMIPTSKILSSNIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   +
Sbjct: 61  TDILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQEGAEVVRDLMRMKKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 121 ASEKKMLDNAYEFLISELEVIKGITEKQIKSF 152


>gi|228966014|ref|ZP_04127081.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228793684|gb|EEM41220.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
          Length = 158

 Score =  200 bits (509), Expect = 9e-50,   Method: Composition-based stats.
 Identities = 43/153 (28%), Positives = 82/153 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI      M + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGEKQQYYVIKMSISNMQVMIPTGKILNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKTL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L +     +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDVYKFLVSELELIKGITENQIKSF 157


>gi|229191731|ref|ZP_04318708.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|228591725|gb|EEK49567.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
          Length = 158

 Score =  200 bits (509), Expect = 9e-50,   Method: Composition-based stats.
 Identities = 40/151 (26%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPTGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITENQIKSF 157


>gi|332970720|gb|EGK09700.1| CarD family transcriptional regulator [Desmospora sp. 8437]
          Length = 168

 Score =  199 bits (508), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 44/168 (26%), Positives = 86/168 (51%), Gaps = 1/168 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+E+ G    ++V+      M + +P+ K   IG+R++
Sbjct: 1   MFNIGDKVVYPMHGAGIIEAIEEKEILGESQRYYVMRMPVGDMKVMIPMSKVDSIGLREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   +   ++ +   +    + W+RR +    K+ SGD+  +A+VVR L   D +   S
Sbjct: 61  VDEKTISEVIERLANGSAEVSSNWNRRYRANLDKMKSGDIHDLADVVRCLMLRDKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEV-NLSSKSSKTEKS 179
             ER++ ++A   ++ E+     + E +A  L++   LS    + E++
Sbjct: 121 TGERKMLDNARQILISELVLAKEMEESQAFGLLDEIILSESKPRVERA 168


>gi|89096669|ref|ZP_01169561.1| transcriptional regulator, CarD family protein [Bacillus sp. NRRL
           B-14911]
 gi|89088684|gb|EAR67793.1| transcriptional regulator, CarD family protein [Bacillus sp. NRRL
           B-14911]
          Length = 160

 Score =  199 bits (508), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 44/158 (27%), Positives = 83/158 (52%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           R      F+  +++VYP HGVG I  I+E+EV G K +++VI      M + +P GK ++
Sbjct: 2   RYGGDYLFQIDDNVVYPMHGVGIIKAIEEKEVLGEKQQYYVIKMLVGNMEVMIPAGKIVN 61

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R +++   +++ + + +     +   W +R +    KI +G +    EVVRDL R  
Sbjct: 62  SGIRPVTDIIALKQLMNIFQNGETDRLLPWKQRFKVNTDKIKTGKIQECTEVVRDLMRMK 121

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINL 164
            +   + SERQ+  +A   ++ E+  +  I+E +  + 
Sbjct: 122 KEKALNTSERQMLNNAHEILISELGLMKGITENQIKSF 159


>gi|218781211|ref|YP_002432529.1| CarD family transcriptional regulator [Desulfatibacillum
           alkenivorans AK-01]
 gi|218762595|gb|ACL05061.1| transcriptional regulator, CarD family [Desulfatibacillum
           alkenivorans AK-01]
          Length = 177

 Score =  199 bits (508), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 44/169 (26%), Positives = 84/169 (49%), Gaps = 1/169 (0%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
             +  +    F   +  VYPAHGVG I  ++ + + G K  F+++   ++ M + +P   
Sbjct: 9   SNQDASEEYTFSVNDLAVYPAHGVGRIEAVETRTIGGEKQSFYIMRILENDMVIMIPTQN 68

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
              +G+R++     V +   ++  K        W+RR ++Y  KI +G L  +A V RDL
Sbjct: 69  VESVGLREVIRKGDVSQVYAILGEKEIPPDNQTWNRRYRDYMEKIKTGSLFEVAGVFRDL 128

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           +      + S+ ER+L ++A   +++E++   S +E   ++ IE  L S
Sbjct: 129 YLLKVTKDLSFGERKLLDTAQTLLLKELSIAKSCTEEVIMSEIESLLES 177


>gi|148262071|ref|YP_001236198.1| CarD family transcriptional regulator [Acidiphilium cryptum JF-5]
 gi|326405583|ref|YP_004285665.1| CarD family transcriptional regulator [Acidiphilium multivorum
           AIU301]
 gi|146403752|gb|ABQ32279.1| transcriptional regulator, CarD family [Acidiphilium cryptum JF-5]
 gi|325052445|dbj|BAJ82783.1| CarD family transcriptional regulator [Acidiphilium multivorum
           AIU301]
          Length = 266

 Score =  199 bits (508), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 85/165 (51%), Positives = 116/165 (70%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           Q+  A  + F+ G+H+VYP HGVG +  I  +E+AG KLE   I FD+++M L+VPV KA
Sbjct: 99  QRAIAKAETFKPGDHVVYPTHGVGKVERIAAEEIAGQKLELIHITFDENRMTLRVPVNKA 158

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              G+RKLS     +  L  ++G+ARVKRTMWSRRAQEY+AKINSGD +AIAEVVRDLHR
Sbjct: 159 RTAGLRKLSSRKQFDEVLATLKGRARVKRTMWSRRAQEYEAKINSGDPMAIAEVVRDLHR 218

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
              QP++S+SERQ++E AL+R+  E  A+  + +  AI+ +   L
Sbjct: 219 NAGQPDQSFSERQIFEQALDRLAAEYGALEGLDKQGAIDKLLDFL 263


>gi|145296658|ref|YP_001139479.1| hypothetical protein cgR_2565 [Corynebacterium glutamicum R]
 gi|140846578|dbj|BAF55577.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 198

 Score =  199 bits (508), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 41/176 (23%), Positives = 87/176 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I+ ++++E+ G  +++ V+  +   + ++VP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAAIISALEQREMNGETVDYLVLQINHSDLVVRVPAKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLQKVFSVLREIDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
           S  E+++   A   +V E+A   ++ + +A   +     + +        + ++K 
Sbjct: 121 SAGEKRMLSKARQVLVGELALAETVDDVKADAFLSQVDETIARHRADLLGDEEEKK 176


>gi|228922354|ref|ZP_04085661.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228837409|gb|EEM82743.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 158

 Score =  199 bits (508), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITENQIKSF 157


>gi|324327548|gb|ADY22808.1| transcriptional regulator, CarD family protein [Bacillus
           thuringiensis serovar finitimus YBT-020]
          Length = 158

 Score =  199 bits (508), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 42/151 (27%), Positives = 82/151 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP HG G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMHGAGIIKAIEEKEIAGKKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|324328612|gb|ADY23872.1| transcriptional regulator, CarD family protein [Bacillus
           thuringiensis serovar finitimus YBT-020]
          Length = 159

 Score =  199 bits (507), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 44/158 (27%), Positives = 82/158 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R +
Sbjct: 1   MFQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGIRYI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   +
Sbjct: 61  VDKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 121 ASEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTIN 158


>gi|229080349|ref|ZP_04212874.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|228703018|gb|EEL55479.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
          Length = 156

 Score =  199 bits (507), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 44/155 (28%), Positives = 80/155 (51%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +
Sbjct: 1   MGYMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQIMIPKGKILSSNI 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R + +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   + 
Sbjct: 61  RPVIDILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINL 164
             + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 121 ALNTSEKKLLDDAYKFLVSELELIKGITEKQIKSF 155


>gi|52142365|ref|YP_084467.1| CarD family transcriptional regulator [Bacillus cereus E33L]
 gi|51975834|gb|AAU17384.1| possible transcriptional regulator, CarD family [Bacillus cereus
           E33L]
          Length = 158

 Score =  199 bits (507), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 44/153 (28%), Positives = 79/153 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQIMIPKGKILSSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   ++  + +   +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VIDILALKHIIHIFHHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLVSELELIKGITENQIKSF 157


>gi|319442432|ref|ZP_07991588.1| putative transcription factor [Corynebacterium variabile DSM 44702]
          Length = 194

 Score =  199 bits (507), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 41/154 (26%), Positives = 78/154 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   +  I+++E  G  +++ V+   +  + +KVP   A  +G+R 
Sbjct: 1   MEFNIGDVVVYPHHGAAEVKGIEQREFKGQSVDYLVLRILQGDLLVKVPAANAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +++   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGEEGLQKVFSVLRETDVEEAGNWSRRYKANQERLASGDVNRVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           S  E+++   A   +V E+A    + + ++  +I
Sbjct: 121 SAGEKRMLAKARQVLVGELALAEGVDDKKSDEVI 154


>gi|229175432|ref|ZP_04302945.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
 gi|228608040|gb|EEK65349.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
          Length = 164

 Score =  199 bits (507), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQIMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDGILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEFLQDTIN 163


>gi|294786789|ref|ZP_06752043.1| transcriptional regulator, CarD family [Parascardovia denticolens
           F0305]
 gi|294485622|gb|EFG33256.1| transcriptional regulator, CarD family [Parascardovia denticolens
           F0305]
          Length = 230

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 54/181 (29%), Positives = 92/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   I EI E+ + G+   +  +       + + VP      +G+R
Sbjct: 1   MEYKVGDTVVYPRHGAARIEEITERTLRGVTRIYLRLTVLSSDGLEISVPADAVDKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQP 129
           ++     V +  +++R     ++T WSRR +    KI +GD+  IAEVVRDL  R D + 
Sbjct: 61  EVVNGVAVAKVFEILRTPIVEEKTNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDDDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A N +  EIA    I + EA  L++VNL  +  +   EK  ++  ++A
Sbjct: 121 GLSAGEKRMLSKARNILTSEIALSEKIDDEEAQRLLDVNLGYQDPEPGDEKHHAQAPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|317481883|ref|ZP_07940910.1| CarD-like/TRCF domain-containing protein [Bifidobacterium sp.
           12_1_47BFAA]
 gi|316916674|gb|EFV38069.1| CarD-like/TRCF domain-containing protein [Bifidobacterium sp.
           12_1_47BFAA]
          Length = 197

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 57/182 (31%), Positives = 92/182 (50%), Gaps = 5/182 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MSYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVSASEVAKVFGILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT---EKSTSENQDK 186
             S  E+++   A   +  EIA    I E EA  L++VNL  + ++    +  T+E +D 
Sbjct: 121 GLSAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEDA 180

Query: 187 AA 188
           AA
Sbjct: 181 AA 182


>gi|158522831|ref|YP_001530701.1| CarD family transcriptional regulator [Desulfococcus oleovorans
           Hxd3]
 gi|158511657|gb|ABW68624.1| transcriptional regulator, CarD family [Desulfococcus oleovorans
           Hxd3]
          Length = 188

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 44/164 (26%), Positives = 80/164 (48%), Gaps = 3/164 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+ +VYPAHGVG I  I+ + +   + +F+++   +  M + +P      +G+R + 
Sbjct: 20  YQPGDLVVYPAHGVGRIETIESRNIGDTRQDFYIMKILETNMVIMIPTQNLTAVGIRNVI 79

Query: 74  EAHFVERALKLVRGKARV---KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
               V +   ++R +          W+RR +EY  KI +G L  +AEV RDL       +
Sbjct: 80  CKKEVSKIYNIIRSQEECGAGDNQTWNRRYKEYMDKIKTGSLYEVAEVFRDLFLLKMTKD 139

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
            S+ ER+L ++A   +V+E++      E   I+ IE        
Sbjct: 140 LSFGERKLLDTAQGLLVKELSIAKGAEEKTVISEIESFFPKMPP 183


>gi|154508491|ref|ZP_02044133.1| hypothetical protein ACTODO_00992 [Actinomyces odontolyticus ATCC
           17982]
 gi|293194140|ref|ZP_06609941.1| transcriptional regulator, CarD family [Actinomyces odontolyticus
           F0309]
 gi|153798125|gb|EDN80545.1| hypothetical protein ACTODO_00992 [Actinomyces odontolyticus ATCC
           17982]
 gi|292819782|gb|EFF78793.1| transcriptional regulator, CarD family [Actinomyces odontolyticus
           F0309]
          Length = 172

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 46/172 (26%), Positives = 85/172 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG  TI E+  + + G +  +  +  ++  + ++VP      +G+R 
Sbjct: 1   MSFEIGQTVVYPHHGAATIEEVMTRTIRGEERTYLKLRVNQGDLEIQVPAENVDMVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +E  L ++R     + T WSRR +    KI +GD++ +AEVVRDL R D   + 
Sbjct: 61  IVDEDGLEEVLSVLRAPYIEEPTNWSRRFKANQEKIATGDIVKVAEVVRDLTRRDDLKKL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           S  E+++   A   +  E+A   +I +  A   ++  L+    + E+   E 
Sbjct: 121 STGEKRMLTKARGILTSELALARNIEKSAAAERLDAVLAEGRIEVEEDAVEE 172


>gi|325478954|gb|EGC82056.1| CarD-like protein [Anaerococcus prevotii ACS-065-V-Col13]
          Length = 159

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 40/158 (25%), Positives = 78/158 (49%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG GTI  I+++E  G   ++F++      M + +P  K  D+ +R +
Sbjct: 1   MFKIGDKIVYPMHGAGTIDSIEKKEFLGEVKDYFILKMPIGDMDISIPTSKINDMNIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 ++ LK++          W+ R ++    + +GD+  IA +VR+L   D     S
Sbjct: 61  ITKEEGDKVLKILDEDPSDMSENWTTRYRQNQEILKTGDVYEIARMVRNLAILDKDKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            +E++L   +   +  E+    S+ + EA  +I+ ++ 
Sbjct: 121 TTEKKLLNRSRRILASELVMAGSLDKEEAEAMIDESIG 158


>gi|46190223|ref|ZP_00121736.2| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Bifidobacterium longum DJO10A]
 gi|189439614|ref|YP_001954695.1| transcriptional_regulator [Bifidobacterium longum DJO10A]
 gi|213692627|ref|YP_002323213.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. infantis ATCC 15697]
 gi|227546164|ref|ZP_03976213.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           ATCC 55813]
 gi|312133013|ref|YP_004000352.1| transcriptional regulator [Bifidobacterium longum subsp. longum
           BBMN68]
 gi|322688825|ref|YP_004208559.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           157F]
 gi|322690813|ref|YP_004220383.1| transcriptional regulator [Bifidobacterium longum subsp. longum JCM
           1217]
 gi|189428049|gb|ACD98197.1| Transcriptional_regulator [Bifidobacterium longum DJO10A]
 gi|213524088|gb|ACJ52835.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. infantis ATCC 15697]
 gi|227213145|gb|EEI81017.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           ATCC 55813]
 gi|291517113|emb|CBK70729.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. longum F8]
 gi|311774000|gb|ADQ03488.1| transcriptional regulator [Bifidobacterium longum subsp. longum
           BBMN68]
 gi|320455669|dbj|BAJ66291.1| putative transcriptional regulator [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|320458778|dbj|BAJ69399.1| putative transcriptional regulator [Bifidobacterium longum subsp.
           infantis ATCC 15697]
 gi|320460161|dbj|BAJ70781.1| putative transcriptional regulator [Bifidobacterium longum subsp.
           infantis 157F]
          Length = 197

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 55/181 (30%), Positives = 91/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MSYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVSASEVAKVFGILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A   +  EIA    I E EA  L++VNL  + ++   +K  +   ++A
Sbjct: 121 GLSAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|257065690|ref|YP_003151946.1| transcriptional regulator, CarD family [Anaerococcus prevotii DSM
           20548]
 gi|256797570|gb|ACV28225.1| transcriptional regulator, CarD family [Anaerococcus prevotii DSM
           20548]
          Length = 159

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 39/158 (24%), Positives = 79/158 (50%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG GTI  I+++E  G   ++F++      M + +P  K  ++ +R +
Sbjct: 1   MFKIGDKIVYPMHGAGTIDSIEKKEFLGEVKDYFILKMPIGDMDISIPTSKINEMNIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +  LK++          W+ R ++    + +GD+  IA++VR+L   D+    S
Sbjct: 61  ITKEEGDEVLKILDDDPSDMSNNWTVRYRQNQEILKTGDIFEIAKMVRNLAILDNDKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            +E++L   +   +  E+    S+ + EA  +I+ ++ 
Sbjct: 121 TTEKKLLNRSRRILASELVMAGSLKKEEAEAMIDESIG 158


>gi|296453869|ref|YP_003661012.1| CarD family transcriptional regulator [Bifidobacterium longum
           subsp. longum JDM301]
 gi|296183300|gb|ADH00182.1| transcriptional regulator, CarD family [Bifidobacterium longum
           subsp. longum JDM301]
          Length = 197

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 55/181 (30%), Positives = 91/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MSYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNARKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +   ++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVSASEVAKVFGILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A   +  EIA    I E EA  L++VNL  + ++   +K  +   ++A
Sbjct: 121 GLSAGEKRMLTKARAILTSEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|229158326|ref|ZP_04286393.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
 gi|228625284|gb|EEK82044.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
          Length = 164

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTMN 163


>gi|75761918|ref|ZP_00741841.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74490589|gb|EAO53882.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 167

 Score =  199 bits (506), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 40/151 (26%), Positives = 80/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+  +  +R ++
Sbjct: 16  FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRISNSNIRPVT 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 76  DITALVHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 135

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 136 SEKKMLDNAYEFLISELGLIEGITENQIKSF 166


>gi|42783903|ref|NP_981150.1| CarD family transcriptional regulator [Bacillus cereus ATCC 10987]
 gi|206977288|ref|ZP_03238185.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217962204|ref|YP_002340774.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|228987970|ref|ZP_04148076.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
 gi|229141451|ref|ZP_04269988.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|42739833|gb|AAS43758.1| transcriptional regulator, CarD family [Bacillus cereus ATCC 10987]
 gi|206744439|gb|EDZ55849.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217066173|gb|ACJ80423.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|228642014|gb|EEK98308.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|228771774|gb|EEM20234.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
          Length = 164

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTIN 163


>gi|228909469|ref|ZP_04073294.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228850246|gb|EEM95075.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
          Length = 158

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 80/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M L +P G+  +  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMELMIPAGRISNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALVHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITENQIKSF 157


>gi|228943459|ref|ZP_04105903.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228976286|ref|ZP_04136757.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228783390|gb|EEM31498.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228816239|gb|EEM62420.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
          Length = 158

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 44/153 (28%), Positives = 84/153 (54%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K +++VI     KM + +P GK ++  +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQQYYVIKMSISKMQVMIPKGKILNSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   ++  + + + +   K   W +R +    KI +G++   AEVVRDL R   +   
Sbjct: 65  VTDILALKHIIHIFQHEESCKLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   ++ E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLISELELIKGITENQIKSF 157


>gi|30021746|ref|NP_833377.1| CarD-like transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|206969394|ref|ZP_03230349.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|218230882|ref|YP_002368460.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228953921|ref|ZP_04115959.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|228959831|ref|ZP_04121505.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|229047328|ref|ZP_04192927.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
 gi|229071154|ref|ZP_04204380.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|229080862|ref|ZP_04213379.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|229111070|ref|ZP_04240629.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|229128920|ref|ZP_04257896.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
 gi|229146213|ref|ZP_04274588.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|229151843|ref|ZP_04280042.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|229179932|ref|ZP_04307278.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|296504148|ref|YP_003665848.1| CarD-like transcriptional regulator [Bacillus thuringiensis BMB171]
 gi|29897301|gb|AAP10578.1| CarD-like transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|206736435|gb|EDZ53593.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|218158839|gb|ACK58831.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228603613|gb|EEK61088.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|228631656|gb|EEK88286.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|228637272|gb|EEK93727.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|228654625|gb|EEL10487.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
 gi|228672433|gb|EEL27718.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|228702440|gb|EEL54909.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|228712094|gb|EEL64043.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228724070|gb|EEL75416.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
 gi|228799825|gb|EEM46768.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|228805741|gb|EEM52322.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|296325200|gb|ADH08128.1| CarD-like transcriptional regulator [Bacillus thuringiensis BMB171]
          Length = 158

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 40/151 (26%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITENQIKSF 157


>gi|221308340|ref|ZP_03590187.1| hypothetical protein Bsubs1_02893 [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221312662|ref|ZP_03594467.1| hypothetical protein BsubsN3_02869 [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221317585|ref|ZP_03598879.1| hypothetical protein BsubsJ_02828 [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221321861|ref|ZP_03603155.1| hypothetical protein BsubsS_02899 [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|291482932|dbj|BAI84007.1| hypothetical protein BSNT_00885 [Bacillus subtilis subsp. natto
           BEST195]
          Length = 158

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 39/152 (25%), Positives = 79/152 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E    K +++VI      M + +P  K +   +R +
Sbjct: 6   MFQIGDNIVYPMHGAGIIEAIEEKEFLEEKQQYYVIRMSISNMTVMIPTSKILSSNIRPV 65

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   +
Sbjct: 66  TDILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQEGAEVVRDLMRMKKEKALN 125

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 126 ASEKKMLDNAYEFLISELEVIKGITEKQIKSF 157


>gi|212696984|ref|ZP_03305112.1| hypothetical protein ANHYDRO_01547 [Anaerococcus hydrogenalis DSM
           7454]
 gi|212676072|gb|EEB35679.1| hypothetical protein ANHYDRO_01547 [Anaerococcus hydrogenalis DSM
           7454]
          Length = 159

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 41/158 (25%), Positives = 75/158 (47%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G I  ++ +E  G + E+F++      M + +P      + +R +
Sbjct: 1   MFKIGDKIVYPMHGAGIIDSVETKEFLGEEKEYFILKMPIGNMDISIPKSNINKMNIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 E+ L ++  K       W+ R +E    + +GD+  IA +VRDL   D     S
Sbjct: 61  ISKEEGEKILAILDEKPEDLNGNWNLRYRENQEILKTGDIFKIANMVRDLVALDDDKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            +E++L   A   M  E+    S+ + +A  +I+ ++ 
Sbjct: 121 TTEKKLLNRARRIMASELVMSGSLEKDQAEKMIDESIG 158


>gi|270284727|ref|ZP_05966557.2| transcriptional regulator [Bifidobacterium gallicum DSM 20093]
 gi|270276297|gb|EFA22151.1| transcriptional regulator [Bifidobacterium gallicum DSM 20093]
          Length = 198

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 56/181 (30%), Positives = 93/181 (51%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +AH V +  +++R     K   WSRR +    K+ +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVDAHEVAKVFEILRTPIIEKEMNWSRRYKLNVEKLATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EIA    + E EA  L++VNL         ++  S   D+A
Sbjct: 121 GLSAGEKRMLTKARSVLTSEIALSEKLEETEAQRLLDVNLGYSEPLPGDDRHHSFAPDEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|45656119|ref|YP_000205.1| CarD transcriptional regulator [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
 gi|45599352|gb|AAS68842.1| transcriptional regulator (CarD family) [Leptospira interrogans
           serovar Copenhageni str. Fiocruz L1-130]
          Length = 197

 Score =  198 bits (505), Expect = 2e-49,   Method: Composition-based stats.
 Identities = 57/169 (33%), Positives = 91/169 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++VYP HGVG I EI ++ + G K + +V+     KM + +PV KA  + +R + +
Sbjct: 29  KVGDYVVYPIHGVGEILEISKKNILGKKKDCYVLEIQGSKMKVMIPVDKAEQVRIRPIID 88

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +++ + L++         W  R Q    KI SG +  + EV R+L R  S  E S  
Sbjct: 89  KKEIKKVIALLKKDEVDTEEDWKIRYQNNLNKIKSGSIYEVGEVCRNLFRRASGKELSIM 148

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           ER+LYESA N +  E+A    +++ EA NL+   L+S  S +EK   E 
Sbjct: 149 ERKLYESAYNLVKMEVALSKGVTQEEAGNLVSDVLASTLSPSEKKAEEE 197


>gi|326941362|gb|AEA17258.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           chinensis CT-43]
          Length = 153

 Score =  198 bits (505), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 41/152 (26%), Positives = 81/152 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP  G G I  I+E+EV+G K +++VI      M L +P G+ ++  +R +
Sbjct: 1   MFQIGDNIVYPMQGAGIIKAIEEKEVSGEKQQYYVIKMSASNMELMIPAGRILNSNIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   +
Sbjct: 61  TDITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 121 ASEKKMLDNAYEFLISELGLIEGITENQIKSF 152


>gi|229077167|ref|ZP_04209871.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|229100763|ref|ZP_04231596.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|228682650|gb|EEL36695.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|228706186|gb|EEL58471.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
          Length = 158

 Score =  198 bits (505), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 42/153 (27%), Positives = 79/153 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQVMIPTGKILSSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +   +++ +     +   W +R +    KI +G++   AEV+RDL R   +   
Sbjct: 65  VIDILALTHIIQIFQHGESDELLPWKQRHKVNTDKIKTGEIQEGAEVIRDLIRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLVSELELIKGITEKQIKSF 157


>gi|229173800|ref|ZP_04301340.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
 gi|228609650|gb|EEK66932.1| Transcriptional regulator, CarD [Bacillus cereus MM3]
          Length = 156

 Score =  198 bits (505), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 44/155 (28%), Positives = 80/155 (51%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +
Sbjct: 1   MGYMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSLSNMQIMIPKGKILSSNI 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R + +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   + 
Sbjct: 61  RPVIDILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINL 164
             + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 121 ALNTSEKKLLDDAYKFLVSELELIKGITEKQMKSF 155


>gi|325845929|ref|ZP_08169127.1| CarD-like protein [Anaerococcus hydrogenalis ACS-025-V-Sch4]
 gi|325481835|gb|EGC84867.1| CarD-like protein [Anaerococcus hydrogenalis ACS-025-V-Sch4]
          Length = 159

 Score =  198 bits (504), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 41/158 (25%), Positives = 75/158 (47%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G I  ++ +E  G + E+F++      M + +P      + +R +
Sbjct: 1   MFKIGDKIVYPMHGAGVIDSVETKEFLGEEKEYFILKMPIGNMDISIPKSNINKMNIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 E+ L ++  K       W+ R +E    + +GD+  IA +VRDL   D     S
Sbjct: 61  ISKEEGEKILAILDEKPEDLNGNWNLRYRENQEILKTGDIFKIANMVRDLVALDDDKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            +E++L   A   M  E+    S+ + +A  +I+ ++ 
Sbjct: 121 TTEKKLLNRARRIMASELVMSGSLEKDQAEKMIDESIG 158


>gi|228940730|ref|ZP_04103293.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228973650|ref|ZP_04134232.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228980206|ref|ZP_04140520.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228779564|gb|EEM27817.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228786111|gb|EEM34108.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228818974|gb|EEM65036.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
          Length = 158

 Score =  198 bits (504), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+EV+G K +++VI      M L +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEVSGEKQQYYVIKMSASNMELMIPAGRILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALAHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITENQIKSF 157


>gi|126650362|ref|ZP_01722590.1| transcriptional regulator, CarD family protein [Bacillus sp.
           B14905]
 gi|126593012|gb|EAZ86994.1| transcriptional regulator, CarD family protein [Bacillus sp.
           B14905]
          Length = 158

 Score =  198 bits (504), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G++IVYP HGVG I  I+E+E++G K +++VI      M + +P GK +   +R ++
Sbjct: 7   FEIGDNIVYPMHGVGIIKAIEEKEISGEKQQYYVIKMLIGNMQIMIPTGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KIN+G +    EVVRDL R   +   + 
Sbjct: 67  DIIALKHIINIFQHGESDRLLPWKQRYKVNTDKINTGKIQECTEVVRDLIRMKKEQGLNS 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+  +  + 
Sbjct: 127 SEKKMLDNAHEFLISELVLIKGITVNQIKSF 157


>gi|227495622|ref|ZP_03925938.1| possible transcription factor CarD [Actinomyces coleocanis DSM
           15436]
 gi|226830854|gb|EEH63237.1| possible transcription factor CarD [Actinomyces coleocanis DSM
           15436]
          Length = 169

 Score =  198 bits (504), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 46/163 (28%), Positives = 76/163 (46%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE IVYP HG  TI EI  +E  G K  +  +   +  + ++VP      +G R 
Sbjct: 1   MTFHIGETIVYPHHGAATIEEINVREFKGEKRTYLTLRVAQGDLTIQVPADNVEMVGGRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +    +  + ++   +  +  +WSRR ++   KI SG + ++AEVVRDL R D+    
Sbjct: 61  VVDEGGFQEVVDILHEDSTDEPAIWSRRYKQNQEKIASGSIRSVAEVVRDLTRRDAVKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           S  E+ +   A   +  E+A    I E  A   ++  L   + 
Sbjct: 121 SAGEKCMLSKARQILTSEVALARGIDEAAAHICLDEILEEVAG 163


>gi|83942849|ref|ZP_00955310.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           EE-36]
 gi|83846942|gb|EAP84818.1| transcriptional regulator, CarD family protein [Sulfitobacter sp.
           EE-36]
          Length = 160

 Score =  198 bits (504), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 99/156 (63%), Positives = 118/156 (75%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
            E +VYPAHGVG I  ++EQEVAG+ LE FVIAF+KDKM L+VP  KA +IGMR LS   
Sbjct: 1   NEFVVYPAHGVGQIISVEEQEVAGISLELFVIAFEKDKMTLRVPTHKATEIGMRALSSPD 60

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
            +  A+K ++GKA+VKR MWSRRAQEY+ KINSGDLIAIAEVVRDLHRTD Q E+SYSER
Sbjct: 61  VISHAMKTLKGKAKVKRAMWSRRAQEYEQKINSGDLIAIAEVVRDLHRTDDQREQSYSER 120

Query: 137 QLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           QLYE+AL R+ RE+AAV    E  A   +   L S+
Sbjct: 121 QLYEAALERLTREVAAVAGGDELAASKQVGDVLESR 156


>gi|299144435|ref|ZP_07037515.1| transcriptional regulator, CarD family [Peptoniphilus sp. oral
           taxon 386 str. F0131]
 gi|298518920|gb|EFI42659.1| transcriptional regulator, CarD family [Peptoniphilus sp. oral
           taxon 386 str. F0131]
          Length = 161

 Score =  198 bits (504), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 45/156 (28%), Positives = 83/156 (53%), Gaps = 1/156 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+++E+ G   +++++    + M + VPV  A ++G+R++
Sbjct: 1   MFDIGDKVVYPMHGAGVIVAIEDREILGEIRKYYILKMPINDMKVMVPVENADEVGVREI 60

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
            +   +   L+++   +       W+RR +    +I SG++  IA+VVR L R DS+   
Sbjct: 61  LDEDKMNLVLEVLSCNEITNMPKNWNRRYRFNMDRIKSGNIEEIAKVVRCLERLDSKKSL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
           S  ER++   A   +V E+  V + S  E   L++ 
Sbjct: 121 STGERKMLNGAKQIIVSEMVLVYNKSVEEITELVDK 156


>gi|224282833|ref|ZP_03646155.1| transcriptional regulator [Bifidobacterium bifidum NCIMB 41171]
 gi|310287288|ref|YP_003938546.1| transcriptional regulator, CarD family [Bifidobacterium bifidum
           S17]
 gi|311064136|ref|YP_003970861.1| transcriptional regulator CarD [Bifidobacterium bifidum PRL2010]
 gi|313139992|ref|ZP_07802185.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
           41171]
 gi|309251224|gb|ADO52972.1| transcriptional regulator, CarD family [Bifidobacterium bifidum
           S17]
 gi|310866455|gb|ADP35824.1| CarD transcriptional regulator [Bifidobacterium bifidum PRL2010]
 gi|313132502|gb|EFR50119.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB
           41171]
          Length = 198

 Score =  198 bits (504), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 57/181 (31%), Positives = 92/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   +  I E+ V G+K E+  +       + + VPV  A  +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAARVEAITERVVKGVKREYLQLTVLSSDGLVINVPVENAQKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +A+ V +  +++R     K   WSRR +    K+ +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVDANEVAKVFEILRTPIVEKEMNWSRRYKLNVEKLATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EIA    + E E   L++VNL     K   EK  SE   + 
Sbjct: 121 GLSAGEKRMLTRARSILTSEIALSEDLDEAEIQRLLDVNLGFSEPKPGDEKHHSEAPAEP 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|301056223|ref|YP_003794434.1| CarD-like transcriptional regulator [Bacillus anthracis CI]
 gi|300378392|gb|ADK07296.1| CarD-like transcriptional regulator [Bacillus cereus biovar
           anthracis str. CI]
          Length = 159

 Score =  198 bits (503), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 44/158 (27%), Positives = 82/158 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R +
Sbjct: 1   MFQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   +
Sbjct: 61  VDKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 121 ASEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTMN 158


>gi|321314162|ref|YP_004206449.1| putative transcriptional regulator [Bacillus subtilis BSn5]
 gi|320020436|gb|ADV95422.1| putative transcriptional regulator [Bacillus subtilis BSn5]
          Length = 158

 Score =  198 bits (503), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 39/152 (25%), Positives = 79/152 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E    K +++VI      M + +P  K +   +R +
Sbjct: 6   MFQIGDNIVYPMHGAGIIEAIEEKEFLEEKQQYYVIRMSISNMTVMIPTRKILSSNIRPV 65

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   +
Sbjct: 66  TDILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQEGAEVVRDLMRMKKEKALN 125

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 126 ASEKKMLDNAYEFLISELEVIKGITEKQIKSF 157


>gi|218898740|ref|YP_002447151.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228902146|ref|ZP_04066310.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228966545|ref|ZP_04127598.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|218545939|gb|ACK98333.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228793267|gb|EEM40817.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228857572|gb|EEN02068.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 158

 Score =  198 bits (503), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 40/151 (26%), Positives = 80/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E++G K +++VI      M L +P G+  +  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEISGEKQQYYVIKMSASNMELMIPAGRISNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALVHIMDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAYEFLISELGLIEGITENQIKSF 157


>gi|227547934|ref|ZP_03977983.1| CarD family transcriptional regulator [Corynebacterium
           lipophiloflavum DSM 44291]
 gi|227079945|gb|EEI17908.1| CarD family transcriptional regulator [Corynebacterium
           lipophiloflavum DSM 44291]
          Length = 204

 Score =  197 bits (502), Expect = 5e-49,   Method: Composition-based stats.
 Identities = 46/153 (30%), Positives = 80/153 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ GE +VYP HG   I +I+E+E+ G  L+F V+   +  + ++VPV  +  +G+R 
Sbjct: 1   MEFKVGEVVVYPHHGAARIADIEEREMGGETLDFLVLKILQSDLEVRVPVKNSELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     + +   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVNEAGLRKVFSVLRETDVEEAGNWSRRYKANQERLASGDINKVAEVVRDLWRRDQGKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           S  E+++   A   +V E+A    + E +A  +
Sbjct: 121 SAGEKRMLGKARQILVGELALATPVDEAKAEEM 153


>gi|330838625|ref|YP_004413205.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
 gi|329746389|gb|AEB99745.1| transcriptional regulator, CarD family [Selenomonas sputigena ATCC
           35185]
          Length = 163

 Score =  197 bits (502), Expect = 5e-49,   Method: Composition-based stats.
 Identities = 40/157 (25%), Positives = 74/157 (47%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +VYP HG G I+ I++ EV G    ++V+      M + +P     ++G+R +  
Sbjct: 3   QVGDTVVYPMHGAGVISGIEDCEVLGEGKSYYVLQMPLGNMKVMIPTDNVDNMGLRDVIP 62

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              VE    +++         W++R      ++ SGD+  +A V R+L   D   + S  
Sbjct: 63  ETQVEEVKDILQMAPERATGSWNKRFHANLERMKSGDICDVAAVARNLVLQDRLRKISSG 122

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           ER+L + A   +V E+    S S  E  + ++  L+ 
Sbjct: 123 ERRLLDLARQIIVSELVYACSKSPEEVKSWMDGILAE 159


>gi|118478884|ref|YP_896035.1| CarD family transcriptional regulator [Bacillus thuringiensis str.
           Al Hakam]
 gi|118418109|gb|ABK86528.1| transcriptional regulator, CarD family [Bacillus thuringiensis str.
           Al Hakam]
          Length = 167

 Score =  197 bits (502), Expect = 6e-49,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 16  FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 75

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 76  DIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 135

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 136 SEKKMLDNAHEFLISELGLIEGITENQIKSF 166


>gi|49481535|ref|YP_038761.1| CarD family transcriptional regulator [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|118479850|ref|YP_897001.1| CarD family transcriptional regulator [Bacillus thuringiensis str.
           Al Hakam]
 gi|196032819|ref|ZP_03100232.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196040853|ref|ZP_03108151.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|196043838|ref|ZP_03111075.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|218905945|ref|YP_002453779.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225866704|ref|YP_002752082.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|228929769|ref|ZP_04092786.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228936026|ref|ZP_04098836.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228948465|ref|ZP_04110747.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|229093818|ref|ZP_04224917.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|229124284|ref|ZP_04253475.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|229186972|ref|ZP_04314126.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|49333091|gb|AAT63737.1| transcriptional regulator, CarD family [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|118419075|gb|ABK87494.1| transcriptional regulator, CarD family [Bacillus thuringiensis str.
           Al Hakam]
 gi|195994248|gb|EDX58203.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196025174|gb|EDX63844.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|196028307|gb|EDX66916.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|218538565|gb|ACK90963.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225788519|gb|ACO28736.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|228596526|gb|EEK54192.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|228659185|gb|EEL14834.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|228689703|gb|EEL43511.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|228811224|gb|EEM57563.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|228823794|gb|EEM69616.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228829948|gb|EEM75568.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
          Length = 164

 Score =  197 bits (502), Expect = 6e-49,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTMN 163


>gi|15603905|ref|NP_220420.1| hypothetical protein RP026 [Rickettsia prowazekii str. Madrid E]
 gi|3860596|emb|CAA14497.1| unknown [Rickettsia prowazekii]
          Length = 201

 Score =  197 bits (502), Expect = 6e-49,   Method: Composition-based stats.
 Identities = 77/172 (44%), Positives = 114/172 (66%), Gaps = 1/172 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T  + +   +  F+ G+ IVYPAHGVG IT I+   +A  +++ +VI+F +DKM LKVP
Sbjct: 28  ITQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIADTEIKVYVISFSQDKMTLKVP 87

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+R
Sbjct: 88  VNRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLR 147

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           DLH+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 148 DLHKN-VDNDRSYSERTLYESALNRLAGELAILENIDPTEAINKLVEVLREK 198


>gi|284043149|ref|YP_003393489.1| transcriptional regulator, CarD family [Conexibacter woesei DSM
           14684]
 gi|283947370|gb|ADB50114.1| transcriptional regulator, CarD family [Conexibacter woesei DSM
           14684]
          Length = 171

 Score =  197 bits (501), Expect = 6e-49,   Method: Composition-based stats.
 Identities = 42/163 (25%), Positives = 85/163 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+++VYP HG G + + +++E+ G   E+  I    + M + VP   A   G+R+
Sbjct: 1   MEFEIGDNVVYPHHGAGKVLKKEDKEILGETREYLTIKILHNDMTVMVPTANAAVAGLRR 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   V++ L +++ +       W+RR +    KI +GD+  +AEVVR+L   +++   
Sbjct: 61  VIDEETVKKVLAVLQDECSDMPKNWNRRFKHNRDKIKTGDIYELAEVVRNLAIREAEKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           S  E+Q++  A   +  E+     + E +A   ++  L++ +S
Sbjct: 121 STGEKQMFTRAKKILASELMYALEMEEEQAEEHLDELLAASAS 163


>gi|52140791|ref|YP_086042.1| CarD family transcriptional regulator [Bacillus cereus E33L]
 gi|222098186|ref|YP_002532243.1| transcriptional regulator, card family [Bacillus cereus Q1]
 gi|228917367|ref|ZP_04080920.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|229032373|ref|ZP_04188344.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|229198880|ref|ZP_04325571.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
 gi|51974260|gb|AAU15810.1| transcriptional regulator, CarD family [Bacillus cereus E33L]
 gi|221242244|gb|ACM14954.1| transcriptional regulator, CarD family [Bacillus cereus Q1]
 gi|228584583|gb|EEK42710.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
 gi|228728936|gb|EEL79941.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|228842294|gb|EEM87389.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
          Length = 164

 Score =  197 bits (501), Expect = 7e-49,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTIN 163


>gi|269217464|ref|ZP_06161318.1| transcriptional regulator, CarD family [Actinomyces sp. oral taxon
           848 str. F0332]
 gi|269213085|gb|EEZ79425.1| transcriptional regulator, CarD family [Actinomyces sp. oral taxon
           848 str. F0332]
          Length = 163

 Score =  197 bits (501), Expect = 7e-49,   Method: Composition-based stats.
 Identities = 45/162 (27%), Positives = 86/162 (53%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             +  GE +VYP HG   I ++  +++ G +  +  +   +  + ++VP     D+G+R 
Sbjct: 1   MSYTIGETVVYPHHGAARIEDVFTRKIRGEEKTYLKLRVVQGDLEIQVPADMLEDVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +S+   +++   ++R +   + + WSRR +    K+ SGD+I +AEVVRDL R D+    
Sbjct: 61  VSDDEQLKQVFTVLRAEQIEEPSNWSRRYKANSEKLTSGDVIKVAEVVRDLTRRDADRHL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E+++   A   +  E+A    +SE EA+ L++  L   +
Sbjct: 121 SAGEKRMLSQARQILGSEVALARQVSEGEALELLDEILGESA 162


>gi|229075538|ref|ZP_04208525.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|229098087|ref|ZP_04229035.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|229104182|ref|ZP_04234854.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|229117105|ref|ZP_04246484.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228666273|gb|EEL21736.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228679199|gb|EEL33404.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|228685278|gb|EEL39208.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|228707517|gb|EEL59703.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
          Length = 158

 Score =  197 bits (501), Expect = 8e-49,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 82/151 (54%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI    + M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSANNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|157825168|ref|YP_001492888.1| transcriptional regulator [Rickettsia akari str. Hartford]
 gi|157799126|gb|ABV74380.1| Transcriptional regulator [Rickettsia akari str. Hartford]
          Length = 177

 Score =  196 bits (500), Expect = 9e-49,   Method: Composition-based stats.
 Identities = 79/171 (46%), Positives = 115/171 (67%), Gaps = 1/171 (0%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  + +   + GF+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV
Sbjct: 5   TQSENKTEQKSGFKIGQRIVYPAHGVGEITNIEYNTIAGTEIKVYVISFSQDKMTLKVPV 64

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RD
Sbjct: 65  SRAAVVGLRAVASRKDLDLIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRD 124

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           LH+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 125 LHKN-VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 174


>gi|227496787|ref|ZP_03927058.1| transcription factor CarD [Actinomyces urogenitalis DSM 15434]
 gi|226833703|gb|EEH66086.1| transcription factor CarD [Actinomyces urogenitalis DSM 15434]
          Length = 164

 Score =  196 bits (500), Expect = 9e-49,   Method: Composition-based stats.
 Identities = 50/163 (30%), Positives = 85/163 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG   I +I++++V G +  +  +   +  + + VP      IG+R 
Sbjct: 1   MTFEVGETVVYPHHGAARIIDIRQRKVRGEEKTYLQLEVAQGDLTILVPAESVDYIGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +A  +E+   ++R     + T WSRR +    KI SGD+I +AEVVRDL R D+    
Sbjct: 61  VVDAAGLEKVFDVLRAPLTEEPTNWSRRFKANQEKIASGDVIKVAEVVRDLSRRDTDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           S  E+++   A   +V E+A      E  A + ++  L+S ++
Sbjct: 121 SAGEKRMLSKARQILVSELALAEKTEEEAAESKLDEVLASGTA 163


>gi|47567932|ref|ZP_00238639.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
 gi|47555410|gb|EAL13754.1| CarD-like transcriptional regulator [Bacillus cereus G9241]
          Length = 158

 Score =  196 bits (500), Expect = 9e-49,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 80/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIIDIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|256546065|ref|ZP_05473418.1| CarD family transcriptional regulator [Anaerococcus vaginalis ATCC
           51170]
 gi|256398182|gb|EEU11806.1| CarD family transcriptional regulator [Anaerococcus vaginalis ATCC
           51170]
          Length = 159

 Score =  196 bits (500), Expect = 9e-49,   Method: Composition-based stats.
 Identities = 40/158 (25%), Positives = 75/158 (47%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G I  ++ +E  G + E+F++      M + +P      + +R +
Sbjct: 1   MFKIGDKIVYPMHGAGIIDSVETKEFLGEEKEYFILKMPIGNMDISIPKANINKMNIRDV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 E  L ++    +   + W+ R +E    + +GD+  IA +VRDL   D     S
Sbjct: 61  ISKKEGEEILAILEQDPKDLNSNWNLRYRENQEILKTGDIFKIANMVRDLVALDDDKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            +E++L   A   M  E+    S+ + +A  +I+ ++ 
Sbjct: 121 TTEKKLLNRARRIMASELVMSGSLEKDDAEKMIDESIG 158


>gi|165870992|ref|ZP_02215643.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167641498|ref|ZP_02399747.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170709170|ref|ZP_02899595.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
 gi|164713203|gb|EDR18729.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167510580|gb|EDR85977.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170125925|gb|EDS94827.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
          Length = 153

 Score =  196 bits (499), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 41/152 (26%), Positives = 81/152 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R +
Sbjct: 1   MFQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILNSNIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   +
Sbjct: 61  TDIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 121 ASEKKMLDNAHEFLISELGLIEGITENQIKSF 152


>gi|209965508|ref|YP_002298423.1| CarD-like transcriptional regulator protein, putative
           [Rhodospirillum centenum SW]
 gi|209958974|gb|ACI99610.1| CarD-like transcriptional regulator protein, putative
           [Rhodospirillum centenum SW]
          Length = 166

 Score =  196 bits (499), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 81/165 (49%), Positives = 114/165 (69%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           +    F  G+H+VYPAHGVG I  I+   +A   +  + I F+K++M LKVPV KA   G
Sbjct: 2   SENLEFAAGDHVVYPAHGVGKIIGIETHSIAEQTVTLYAIQFEKERMTLKVPVAKARAAG 61

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R+LS    ++ AL+ ++G +R+KR MWSRRAQEY+AKINSGD ++IAEVVRDL+R + Q
Sbjct: 62  LRRLSSKDRIKAALETLQGPSRIKRIMWSRRAQEYEAKINSGDPVSIAEVVRDLYRGEDQ 121

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            ++SYSERQ+Y +AL R+ RE+A V  I E +A   +E  LS  +
Sbjct: 122 SDQSYSERQIYHAALERLARELAVVEKIDERKATERLEAVLSKAA 166


>gi|148272243|ref|YP_001221804.1| putative transcription factor [Clavibacter michiganensis subsp.
           michiganensis NCPPB 382]
 gi|147830173|emb|CAN01106.1| putative transcription factor [Clavibacter michiganensis subsp.
           michiganensis NCPPB 382]
          Length = 164

 Score =  196 bits (499), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 48/161 (29%), Positives = 84/161 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TIT +K + + G+  ++  +   + ++ + VPV  A  +G+R 
Sbjct: 1   MIFEVGETVVYPHHGAATITAVKTRTIKGVDKKYITLQIHQSELVIDVPVDNAELVGLRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + ++  VE    ++RG    +   WSRR +    K+ SGD+  ++EVVRDL R D     
Sbjct: 61  VIDSSGVEAVFDVLRGDVEEEAGNWSRRFKANTEKMGSGDVRRVSEVVRDLWRRDQDSGV 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A     ++ EA  +++  L+  
Sbjct: 121 SAGEKRMLSKARQILVSELALAQKSTDEEASVVLDGVLAQS 161


>gi|30263594|ref|NP_845971.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Ames]
 gi|47528992|ref|YP_020341.1| CarD family transcriptional regulator [Bacillus anthracis str.
           'Ames Ancestor']
 gi|49186442|ref|YP_029694.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Sterne]
 gi|52141890|ref|YP_084935.1| CarD family transcriptional regulator [Bacillus cereus E33L]
 gi|65320919|ref|ZP_00393878.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Bacillus anthracis str. A2012]
 gi|167636360|ref|ZP_02394661.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0442]
 gi|170689537|ref|ZP_02880724.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0465]
 gi|177652471|ref|ZP_02934938.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190564601|ref|ZP_03017522.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|196034117|ref|ZP_03101527.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196038188|ref|ZP_03105497.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|196044624|ref|ZP_03111859.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|218904774|ref|YP_002452608.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225865630|ref|YP_002751008.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|227813522|ref|YP_002813531.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
 gi|228928695|ref|ZP_04091731.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228934921|ref|ZP_04097752.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228947260|ref|ZP_04109554.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|229092619|ref|ZP_04223770.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|229123162|ref|ZP_04252368.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|229157223|ref|ZP_04285303.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
 gi|229185880|ref|ZP_04313053.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|229602120|ref|YP_002867837.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0248]
 gi|254686212|ref|ZP_05150071.1| CarD family transcriptional regulator [Bacillus anthracis str.
           CNEVA-9066]
 gi|254726022|ref|ZP_05187804.1| CarD family transcriptional regulator [Bacillus anthracis str.
           A1055]
 gi|254738685|ref|ZP_05196388.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Western North America USA6153]
 gi|254744757|ref|ZP_05202435.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Kruger B]
 gi|254753003|ref|ZP_05205039.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Vollum]
 gi|254759274|ref|ZP_05211300.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Australia 94]
 gi|301055137|ref|YP_003793348.1| CarD family transcriptional regulator [Bacillus anthracis CI]
 gi|30258229|gb|AAP27457.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Ames]
 gi|47504140|gb|AAT32816.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           'Ames Ancestor']
 gi|49180369|gb|AAT55745.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Sterne]
 gi|51975359|gb|AAU16909.1| transcriptional regulator, CarD family [Bacillus cereus E33L]
 gi|167528287|gb|EDR91064.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0442]
 gi|170666494|gb|EDT17270.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0465]
 gi|172082145|gb|EDT67212.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190563918|gb|EDV17882.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|195993191|gb|EDX57149.1| transcriptional regulator, CarD family [Bacillus cereus W]
 gi|196024659|gb|EDX63331.1| transcriptional regulator, CarD family [Bacillus cereus 03BB108]
 gi|196030596|gb|EDX69194.1| transcriptional regulator, CarD family [Bacillus cereus NVH0597-99]
 gi|218535293|gb|ACK87691.1| transcriptional regulator, CarD family [Bacillus cereus AH820]
 gi|225788624|gb|ACO28841.1| transcriptional regulator, CarD family [Bacillus cereus 03BB102]
 gi|227004447|gb|ACP14190.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
 gi|228597592|gb|EEK55239.1| Transcriptional regulator, CarD [Bacillus cereus BGSC 6E1]
 gi|228626287|gb|EEK83034.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 4342]
 gi|228660255|gb|EEL15889.1| Transcriptional regulator, CarD [Bacillus cereus 95/8201]
 gi|228690772|gb|EEL44548.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-42]
 gi|228812507|gb|EEM58834.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|228824821|gb|EEM70622.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228831014|gb|EEM76615.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|229266528|gb|ACQ48165.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0248]
 gi|300377306|gb|ADK06210.1| transcriptional regulator, CarD family [Bacillus cereus biovar
           anthracis str. CI]
          Length = 158

 Score =  196 bits (499), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|229073067|ref|ZP_04206256.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228710053|gb|EEL62038.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
          Length = 158

 Score =  196 bits (499), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 43/153 (28%), Positives = 79/153 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSISNMQIMIPKGKILSSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   +   
Sbjct: 65  VIDILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLVSELELIKGITEKQIKSF 157


>gi|229119116|ref|ZP_04248445.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228664336|gb|EEL19848.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
          Length = 158

 Score =  196 bits (499), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 42/153 (27%), Positives = 80/153 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E++G K  ++VI      M + +P GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKELSGKKQLYYVIKMSISNMQVMIPTGKILSSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +   +++ +     +   W +R +    KI +G++   AEV+RDL R   +   
Sbjct: 65  VIDILALTHIIQIFQHGESDELLPWKQRHKVNTDKIKTGEIQKGAEVIRDLIRMKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLVSELELIKGITEKQIKSF 157


>gi|49479453|ref|YP_037723.1| CarD family transcriptional regulator [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|206976148|ref|ZP_03237057.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217961056|ref|YP_002339624.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|222097108|ref|YP_002531165.1| transcriptional regulator, card family [Bacillus cereus Q1]
 gi|228986740|ref|ZP_04146870.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
 gi|229140266|ref|ZP_04268823.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|49331009|gb|AAT61655.1| transcriptional regulator, CarD family [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|206745602|gb|EDZ57000.1| transcriptional regulator, CarD family [Bacillus cereus H3081.97]
 gi|217063672|gb|ACJ77922.1| transcriptional regulator, CarD family [Bacillus cereus AH187]
 gi|221241166|gb|ACM13876.1| transcriptional regulator, CarD family [Bacillus cereus Q1]
 gi|228643199|gb|EEK99473.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST26]
 gi|228773071|gb|EEM21507.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
          Length = 158

 Score =  196 bits (499), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSASNMEIMIPEGKILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|229030844|ref|ZP_04186866.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
 gi|228730493|gb|EEL81451.1| Transcriptional regulator, CarD [Bacillus cereus AH1271]
          Length = 158

 Score =  196 bits (498), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 43/153 (28%), Positives = 79/153 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G++IVYP HG G I  I+E+E +G K  ++VI      M + +P GK +   +R 
Sbjct: 5   YMFQIGDNIVYPMHGAGIIEAIEEKEFSGKKQLYYVIKMSLSNMQIMIPKGKILSSNIRP 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   + R + + +     +   W +R +    KI +G++   AEV+RDL R   +   
Sbjct: 65  VIDILTLTRIIHIFQHGESGELMPWKQRYKVNTDKIKTGEIQEGAEVIRDLIRIKKEKAL 124

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           + SE++L + A   +V E+  +  I+E +  + 
Sbjct: 125 NTSEKKLLDDAYKFLVSELELIKGITEKQIKSF 157


>gi|332653050|ref|ZP_08418795.1| transcriptional regulator, CarD family [Ruminococcaceae bacterium
           D16]
 gi|332518196|gb|EGJ47799.1| transcriptional regulator, CarD family [Ruminococcaceae bacterium
           D16]
          Length = 158

 Score =  196 bits (498), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 46/158 (29%), Positives = 77/158 (48%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +V+P HG G +  I +++V G+  E++V+      M + VP     +IG+R +
Sbjct: 1   MFQIGDKVVHPMHGAGIVDSIVQKKVNGVMREYYVLKLPVRAMVVMVPTENCEEIGVRPI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +    +R L  +          W+RR +E   +I SGDL  +A VV+ L   D Q   S
Sbjct: 61  VDREQADRVLAAIPDIQVEMTQNWNRRYRENMERIKSGDLFEVARVVKGLMLRDVQKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++  SA   ++ EI    S S  +    I+  L+
Sbjct: 121 TGERKMLHSAKQILISEIVMCQSSSYEDVEACIDHALA 158


>gi|304321707|ref|YP_003855350.1| transcriptional regulator [Parvularcula bermudensis HTCC2503]
 gi|303300609|gb|ADM10208.1| transcriptional regulator [Parvularcula bermudensis HTCC2503]
          Length = 308

 Score =  196 bits (498), Expect = 1e-48,   Method: Composition-based stats.
 Identities = 92/175 (52%), Positives = 121/175 (69%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            + R    Q F+    I+YPAHGVG I ++++Q +   ++E FVI F+ +KM L+VPV K
Sbjct: 134 AEARRDKNQKFKVNTQIIYPAHGVGNIVDLEKQTIGDFEVELFVIDFEHEKMKLRVPVAK 193

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
           A   GMR LS    ++ AL+L+ G+ARVKRTMWSRRAQEY+AKINSGDL+++AEVVRDL 
Sbjct: 194 AAASGMRNLSTTEQIDDALELLEGRARVKRTMWSRRAQEYEAKINSGDLVSVAEVVRDLF 253

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           R D QPE+SYSERQL+E A  R  RE+AAV   S  +AI+ I ++L  K     K
Sbjct: 254 RADDQPEQSYSERQLFEQARERFGREVAAVRKKSLEKAIDEIHIHLDRKEKVEAK 308


>gi|294084639|ref|YP_003551397.1| transcriptional regulator [Candidatus Puniceispirillum marinum
           IMCC1322]
 gi|292664212|gb|ADE39313.1| Transcriptional regulator [Candidatus Puniceispirillum marinum
           IMCC1322]
          Length = 168

 Score =  196 bits (498), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 79/161 (49%), Positives = 116/161 (72%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HGVG I   + +EVAG++LE  V+ F++D+M L+VP+ KA  +G+R L
Sbjct: 8   AFEEGDFVVYPTHGVGRILGTETREVAGIELEMLVVRFEQDRMTLRVPMEKAKTLGLRTL 67

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S +  +++A+  ++GKARV+RTMWSRRA EY+ KI SGD ++IAEVVRDLHR  +Q E+S
Sbjct: 68  SSSKQMDQAITTLQGKARVRRTMWSRRAAEYETKIKSGDPVSIAEVVRDLHRRTNQSEQS 127

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           YSERQ+Y++AL R+ RE AA+  I +  A   +E  ++  +
Sbjct: 128 YSERQMYQAALERLAREYAAIEKIDQDAAALKLEDMMAEAA 168


>gi|170781116|ref|YP_001709448.1| hypothetical protein CMS_0684 [Clavibacter michiganensis subsp.
           sepedonicus]
 gi|169155684|emb|CAQ00804.1| conserved hypothetical protein [Clavibacter michiganensis subsp.
           sepedonicus]
          Length = 164

 Score =  196 bits (498), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 48/161 (29%), Positives = 84/161 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  GE +VYP HG  TIT +K + + G+  ++  +   + ++ + VPV  A  +G+R 
Sbjct: 1   MIFEVGETVVYPHHGAATITAVKTRTIKGVDKKYITLQIHQSELVIDVPVDNAELVGLRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + ++  VE    ++RG    +   WSRR +    K+ SGD+  ++EVVRDL R D     
Sbjct: 61  VIDSSGVEAVFDVLRGDVEEEAGNWSRRFKANTEKMGSGDVRRVSEVVRDLWRRDQDSGV 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           S  E+++   A   +V E+A     ++ EA  +++  L+  
Sbjct: 121 SAGEKRMLAKARQILVSELALAQKSTDEEASVVLDGVLAQS 161


>gi|83308694|emb|CAJ01604.1| putative transcriptional factor regulator [Methylocapsa acidiphila]
          Length = 175

 Score =  196 bits (498), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 101/155 (65%), Positives = 123/155 (79%)

Query: 21  VYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVER 80
           VYPAHGVG I  I+EQ VAG KLE FVI+F KDKM LKVP  K   +GMRKL+EA  V++
Sbjct: 2   VYPAHGVGQIIAIEEQVVAGFKLELFVISFIKDKMILKVPTPKVASVGMRKLAEAGVVKK 61

Query: 81  ALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYE 140
           AL  + G+AR+KRTMWSRRAQEY+AKINSGDLIAIAEVVRDL+R+D+QPE+SYSERQLYE
Sbjct: 62  ALDTLAGRARIKRTMWSRRAQEYEAKINSGDLIAIAEVVRDLYRSDAQPEQSYSERQLYE 121

Query: 141 SALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           +AL+RM REI  V  ++E E++ +IE  L     +
Sbjct: 122 AALDRMAREIVVVQKLTETESLKVIEGQLLKGPRR 156


>gi|313887993|ref|ZP_07821671.1| CarD-like protein [Peptoniphilus harei ACS-146-V-Sch2b]
 gi|312845948|gb|EFR33331.1| CarD-like protein [Peptoniphilus harei ACS-146-V-Sch2b]
          Length = 160

 Score =  195 bits (497), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 53/158 (33%), Positives = 85/158 (53%), Gaps = 1/158 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ IVYP HG G I  I+E+E+ G   +++++    + + + VPV  A +IG+R +
Sbjct: 1   MFNIGDKIVYPMHGAGEIVAIEEREILGDVHKYYIMRLPINDLKVMVPVKNAKEIGVRDI 60

Query: 73  SEAHFVERALKLVRGKARV-KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           S+A  +E+ LK +  +  V     W+RR +    KI SGDL+ IA+VVR L   D +   
Sbjct: 61  SDADTMEKVLKALSSEEEVSMPKNWNRRYRYNLDKIKSGDLMEIADVVRSLESLDREKSL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           S  ER++   A   +V E+  V   +  E   LI+  +
Sbjct: 121 STGERKILNEAKQIIVSEMVLVFEKNVEEVTKLIDDAI 158


>gi|308235377|ref|ZP_07666114.1| CarD-like protein [Gardnerella vaginalis ATCC 14018]
          Length = 198

 Score =  195 bits (497), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 54/181 (29%), Positives = 91/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   + EI E+ V G+  ++  +       + + VPV     +G+R
Sbjct: 1   MGYQVGDMVVYPRHGAARVEEISERTVKGITRQYLRLVVLSSDGLEINVPVDNVKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVGAKEVAKVFEILRTPILEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + ++ EIA    I E +A  L+ VNL         E+  ++  ++A
Sbjct: 121 GLSAGEKRMLARARSILISEIALSEKIDEEQAERLLNVNLGYADPLPGDEQHHTQAPEEA 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|154685003|ref|YP_001420164.1| YdeB [Bacillus amyloliquefaciens FZB42]
 gi|154350854|gb|ABS72933.1| YdeB [Bacillus amyloliquefaciens FZB42]
          Length = 153

 Score =  195 bits (497), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 40/152 (26%), Positives = 79/152 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG GTI  I+E++    K +++VI      M + +P  K +   +R +
Sbjct: 1   MFQIGDNIVYPMHGAGTIEAIEEKQFLEEKQQYYVIRMSISNMTVMIPTRKILSSNIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  + + +     K   W +R      KI +G++   AEVVRDL R   +   +
Sbjct: 61  TDIRALKHIIHIFQHGESDKLLPWKQRYIVNTNKIKTGEIQEGAEVVRDLMRMKKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 121 SSEKKMLDNAYEFLISELEVIKGITEKQIKSF 152


>gi|15616497|ref|NP_244803.1| transcriptional regulator [Bacillus halodurans C-125]
 gi|10176560|dbj|BAB07654.1| transcriptional regulator [Bacillus halodurans C-125]
          Length = 153

 Score =  195 bits (497), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 40/152 (26%), Positives = 78/152 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+H+VYP HG G I  I+E+E+AG + ++FVI    + M + +P  K     +R +
Sbjct: 1   MFQIGDHVVYPMHGAGIIKAIEEKEIAGERKQYFVIKMSINNMDVMIPADKISSTNIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   +++ + + +     +   W  R +    K+ +G +   AEVVRDL R   +   +
Sbjct: 61  TDLTALKQIIHIFQHGESEQLLPWKERYKMNADKMKTGHIQEGAEVVRDLMRIKKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ + A   +  E+  +  I+E    + 
Sbjct: 121 PSEKKMLDDAREFLNSELGLIEGITENHIKSF 152


>gi|229197758|ref|ZP_04324477.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
 gi|228585703|gb|EEK43802.1| Transcriptional regulator, CarD [Bacillus cereus m1293]
          Length = 158

 Score =  195 bits (497), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 41/151 (27%), Positives = 80/151 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P GK +   +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGKKQQYYVIKMSASNMEIMIPEGKILSSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DITALIHIINIFQHGESDRLLTWKQRYKLNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|294790738|ref|ZP_06755896.1| transcriptional regulator, CarD family [Scardovia inopinata F0304]
 gi|294458635|gb|EFG26988.1| transcriptional regulator, CarD family [Scardovia inopinata F0304]
          Length = 219

 Score =  195 bits (497), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 51/181 (28%), Positives = 88/181 (48%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   I EI E+ + G+   +  +       + + VP      +G+R
Sbjct: 1   MEYKVGDTVVYPRHGAARIEEISERTLRGVTRTYLRLTVLSSDGLEISVPADSVEKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQP 129
           ++     V +  +++R     ++T WSRR +    KI +GD+  IAEVVRDL  R D   
Sbjct: 61  EIVNGVAVAKVFEILRTPIVEEKTNWSRRYKLNVEKIATGDVNKIAEVVRDLSQRDDDDH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A   +  EIA    I + EA  L++VNL  +  +   +K  ++   + 
Sbjct: 121 GLSAGEKRMLSKARGILTSEIALSEGIDDDEAQRLLDVNLGYQDPEPGDDKHHAKAPQEP 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|320354570|ref|YP_004195909.1| CarD family transcriptional regulator [Desulfobulbus propionicus
           DSM 2032]
 gi|320123072|gb|ADW18618.1| transcriptional regulator, CarD family [Desulfobulbus propionicus
           DSM 2032]
          Length = 159

 Score =  195 bits (496), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 46/156 (29%), Positives = 83/156 (53%), Gaps = 1/156 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+  VYPAHGVG I  IK Q + G+   F+V+    + M + +P   + ++G+R +
Sbjct: 1   MFSKGDMAVYPAHGVGLIEAIKTQSIGGIDQSFYVMKILDNDMTIMIPTATSANVGLRAI 60

Query: 73  SEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                V + + +++ +  ++    W+RR +EY  KI +G +  +A V+RDL       + 
Sbjct: 61  ISGEDVPKVIDILKERDIKITAQTWNRRYREYMEKIKTGSVFEVAVVLRDLFLLKEDKDL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
           SY ER++ ++A N +V+E++    + E      IE 
Sbjct: 121 SYGERKMLDTAKNLLVKELSLAKQMEEGMIEQQIEK 156


>gi|163797039|ref|ZP_02190995.1| Transcriptional regulator [alpha proteobacterium BAL199]
 gi|159177786|gb|EDP62337.1| Transcriptional regulator [alpha proteobacterium BAL199]
          Length = 166

 Score =  195 bits (496), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 80/166 (48%), Positives = 120/166 (72%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
                  F+TG+ +VYP HGVG I   + Q VAG +L+  VI F++D+M L++PVGKA  
Sbjct: 1   MTKKSSEFKTGDFVVYPTHGVGLIKGTETQIVAGTELDLLVIDFEQDRMTLRIPVGKART 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R+LS    ++ AL+ ++G+A+V+RTMWSRRAQEY+AKINSGD ++IAEVVRDL R+ 
Sbjct: 61  SGLRRLSSRKQMDVALQKLKGRAKVRRTMWSRRAQEYEAKINSGDPVSIAEVVRDLRRSS 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           +Q ++SYSERQ+Y++A++R+ RE A +  I E  A++ +E  + + 
Sbjct: 121 NQADQSYSERQMYQAAIDRLAREFAKIEQIDEVTAVDRLEKLMDAA 166


>gi|91206102|ref|YP_538457.1| transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157826465|ref|YP_001495529.1| transcriptional regulator [Rickettsia bellii OSU 85-389]
 gi|91069646|gb|ABE05368.1| Transcriptional regulator [Rickettsia bellii RML369-C]
 gi|157801769|gb|ABV78492.1| Transcriptional regulator [Rickettsia bellii OSU 85-389]
          Length = 178

 Score =  195 bits (496), Expect = 3e-48,   Method: Composition-based stats.
 Identities = 75/170 (44%), Positives = 114/170 (67%), Gaps = 1/170 (0%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            + K +  +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM +KVPV 
Sbjct: 7   SEDKTEQQKSEFKIGQRIVYPAHGVGEITNIENHTIAGTEIKVYVISFPQDKMTVKVPVS 66

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
           +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++A+AEV+RDL
Sbjct: 67  RATVVGLRAVASKKDLDLIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAVAEVLRDL 126

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           H+     ++SYSER LYE+ALNR+  E+A + +I   EAIN +   L  K
Sbjct: 127 HKN-VDNDRSYSERTLYEAALNRLAGELAILENIDSSEAINKLVEVLREK 175


>gi|227489404|ref|ZP_03919720.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51867]
 gi|227540998|ref|ZP_03971047.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51866]
 gi|227090582|gb|EEI25894.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51867]
 gi|227183258|gb|EEI64230.1| CarD family transcriptional regulator [Corynebacterium
           glucuronolyticum ATCC 51866]
          Length = 193

 Score =  195 bits (496), Expect = 3e-48,   Method: Composition-based stats.
 Identities = 47/181 (25%), Positives = 87/181 (48%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   + + +++E  G   +F V+      + ++VPV  A  +G+R 
Sbjct: 1   MEFNVGDIVVYPHHGAAEVAKTEQREHKGEMTDFLVLKILHSDLVVRVPVANAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +E+   ++R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVGKEGLEKVFGMLRETDVEEAGNWSRRYKANQERLASGDVNKVAEVVRDLWRRDQDRGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINL---IEVNLS-SKSSKTEKSTSENQDKA 187
           S  E+++   A   +V E+A    + +  A +    +   L+  + ++  K  SE + + 
Sbjct: 121 SAGEKRMLAKARQILVGELALAGPVDDKLADDFEARLTEELNRQREARAPKLASELEPEE 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|51473313|ref|YP_067070.1| hypothetical protein RT0102 [Rickettsia typhi str. Wilmington]
 gi|51459625|gb|AAU03588.1| conserved hypothetical protein [Rickettsia typhi str. Wilmington]
          Length = 177

 Score =  195 bits (496), Expect = 3e-48,   Method: Composition-based stats.
 Identities = 78/172 (45%), Positives = 115/172 (66%), Gaps = 1/172 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T  + +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVP
Sbjct: 4   ITQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIAGNEIKVYVISFSQDKMTLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+R
Sbjct: 64  VSRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           DLH+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 124 DLHKN-VDNDRSYSERTLYESALNRLAGELAILENIDPTEAINKLVEVLREK 174


>gi|116327105|ref|YP_796825.1| transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116332238|ref|YP_801956.1| transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
 gi|116119849|gb|ABJ77892.1| Transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116125927|gb|ABJ77198.1| Transcriptional regulator [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
          Length = 181

 Score =  194 bits (495), Expect = 3e-48,   Method: Composition-based stats.
 Identities = 58/183 (31%), Positives = 97/183 (53%), Gaps = 2/183 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++K   +    + G+++VYP HGVG I EI ++ + G K + +V+     KM + +P
Sbjct: 1   MAAKKKNSEIEH--KVGDYVVYPIHGVGEILEISKKNILGKKKDCYVLEIQGSKMKVMIP 58

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  + +R + +   +++ + L++         W  R Q    KI SG +  + EV R
Sbjct: 59  VDKAEQVRIRPIIDKKEIKKVIALLKKDEVDTEEDWKIRYQNNLNKIKSGSIYEVGEVCR 118

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           +L R  S  E S  ER+LYESA N +  E+A    +++ EA NL+   L+S  + +EK  
Sbjct: 119 NLFRRASGKELSIMERKLYESAYNLVKMEVALSKGVTQEEAGNLVSDVLASTLAPSEKKA 178

Query: 181 SEN 183
            E+
Sbjct: 179 EED 181


>gi|67458425|ref|YP_246049.1| transcriptional regulator [Rickettsia felis URRWXCal2]
 gi|67003958|gb|AAY60884.1| Transcriptional regulator [Rickettsia felis URRWXCal2]
          Length = 177

 Score =  194 bits (495), Expect = 3e-48,   Method: Composition-based stats.
 Identities = 78/171 (45%), Positives = 114/171 (66%), Gaps = 1/171 (0%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  + +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV
Sbjct: 5   TQSENKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPV 64

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RD
Sbjct: 65  SRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRD 124

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           LH+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 125 LHKN-VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 174


>gi|157964091|ref|YP_001498915.1| transcriptional regulator [Rickettsia massiliae MTU5]
 gi|157843867|gb|ABV84368.1| Transcriptional regulator [Rickettsia massiliae MTU5]
          Length = 195

 Score =  194 bits (495), Expect = 4e-48,   Method: Composition-based stats.
 Identities = 78/171 (45%), Positives = 114/171 (66%), Gaps = 1/171 (0%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  + +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV
Sbjct: 23  TQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPV 82

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RD
Sbjct: 83  SRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRD 142

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           LH+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 143 LHKN-VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 192


>gi|239948445|ref|ZP_04700198.1| transcriptional regulator [Rickettsia endosymbiont of Ixodes
           scapularis]
 gi|239922721|gb|EER22745.1| transcriptional regulator [Rickettsia endosymbiont of Ixodes
           scapularis]
          Length = 177

 Score =  194 bits (494), Expect = 4e-48,   Method: Composition-based stats.
 Identities = 78/171 (45%), Positives = 114/171 (66%), Gaps = 1/171 (0%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  + +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV
Sbjct: 5   TQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPV 64

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RD
Sbjct: 65  SRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRD 124

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           LH+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 125 LHKN-VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 174


>gi|95929125|ref|ZP_01311870.1| transcriptional regulator, CarD family [Desulfuromonas acetoxidans
           DSM 684]
 gi|95135026|gb|EAT16680.1| transcriptional regulator, CarD family [Desulfuromonas acetoxidans
           DSM 684]
          Length = 162

 Score =  194 bits (494), Expect = 4e-48,   Method: Composition-based stats.
 Identities = 51/159 (32%), Positives = 87/159 (54%), Gaps = 2/159 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+  VYPA GVG I  I+ +E +G + +F+V+      M + VP   A  +GMR 
Sbjct: 1   MLFSVGDKAVYPAQGVGIIESIETKEFSGEEHDFYVLRICDSDMTIMVPTANAEQVGMRG 60

Query: 72  LSEAHFVERALKLVRGKARVKR--TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           L +   V++   +++    +    + WSRR +EY+ KI SGDL+ +A V+R+L+   +  
Sbjct: 61  LVDKAHVQKVYDVLQNTDAMAGSISSWSRRQREYNEKIKSGDLLEVAAVLRELYMIGNGK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           E SY E+++ E A   +V+E+A    + E +  + +E  
Sbjct: 121 ELSYGEKKVLELARRLVVKEVAFAEGVEEDQICSRVEGV 159


>gi|311066998|ref|YP_003971921.1| putative transcriptional regulator [Bacillus atrophaeus 1942]
 gi|310867515|gb|ADP30990.1| putative transcriptional regulator [Bacillus atrophaeus 1942]
          Length = 153

 Score =  194 bits (494), Expect = 5e-48,   Method: Composition-based stats.
 Identities = 39/152 (25%), Positives = 80/152 (52%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E +  K +++VI      M + +P  K +   +R +
Sbjct: 1   MFQIGDNIVYPMHGAGIIEAIEEKEYSEEKQQYYVIKMSISNMQVMIPTRKILSSSIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  + + +     +   W +R +    KI +G++   AEVVRDL R   +   +
Sbjct: 61  TDILALKHIIHIFQHGESDRLLPWKQRYKVNTNKIKTGEIQEGAEVVRDLMRMKKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 121 SSEKKMLDNAYEFLISELEVIKGITENQIKSF 152


>gi|289178764|gb|ADC86010.1| CarD-like transcriptional regulator [Bifidobacterium animalis
           subsp. lactis BB-12]
          Length = 223

 Score =  194 bits (494), Expect = 5e-48,   Method: Composition-based stats.
 Identities = 54/181 (29%), Positives = 92/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   + EI ++ V G+  E+  ++    D + + VPV     +G+R
Sbjct: 26  MGYKVGDMVVYPRHGAARVEEILQRTVKGVTREYLKLSVLSSDDLEIFVPVDNLKKVGVR 85

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +   V R  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 86  DIVDGDEVSRVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEH 145

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EIA    +SE E   L++VNL     +    +  +E  ++ 
Sbjct: 146 GLSAGEKRMLTKARSILTSEIALSEELSEEETQRLLDVNLGYAEPQEGDAEHHTEVPEEP 205

Query: 188 A 188
           A
Sbjct: 206 A 206


>gi|292571621|gb|ADE29536.1| Transcriptional regulator [Rickettsia prowazekii Rp22]
          Length = 177

 Score =  194 bits (493), Expect = 6e-48,   Method: Composition-based stats.
 Identities = 77/172 (44%), Positives = 114/172 (66%), Gaps = 1/172 (0%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +T  + +   +  F+ G+ IVYPAHGVG IT I+   +A  +++ +VI+F +DKM LKVP
Sbjct: 4   ITQSEHKTEQKSEFKIGQRIVYPAHGVGEITNIEYHTIADTEIKVYVISFSQDKMTLKVP 63

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+R
Sbjct: 64  VNRAAVVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLR 123

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           DLH+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 124 DLHKN-VDNDRSYSERTLYESALNRLAGELAILENIDPTEAINKLVEVLREK 174


>gi|295694809|ref|YP_003588047.1| transcriptional regulator, CarD family [Bacillus tusciae DSM 2912]
 gi|295410411|gb|ADG04903.1| transcriptional regulator, CarD family [Bacillus tusciae DSM 2912]
          Length = 165

 Score =  194 bits (493), Expect = 6e-48,   Method: Composition-based stats.
 Identities = 45/152 (29%), Positives = 79/152 (51%), Gaps = 2/152 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G I  I+E+EV G    ++++      + + VP+ +   +G+R++
Sbjct: 1   MFNVGDRVVYPMHGAGVIESIEEREVLGKTGRYYIMRMPVGDIKVMVPIEQTGAVGLREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +A  V + L ++  +   +   W+RR ++   KI SGD  AIA+VVR L   D     S
Sbjct: 61  VDAEGVHKILDILFDEGTQETAAWNRRYRDNMDKIKSGDAFAIADVVRQLAWLDRHKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
             E+++YE A   ++ E+       + +A  L
Sbjct: 121 TGEKRMYEMARQILLSELRLA--APQEDADRL 150


>gi|227485949|ref|ZP_03916265.1| transcription factor CarD [Anaerococcus lactolyticus ATCC 51172]
 gi|227235994|gb|EEI86009.1| transcription factor CarD [Anaerococcus lactolyticus ATCC 51172]
          Length = 160

 Score =  193 bits (492), Expect = 8e-48,   Method: Composition-based stats.
 Identities = 39/159 (24%), Positives = 78/159 (49%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ IVYP HG G I  +++ E  G + E++++     +M + +P     D  +R 
Sbjct: 1   MMFKVGDKIVYPMHGAGVIDAVEKIEFMGEEREYYILKMPIGEMDISIPADNMKDANIRF 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +         L ++  K     + W++R ++    + +GD+  IA++VR+L   DS    
Sbjct: 61  IISKEEGLEVLAILDDKPTEMNSNWTKRYRDNQEILKTGDIFEIAKMVRNLAILDSDKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S +E++L   A   +  E+    S+ + EA  +I+ ++ 
Sbjct: 121 STTEKKLLNRARRILASELVMAGSLEKEEAEKMIDESIG 159


>gi|157803212|ref|YP_001491761.1| hypothetical protein A1E_00115 [Rickettsia canadensis str. McKiel]
 gi|157784475|gb|ABV72976.1| hypothetical protein A1E_00115 [Rickettsia canadensis str. McKiel]
          Length = 175

 Score =  193 bits (492), Expect = 8e-48,   Method: Composition-based stats.
 Identities = 78/170 (45%), Positives = 112/170 (65%), Gaps = 1/170 (0%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
             Q     +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV 
Sbjct: 4   TTQSEHKTKSEFKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFAQDKMTLKVPVN 63

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
           +A  +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDL
Sbjct: 64  RATIVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDL 123

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           H+     ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 124 HKN-VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 172


>gi|15891953|ref|NP_359667.1| hypothetical protein RC0030 [Rickettsia conorii str. Malish 7]
 gi|157827900|ref|YP_001494142.1| hypothetical protein A1G_00190 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165932588|ref|YP_001649377.1| carD-like transcriptional regulator [Rickettsia rickettsii str.
           Iowa]
 gi|238650343|ref|YP_002916195.1| carD-like transcriptional regulator [Rickettsia peacockii str.
           Rustic]
 gi|15619064|gb|AAL02568.1| unknown [Rickettsia conorii str. Malish 7]
 gi|157800381|gb|ABV75634.1| hypothetical protein A1G_00190 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165907675|gb|ABY71971.1| carD-like transcriptional regulator [Rickettsia rickettsii str.
           Iowa]
 gi|238624441|gb|ACR47147.1| carD-like transcriptional regulator [Rickettsia peacockii str.
           Rustic]
          Length = 173

 Score =  193 bits (492), Expect = 8e-48,   Method: Composition-based stats.
 Identities = 77/167 (46%), Positives = 112/167 (67%), Gaps = 1/167 (0%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A 
Sbjct: 5   TQSEQKSEFKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPVSRAA 64

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ 
Sbjct: 65  VVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHKN 124

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
               ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 125 -VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 170


>gi|294827601|ref|NP_710430.2| transcriptional regulator [Leptospira interrogans serovar Lai str.
           56601]
 gi|293385445|gb|AAN47448.2| transcriptional regulator [Leptospira interrogans serovar Lai str.
           56601]
          Length = 181

 Score =  193 bits (491), Expect = 1e-47,   Method: Composition-based stats.
 Identities = 59/183 (32%), Positives = 96/183 (52%), Gaps = 2/183 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++K   +    + G+++VYP HGVG I EI ++ + G K + +V+     KM + +P
Sbjct: 1   MAAKKKNSEIEH--KVGDYVVYPIHGVGEILEISKKNILGKKKDCYVLEIQGSKMKVMIP 58

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA  + +R + +   +++ + L++         W  R Q    KI SG +  + EV R
Sbjct: 59  VDKAEQVRIRPIIDKKEIKKVIALLKKDEVDTEEDWKIRYQNNLNKIKSGSIYEVGEVCR 118

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           +L R  S  E S  ER+LYESA N +  E+A    +++ EA NL+   L+S  S +EK  
Sbjct: 119 NLFRRASGKELSIMERKLYESAYNLVKMEVALSKGVTQEEAGNLVSDVLASTLSPSEKKA 178

Query: 181 SEN 183
            E 
Sbjct: 179 EEE 181


>gi|295394468|ref|ZP_06804691.1| CarD family transcriptional regulator [Brevibacterium mcbrellneri
           ATCC 49030]
 gi|294972647|gb|EFG48499.1| CarD family transcriptional regulator [Brevibacterium mcbrellneri
           ATCC 49030]
          Length = 175

 Score =  193 bits (491), Expect = 1e-47,   Method: Composition-based stats.
 Identities = 42/144 (29%), Positives = 73/144 (50%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           ++R   +  F+ G+ +VYP HG  TI EIK + + G    +  +      + ++VP    
Sbjct: 9   RERGKNKMSFQVGDTVVYPHHGAATIQEIKTRTIKGEDKLYLKLQVSHGDLTIEVPAENC 68

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             +G+R +     +E+  +++R +   + T WSRR +    K  SGD+I +AEVVRDL R
Sbjct: 69  DLVGVRDVVGEEGLEKVFQVLRAEVTEEPTNWSRRYKANLEKFQSGDVIKVAEVVRDLWR 128

Query: 125 TDSQPEKSYSERQLYESALNRMVR 148
            +     S  E+++   A   +V 
Sbjct: 129 REQDRGLSTGEKRMLAKARQVLVS 152


>gi|282883398|ref|ZP_06291990.1| CarD family transcriptional regulator [Peptoniphilus lacrimalis
           315-B]
 gi|300813669|ref|ZP_07093991.1| CarD-like protein [Peptoniphilus sp. oral taxon 836 str. F0141]
 gi|281296754|gb|EFA89258.1| CarD family transcriptional regulator [Peptoniphilus lacrimalis
           315-B]
 gi|300512211|gb|EFK39389.1| CarD-like protein [Peptoniphilus sp. oral taxon 836 str. F0141]
          Length = 160

 Score =  193 bits (491), Expect = 1e-47,   Method: Composition-based stats.
 Identities = 52/158 (32%), Positives = 94/158 (59%), Gaps = 1/158 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG GTI  I+++E+ G K E++V+    +K+ + +PV KA ++G+RK+
Sbjct: 1   MFKIGDKVVYPMHGAGTIVAIEDREILGKKHEYYVLLLPINKLKVMIPVKKADEVGVRKI 60

Query: 73  SEAHFVERALKLVRGKARVK-RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
            E   +E  L+++  + + K  T W+RR +    KI SG+LI IA V++ L + DS+   
Sbjct: 61  MEISEMEEVLEILSSEEKFKMPTNWNRRYRFNLDKIKSGNLIEIAGVIKSLEKLDSKKSL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           S  ER++   A   ++ E+A V      E +++++  +
Sbjct: 121 STGERKILNEARIIIISEMALVFDKDVDEVVSMVDEAI 158


>gi|228916274|ref|ZP_04079844.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|228843472|gb|EEM88550.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
          Length = 158

 Score =  193 bits (491), Expect = 1e-47,   Method: Composition-based stats.
 Identities = 40/151 (26%), Positives = 81/151 (53%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G++IVYP  G G I  I+E+E+AG K +++VI      M + +P G+ ++  +R ++
Sbjct: 7   FQIGDNIVYPMQGAGIIKAIEEKEIAGEKQQYYVIKMSASNMEIMIPEGEILNSNIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   + + +     +   W +R +    KI +G +   AEVVRDL R   +   + 
Sbjct: 67  DIKALIHIIDIFQHGESDRLLTWKQRYKVNTDKIKTGKMQEGAEVVRDLMRIQKEKALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINL 164
           SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 127 SEKKMLDNAHEFLISELGLIEGITENQIKSF 157


>gi|229586256|ref|YP_002844757.1| Transcriptional regulator [Rickettsia africae ESF-5]
 gi|228021306|gb|ACP53014.1| Transcriptional regulator [Rickettsia africae ESF-5]
          Length = 173

 Score =  193 bits (490), Expect = 1e-47,   Method: Composition-based stats.
 Identities = 77/166 (46%), Positives = 112/166 (67%), Gaps = 1/166 (0%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A  
Sbjct: 6   QSEQKSEFKIGQRIVYPAHGVGEITNIEYHTIAGTEIKVYVISFSQDKMTLKVPVSRAAV 65

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+  
Sbjct: 66  VGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHKN- 124

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
              ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 125 VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 170


>gi|83591419|ref|YP_425171.1| CarD family transcriptional regulator [Rhodospirillum rubrum ATCC
           11170]
 gi|83574333|gb|ABC20884.1| transcriptional regulator, CarD family [Rhodospirillum rubrum ATCC
           11170]
          Length = 165

 Score =  192 bits (489), Expect = 2e-47,   Method: Composition-based stats.
 Identities = 85/164 (51%), Positives = 118/164 (71%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  + TG+ +VYP HGVG + +I++Q + G  LE  VI F++++M L++P+ K  + G
Sbjct: 2   SNQLQYETGDFVVYPTHGVGQVLDIEKQVIGGYDLELLVIGFERERMKLRIPMPKVRESG 61

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R+LS    +E AL  +RGKARVKRTMWSRRAQEY+AKINSGD ++IAEVVRDLHR  +Q
Sbjct: 62  LRRLSTKKVMESALVTLRGKARVKRTMWSRRAQEYEAKINSGDPVSIAEVVRDLHRNATQ 121

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           PE+SYSERQ+YE AL R+  E+AA+  I    A   +E  LS+ 
Sbjct: 122 PEQSYSERQIYELALERLTCELAAIEDIDASTATQKVEKLLSAA 165


>gi|256372655|ref|YP_003110479.1| CarD family transcriptional regulator [Acidimicrobium ferrooxidans
           DSM 10331]
 gi|256009239|gb|ACU54806.1| transcriptional regulator, CarD family [Acidimicrobium ferrooxidans
           DSM 10331]
          Length = 159

 Score =  192 bits (488), Expect = 2e-47,   Method: Composition-based stats.
 Identities = 45/159 (28%), Positives = 76/159 (47%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+ +VYP HG   IT  +  E  G   E+FV+      + +++PV    ++G+R+
Sbjct: 1   MPFDVGDKVVYPQHGAAVITGREVVEAFGEAKEYFVVTVAYGDLTVRLPVDAVDEVGLRE 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     VE    ++  K       WSRR + +  K+ SGD+  +AEVVR+L   D     
Sbjct: 61  VINDEEVEEVFAVLGKKDVRMPANWSRRYKNHLEKVKSGDIYQVAEVVRNLTLRDHDKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S  ER++   A   +V E+     ++  EA   ++  L+
Sbjct: 121 SAGERRMLAKARQVLVSELTFALDVAPEEAEARLDKALA 159


>gi|162449975|ref|YP_001612342.1| putative transcription factor [Sorangium cellulosum 'So ce 56']
 gi|161160557|emb|CAN91862.1| putative transcription factor [Sorangium cellulosum 'So ce 56']
          Length = 168

 Score =  192 bits (488), Expect = 2e-47,   Method: Composition-based stats.
 Identities = 45/156 (28%), Positives = 83/156 (53%), Gaps = 1/156 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+  VYPA GV  +  I+E+++AG +  F+V+        + VPV  A  +G+R++ 
Sbjct: 9   FKVGDKAVYPAQGVAEVVNIEEKDIAGNRQRFYVLRILDTDRKIMVPVSNASAVGLRQVI 68

Query: 74  EAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               +     ++R +        W+RR + +  KI +G +  +AEV+RDL+R  +  + S
Sbjct: 69  SEQEIREIFDILRERTIAFDNQTWNRRYRGFMDKIKTGSIYDVAEVLRDLYRLKTDKQLS 128

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           + ER++ ++A   +V+EIA     +E +    IE  
Sbjct: 129 FGERRMLDTARTLIVKEIAIARGQTEEQVKTEIEAI 164


>gi|310826140|ref|YP_003958497.1| transcriptional regulator [Eubacterium limosum KIST612]
 gi|308737874|gb|ADO35534.1| transcriptional regulator [Eubacterium limosum KIST612]
          Length = 157

 Score =  192 bits (488), Expect = 2e-47,   Method: Composition-based stats.
 Identities = 43/157 (27%), Positives = 86/157 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +  G+ IVYP HG G + +I+E+E+      ++++    + M + +PV KA ++G+R +
Sbjct: 1   MYEIGDKIVYPMHGAGVVKDIEEKEIFDTTQMYYLMEIVSEGMEILIPVDKADEVGVRDI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             +  +E+ L  +   +      WS+R Q+    + SGD+  +A+VV++L   D +   S
Sbjct: 61  VTSDVIEKMLDSLEEPSDQMNGNWSKRYQDNMDILKSGDIFDVAKVVKNLTLLDRKKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             E+++  SA N ++ E+  V   S+ E++ +IE  +
Sbjct: 121 TGEKKMLTSARNFLISEMVLVQGRSKEESLQVIEEKI 157


>gi|315186624|gb|EFU20383.1| transcriptional regulator, CarD family [Spirochaeta thermophila DSM
           6578]
          Length = 218

 Score =  191 bits (487), Expect = 3e-47,   Method: Composition-based stats.
 Identities = 54/176 (30%), Positives = 81/176 (46%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT +         F+  +H+VYP  GVG +  I+E+E  G  L ++VI      M + VP
Sbjct: 1   MTSRNTSAQPEPQFKVHDHVVYPLQGVGEVVRIEEREFKGEGLLYYVIYIPVSDMTVMVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA +IG+R +        AL  +    +   T W  R Q     +  G ++ IA VVR
Sbjct: 61  VHKAAEIGIRPIVSREEALEALDFISENPQAGPTDWKTRYQMNLDLLKKGSVMDIARVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
            L+      E    ER+L+++AL  +V EI+    IS  E    I   L  +S+  
Sbjct: 121 ALYYRSKIKELPILERKLFDNALRILVDEISFALEISAKEVEARIFQQLEQESAPI 176


>gi|291456490|ref|ZP_06595880.1| transcriptional regulator, CarD family [Bifidobacterium breve DSM
           20213]
 gi|291381767|gb|EFE89285.1| transcriptional regulator, CarD family [Bifidobacterium breve DSM
           20213]
          Length = 197

 Score =  191 bits (487), Expect = 3e-47,   Method: Composition-based stats.
 Identities = 51/167 (30%), Positives = 83/167 (49%), Gaps = 2/167 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   +  I E+ V G+  E+  ++      + + VPV  A  +G+R
Sbjct: 1   MSYQVGDMVVYPRHGAAKVEAITERTVKGVTREYLQLSVLSSDGLVINVPVENAKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +     V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVSGSEVAKVFEILRTPIIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
             S  E+++   A   +  EIA    I E EA  L++VNL    ++ 
Sbjct: 121 GLSAGEKRMLTKARAILTSEIALSEKIDETEAQRLLDVNLGYAPAQV 167


>gi|298253496|ref|ZP_06977286.1| CarD-like transcriptional regulator [Gardnerella vaginalis 5-1]
 gi|297532263|gb|EFH71151.1| CarD-like transcriptional regulator [Gardnerella vaginalis 5-1]
          Length = 215

 Score =  191 bits (487), Expect = 3e-47,   Method: Composition-based stats.
 Identities = 54/179 (30%), Positives = 90/179 (50%), Gaps = 4/179 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   + EI E+ V G+  ++  +       + + VPV     +G+R +
Sbjct: 20  YQVGDMVVYPRHGAARVEEISERTVKGVTRQYLRLVVLSSDGLEINVPVDNVKKVGVRDI 79

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQPEK 131
             A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  +   
Sbjct: 80  VGAQEVAKVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEHGL 139

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
           S  E+++   A + ++ EIA    I E EA  L++VNL  K  +   E   +   ++ A
Sbjct: 140 SAGEKRMLARARSILISEIALSEKIDEIEAERLLDVNLGYKEPQEGDENHHTVAPEEPA 198


>gi|34581009|ref|ZP_00142489.1| hypothetical protein [Rickettsia sibirica 246]
 gi|28262394|gb|EAA25898.1| unknown [Rickettsia sibirica 246]
          Length = 173

 Score =  191 bits (487), Expect = 3e-47,   Method: Composition-based stats.
 Identities = 77/167 (46%), Positives = 112/167 (67%), Gaps = 1/167 (0%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            +   +  F+ G+ IVYPAHGVG IT I+   +AG +++ +VI+F +DKM LKVPV +A 
Sbjct: 5   TQSEQKSEFKIGQRIVYPAHGVGEITNIEYYTIAGTEIKVYVISFSQDKMTLKVPVSRAA 64

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +G+R ++    ++     ++GK +    MWSRRAQEY+ KINSG+++AIAEV+RDLH+ 
Sbjct: 65  VVGLRAVASRKDLDVIYSTLQGKPKQGNRMWSRRAQEYEGKINSGNIVAIAEVLRDLHKN 124

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
               ++SYSER LYESALNR+  E+A + +I   EAIN +   L  K
Sbjct: 125 -VDNDRSYSERTLYESALNRLAGELAILENIHPTEAINKLVEVLREK 170


>gi|77917722|ref|YP_355537.1| putative transcriptional regulator [Pelobacter carbinolicus DSM
           2380]
 gi|77543805|gb|ABA87367.1| transcriptional regulator, CarD family [Pelobacter carbinolicus DSM
           2380]
          Length = 161

 Score =  191 bits (485), Expect = 5e-47,   Method: Composition-based stats.
 Identities = 52/157 (33%), Positives = 86/157 (54%), Gaps = 2/157 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+  VYPA GVG I  I+ +E  G K++F+V+      M + +PV     +GMR L
Sbjct: 1   MFKIGDMAVYPAQGVGVIEAIESKEFVGQKMDFYVLRIVDSDMTIMIPVNNVDSVGMRSL 60

Query: 73  SEAHFVERALKLVRGKARVKRT--MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +   V     +++ K + +     WSRR ++Y+ KI SGD+  +AEV+R+L+      E
Sbjct: 61  IDKDRVRTVYDILKDKTQNQGNLASWSRRQRDYNEKIRSGDVFEVAEVLRELYMIREDKE 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
            SY E+++ E A   +V+EIA  +   E +  + +E 
Sbjct: 121 LSYGEKKVLELARKLVVKEIALADGKDEQQVTDRVES 157


>gi|298530964|ref|ZP_07018365.1| transcriptional regulator, CarD family [Desulfonatronospira
           thiodismutans ASO3-1]
 gi|298508987|gb|EFI32892.1| transcriptional regulator, CarD family [Desulfonatronospira
           thiodismutans ASO3-1]
          Length = 177

 Score =  191 bits (485), Expect = 5e-47,   Method: Composition-based stats.
 Identities = 51/176 (28%), Positives = 90/176 (51%), Gaps = 3/176 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  GE +VYPA GVG + +I+EQ++ G K   +++    + + L VPV  A ++G+R +
Sbjct: 1   MFSVGELVVYPAQGVGRVEKIEEQDLGGAKAVLYIVRILSNNVTLMVPVNNADNVGLRPV 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           S     +  L  +  ++         W+RR +EY  K+ S DL  +A V+++L       
Sbjct: 61  SGKGQGQEILSFLEDRSDFTGYSGQNWNRRYREYSDKLKSKDLQDVAYVLKELFLISRDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQD 185
           E S+ ER+L E A+  +  E++   SI + EA + +E   +   S   +   + +D
Sbjct: 121 ELSFGERRLMEQAMGLISMELSYALSIDQEEAKSRVEALFADILSPEVQEHDDQED 176


>gi|194015928|ref|ZP_03054543.1| CarD family transcriptional regulator [Bacillus pumilus ATCC 7061]
 gi|194012283|gb|EDW21850.1| CarD family transcriptional regulator [Bacillus pumilus ATCC 7061]
          Length = 153

 Score =  191 bits (485), Expect = 5e-47,   Method: Composition-based stats.
 Identities = 39/152 (25%), Positives = 74/152 (48%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E +  K +++VI      M + +P  K     +R +
Sbjct: 1   MFQIGDNIVYPMHGAGIIEAIEEKEFSDEKQQYYVINMSISHMKVMIPTRKISGSRIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   +   + + +     +   W  R      KI +G +   AEVVRDL R   +   +
Sbjct: 61  TDILALNNVMDIFQHGESDQIPTWKERHTINTNKIKTGSIQDGAEVVRDLMRMKKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ + A   ++ E+  +  I+E +  + 
Sbjct: 121 ASEKKMLDDAHEFLLSELEVIKGITEKQIKSF 152


>gi|157691253|ref|YP_001485715.1| transcription regulator CarD [Bacillus pumilus SAFR-032]
 gi|157680011|gb|ABV61155.1| CarD family transcriptional regulator [Bacillus pumilus SAFR-032]
          Length = 153

 Score =  190 bits (484), Expect = 7e-47,   Method: Composition-based stats.
 Identities = 40/152 (26%), Positives = 75/152 (49%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E+E +  K +++VI      M + +P  K     +R +
Sbjct: 1   MFQIGDNIVYPMHGAGIIEAIEEKEFSDEKQQYYVIKMSISHMKVMIPTRKISGSRIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   +   + + +     +   W  R      KI +GD+   AEVVRDL R   +   +
Sbjct: 61  TDLLALNNVMHVFQHGESDQLLTWKERHTINTNKIKTGDIQDGAEVVRDLMRMKKEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ + A   ++ E+  +  I+E +  + 
Sbjct: 121 ASEKKMLDEAHEFLLSELEVIEGITEKQIKSF 152


>gi|332703818|ref|ZP_08423906.1| transcriptional regulator, CarD family [Desulfovibrio africanus
           str. Walvis Bay]
 gi|332553967|gb|EGJ51011.1| transcriptional regulator, CarD family [Desulfovibrio africanus
           str. Walvis Bay]
          Length = 194

 Score =  190 bits (483), Expect = 8e-47,   Method: Composition-based stats.
 Identities = 51/172 (29%), Positives = 87/172 (50%), Gaps = 7/172 (4%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           R+  R  F   + +VYPA GVG +  I+ QE+ G   EF+++    + + L VPV  A +
Sbjct: 19  REGTRPVFSPNDLVVYPAQGVGRVERIQRQEIGGASTEFYIVRILSNNVTLMVPVPNARN 78

Query: 67  IGMRKLSEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
           +G+R +  A   E  L+ ++ ++         W+RR +EY  K+ SG L  +A V+++L 
Sbjct: 79  VGLRPVCSATSGEAILESLKDRSDFTGYTGQNWNRRYREYSEKLKSGALEDVAYVLKELL 138

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI----EVNLSS 171
              +  E S+ ER+L E A+N +  E++      + E    I    E  L+ 
Sbjct: 139 LIGNDKELSFGERRLLEQAMNLITLELSFCLEKPQKEIQERINSLFEDVLNK 190


>gi|297243682|ref|ZP_06927613.1| CarD-like transcriptional regulator [Gardnerella vaginalis AMD]
 gi|296888433|gb|EFH27174.1| CarD-like transcriptional regulator [Gardnerella vaginalis AMD]
          Length = 208

 Score =  190 bits (483), Expect = 8e-47,   Method: Composition-based stats.
 Identities = 54/179 (30%), Positives = 90/179 (50%), Gaps = 4/179 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMRKL 72
           ++ G+ +VYP HG   + EI E+ V G+  ++  +       + + VPV     +G+R +
Sbjct: 13  YQVGDMVVYPRHGAARVEEISERTVKGVTRQYLRLVVLSSDGLEINVPVDNVKKVGVRDI 72

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQPEK 131
             A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  +   
Sbjct: 73  VGAQEVAKVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEHGL 132

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
           S  E+++   A + ++ EIA    I E EA  L++VNL  K  +   E   +   ++ A
Sbjct: 133 SAGEKRMLARARSILISEIALSEKIDEIEAERLLDVNLGYKEPQKGDENHHTVAPEEPA 191


>gi|51246583|ref|YP_066467.1| transcription factor [Desulfotalea psychrophila LSv54]
 gi|50877620|emb|CAG37460.1| related to transcription factor [Desulfotalea psychrophila LSv54]
          Length = 165

 Score =  189 bits (482), Expect = 1e-46,   Method: Composition-based stats.
 Identities = 45/158 (28%), Positives = 79/158 (50%), Gaps = 1/158 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+  VYPAHGVG I  ++ Q VAG    F+V+    + M + +P   +  +G+R + 
Sbjct: 8   FVAGDMAVYPAHGVGVIKSVETQTVAGTDQSFYVMEIMGNNMTIMIPTASSEKVGLRAIV 67

Query: 74  EAHFVERALKLVRGKARVK-RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               V   + ++  +        W+RR ++Y  KI +G +  +A V+RDL       + S
Sbjct: 68  SEEQVSEVVTILEDRDVELGSQTWNRRYRDYMEKIKTGSVHEVAAVLRDLFLLSVDKDLS 127

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           Y ER++ ++A   +V+E++    I E    + I+   S
Sbjct: 128 YGERKMLDTAKGLLVKELSLAKKIEEVAMSDQIDAIFS 165


>gi|154497963|ref|ZP_02036341.1| hypothetical protein BACCAP_01943 [Bacteroides capillosus ATCC
           29799]
 gi|150272953|gb|EDN00110.1| hypothetical protein BACCAP_01943 [Bacteroides capillosus ATCC
           29799]
          Length = 158

 Score =  189 bits (482), Expect = 1e-46,   Method: Composition-based stats.
 Identities = 44/158 (27%), Positives = 77/158 (48%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IV+P HG G +  I  ++V G+  E++++      M + VP   + +IG+R +
Sbjct: 1   MFQVGDKIVHPMHGAGVVDSIVRKKVNGVVREYYILKLPVGGMLVMVPTEHSEEIGVRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +    +R L  +          W+RR +E   ++ SGDL+ +A VV+ L R D     S
Sbjct: 61  CQRDEADRVLAAIPDIEVDMTQNWNRRYRENMMRLKSGDLLEVARVVKGLMRRDEDRGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++  SA   ++ EI    + S  +    I   +S
Sbjct: 121 TGERKMLHSAKQILISEIVLSQNASYEDVEARINGAMS 158


>gi|283783080|ref|YP_003373834.1| CarD-like protein [Gardnerella vaginalis 409-05]
 gi|283440982|gb|ADB13448.1| CarD-like protein [Gardnerella vaginalis 409-05]
          Length = 198

 Score =  189 bits (481), Expect = 1e-46,   Method: Composition-based stats.
 Identities = 54/181 (29%), Positives = 90/181 (49%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMR 70
             ++ G+ +VYP HG   + EI E+ V G+  ++  +       + + VPV     +G+R
Sbjct: 1   MEYQVGDMVVYPRHGAARVEEISERTVKGVTRQYLRLVVLSSDGLEINVPVDNVKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            +  A  V +  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVGAQEVAKVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + ++ EIA    I E EA  L++VNL  K  +   E   +   ++ 
Sbjct: 121 GLSAGEKRMLARARSILISEIALSEKIDEIEAERLLDVNLGYKEPQEGDENHHTVAPEEP 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|327439855|dbj|BAK16220.1| transcriptional regulator, similar to M. xanthus CarD [Solibacillus
           silvestris StLB046]
          Length = 153

 Score =  189 bits (481), Expect = 1e-46,   Method: Composition-based stats.
 Identities = 37/152 (24%), Positives = 79/152 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ GE+I+YP HG G I  ++E+E+ G K + ++I      M + +P+ K +   +R +
Sbjct: 1   MFQIGENIIYPMHGAGIIKAVEEKEILGEKQQCYIIKMSVGNMQITIPMDKILSSSIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  L + +     +   W +R +    K+ +G ++  AEVVRDL R   +   +
Sbjct: 61  TDIIELKHILHIFQHGESDEVLPWRQRYKVNTDKVKTGKILECAEVVRDLMRMKEEKALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++  +    ++ E+  +  I+E +  + 
Sbjct: 121 TSEKEMLNNTHQFLISELGLIKGITENQIKSF 152


>gi|307719573|ref|YP_003875105.1| transcriptional regulatory protein [Spirochaeta thermophila DSM
           6192]
 gi|306533298|gb|ADN02832.1| transcriptional regulatory protein [Spirochaeta thermophila DSM
           6192]
          Length = 217

 Score =  189 bits (481), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 52/165 (31%), Positives = 77/165 (46%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT +         F+  +H+VYP  GVG +  I+E+E  G  L ++VI      M + VP
Sbjct: 1   MTSRNTSAQPEPQFKVHDHVVYPLQGVGEVVRIEEREFKGEGLLYYVIYIPVSDMTVMVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V KA +IG+R +        AL  +    +   T W  R Q     +  G ++ IA VVR
Sbjct: 61  VHKAAEIGIRPIVSREEALEALDFISENPQAGPTDWKTRYQMNLDLLKKGSVMDIARVVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
            L+      E    ER+L+++AL  +V EI+    IS  E    I
Sbjct: 121 ALYYRSKIKELPILERKLFDNALRILVDEISFALEISAKEVEARI 165


>gi|291059888|gb|ADD72623.1| transcription factor [Treponema pallidum subsp. pallidum str.
           Chicago]
          Length = 243

 Score =  189 bits (480), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 49/164 (29%), Positives = 73/164 (44%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            FR  +H+VYP  GVG + EI E+      L ++VI  ++  M + +PV KA ++G+R +
Sbjct: 70  AFRPHDHVVYPGQGVGQVQEISEKTFKNETLLYYVIYLEESDMTVLIPVDKAQELGIRTI 129

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +    ERAL+ +          W  R Q       SG ++  A VVR L+      E  
Sbjct: 130 VKRKEAERALRFLSEDFDPSPLDWKMRYQVNLNLFKSGGILDNAAVVRSLYHRSKVKELP 189

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
             ER+LY+SA      E+     +  PE   LI   L       
Sbjct: 190 IQERRLYDSAYRIFQDEMCFALGLRPPEVETLIHGYLEKAKENP 233


>gi|15639502|ref|NP_218952.1| transcription factor (carD) [Treponema pallidum subsp. pallidum
           str. Nichols]
 gi|189025741|ref|YP_001933513.1| transcription factor [Treponema pallidum subsp. pallidum SS14]
 gi|3322803|gb|AAC65499.1| transcription factor (carD) [Treponema pallidum subsp. pallidum
           str. Nichols]
 gi|189018316|gb|ACD70934.1| transcription factor [Treponema pallidum subsp. pallidum SS14]
          Length = 208

 Score =  189 bits (480), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 49/164 (29%), Positives = 73/164 (44%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            FR  +H+VYP  GVG + EI E+      L ++VI  ++  M + +PV KA ++G+R +
Sbjct: 35  AFRPHDHVVYPGQGVGQVQEISEKTFKNETLLYYVIYLEESDMTVLIPVDKAQELGIRTI 94

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +    ERAL+ +          W  R Q       SG ++  A VVR L+      E  
Sbjct: 95  VKRKEAERALRFLSEDFDPSPLDWKMRYQVNLNLFKSGGILDNAAVVRSLYHRSKVKELP 154

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
             ER+LY+SA      E+     +  PE   LI   L       
Sbjct: 155 IQERRLYDSAYRIFQDEMCFALGLRPPEVETLIHGYLEKAKENP 198


>gi|183222034|ref|YP_001840030.1| CarD family transcriptional regulator [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
 gi|189912101|ref|YP_001963656.1| transcriptional regulator [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167776777|gb|ABZ95078.1| Transcriptional regulator [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167780456|gb|ABZ98754.1| Transcriptional regulator, CarD family [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
          Length = 193

 Score =  189 bits (480), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 55/191 (28%), Positives = 100/191 (52%), Gaps = 6/191 (3%)

Query: 1   MTFQQKRDAMRQ-GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           M  ++  +  ++  F+ G+++VYP HGVG +TE+ ++ + G K + + +     KM + +
Sbjct: 1   MATKKLNEKTKEPKFKVGDYVVYPIHGVGEVTEVAKKLILGKKKDCYSLEIQGSKMKVSI 60

Query: 60  PVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV 119
           PV +A+D+G+R + +   +++ L L++         W  R Q    KI SG +  +A+V 
Sbjct: 61  PVDRAMDVGIRSIIDKKEIKKVLTLLKKDEVDTEEDWKVRYQNNMNKIKSGSIFEVADVC 120

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS-----KSS 174
           R+L+R     E S  ER+LYESA N +  EIA    + + EA N++   L++        
Sbjct: 121 RNLYRRAYGKELSIMERKLYESAYNLVKMEIALSKGVPQEEAGNIVSDVLAASVQGIAPP 180

Query: 175 KTEKSTSENQD 185
              K   ++ D
Sbjct: 181 PPPKELDDDLD 191


>gi|85859811|ref|YP_462013.1| carD-like transcriptional regulator [Syntrophus aciditrophicus SB]
 gi|85722902|gb|ABC77845.1| carD-like transcriptional regulator [Syntrophus aciditrophicus SB]
          Length = 161

 Score =  188 bits (478), Expect = 3e-46,   Method: Composition-based stats.
 Identities = 45/159 (28%), Positives = 88/159 (55%), Gaps = 1/159 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+  VYPA GVG I  I+ +EV G   +F+++    + M + +P G A  +G+R+L
Sbjct: 1   MFKVGDLAVYPAQGVGVIEAIESREVMGSTQKFYIMKIMSNGMKIMIPTGSAESVGLREL 60

Query: 73  SEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                V +  ++++ K   + +  W++R +EY  KI +G +  IA V+RDL    +    
Sbjct: 61  ILEDDVPKVYEILKNKDITIDKQTWNKRYREYLEKIKTGSVFEIARVLRDLLILKNDKNL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S+ ER++ ++A + +++EI+  ++  E +    ++   S
Sbjct: 121 SFGERKMMDTAKSLLIKEISIASNAEETKIEQDLKTIFS 159


>gi|229013922|ref|ZP_04171049.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
 gi|229062401|ref|ZP_04199717.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|228716872|gb|EEL68559.1| Transcriptional regulator, CarD [Bacillus cereus AH603]
 gi|228747392|gb|EEL97268.1| Transcriptional regulator, CarD [Bacillus mycoides DSM 2048]
          Length = 162

 Score =  188 bits (478), Expect = 4e-46,   Method: Composition-based stats.
 Identities = 45/161 (27%), Positives = 82/161 (50%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+
Sbjct: 1   MDDLFQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIISKDMQVMLPMNQLQKSGI 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R + +   ++  L             W +R      K+ +G+L   AEVVRDL R + + 
Sbjct: 61  RYIVDKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKER 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             + SE+Q+ ++A   ++ E+A V ++SE +A   ++  ++
Sbjct: 121 ALNASEKQMLDNARKMVISEVALVQNVSEHQATEFLQDTIN 161


>gi|229135557|ref|ZP_04264340.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
 gi|229169450|ref|ZP_04297156.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|228614008|gb|EEK71127.1| Transcriptional regulator, CarD [Bacillus cereus AH621]
 gi|228647899|gb|EEL03951.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST196]
          Length = 162

 Score =  188 bits (477), Expect = 4e-46,   Method: Composition-based stats.
 Identities = 45/161 (27%), Positives = 82/161 (50%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+
Sbjct: 1   MDDLFQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIISKDMQVMLPINQLQKSGI 60

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R + +   ++  L             W +R      K+ +G+L   AEVVRDL R + + 
Sbjct: 61  RYIVDKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKER 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             + SE+Q+ ++A   ++ E+A V ++SE +A   ++  ++
Sbjct: 121 ALNASEKQMLDNARKMVISEVALVQNVSEHQATEFLQDTIN 161


>gi|262197699|ref|YP_003268908.1| CarD family transcriptional regulator [Haliangium ochraceum DSM
           14365]
 gi|262081046|gb|ACY17015.1| transcriptional regulator, CarD family [Haliangium ochraceum DSM
           14365]
          Length = 162

 Score =  188 bits (477), Expect = 5e-46,   Method: Composition-based stats.
 Identities = 47/159 (29%), Positives = 83/159 (52%), Gaps = 1/159 (0%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+  VYPA GV  +  I+ +E+      F+V+     +M + VP  KA  +G+R ++
Sbjct: 4   FSIGDKAVYPAQGVAEVVGIENKEINSTICSFYVLKVLDTEMQILVPKDKADQVGLRPVA 63

Query: 74  EAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
               VE    ++R +   + +  W+RR + +  KI +G L  +AEV RDL+R  S    S
Sbjct: 64  SDEEVEEVFDILREQDIHIDKQTWNRRYRGFMEKIKTGSLFEVAEVFRDLYRLKSTKTLS 123

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           + ER++ ++A N +V+E+A   +  E      +E   ++
Sbjct: 124 FGERRMLDTAKNLIVKELAVARNWDEQRVEKELEKAFAA 162


>gi|8131942|gb|AAF73146.1|AF149031_1 unknown [Sinorhizobium meliloti]
          Length = 162

 Score =  187 bits (475), Expect = 6e-46,   Method: Composition-based stats.
 Identities = 118/163 (72%), Positives = 138/163 (84%), Gaps = 3/163 (1%)

Query: 28  GTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRG 87
           G I  I+EQEVAGMKLE FVI F+KDKM LKVPV KA+ IGMRKLSE  FV+RALK+V+G
Sbjct: 1   GQIVAIEEQEVAGMKLELFVIDFEKDKMRLKVPVAKAVGIGMRKLSETDFVDRALKVVQG 60

Query: 88  KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMV 147
           KARVKRTMWSRRAQEYDAKINSGDLI+IAEVVRDL+R ++QPE+SYSERQLYE+AL+RM 
Sbjct: 61  KARVKRTMWSRRAQEYDAKINSGDLISIAEVVRDLYRAENQPEQSYSERQLYEAALDRMA 120

Query: 148 REIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN--QDKAA 188
           REIAAVN +SE EA+ L+E NL+ K  K  K+  E+  QD+AA
Sbjct: 121 REIAAVNRMSETEAVRLVEANLN-KGPKRGKAIEEDDAQDEAA 162


>gi|163942446|ref|YP_001647330.1| CarD family transcriptional regulator [Bacillus weihenstephanensis
           KBAB4]
 gi|163864643|gb|ABY45702.1| transcriptional regulator, CarD family [Bacillus weihenstephanensis
           KBAB4]
          Length = 159

 Score =  187 bits (475), Expect = 6e-46,   Method: Composition-based stats.
 Identities = 44/158 (27%), Positives = 81/158 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R +
Sbjct: 1   MFQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIISKDMQVMLPINQLQKSGIRYI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++  L             W +R      K+ +G+L   AEVVRDL R + +   +
Sbjct: 61  VDKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            SE+Q+ ++A   ++ E+A V ++SE +A   ++  ++
Sbjct: 121 ASEKQMLDNARKMVISEVALVQNVSEHQATEFLQDTIN 158


>gi|242280390|ref|YP_002992519.1| CarD family transcriptional regulator [Desulfovibrio salexigens DSM
           2638]
 gi|242123284|gb|ACS80980.1| transcriptional regulator, CarD family [Desulfovibrio salexigens
           DSM 2638]
          Length = 171

 Score =  187 bits (475), Expect = 7e-46,   Method: Composition-based stats.
 Identities = 46/169 (27%), Positives = 83/169 (49%), Gaps = 3/169 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYP+ GVG +  I+ QE+ G   EF+++    + + L VPV  A ++G+R +
Sbjct: 1   MFELDQLVVYPSQGVGKVERIESQEIGGATAEFYIVRILSNNVTLMVPVMNAHNVGLRAV 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
            +        + ++ ++         W+RR +EY  K+ SGDL  +A V+++L       
Sbjct: 61  CDKDAGMEIFESLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLQDVAYVLKELFLIGRDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
           E S+ ER+L E A+  +  E++    + + E    I    S    K E+
Sbjct: 121 ELSFGERRLLEQAMGLVSMELSFALDLDQEEIKEDINALFSDVLEKQEE 169


>gi|323700581|ref|ZP_08112493.1| transcriptional regulator, CarD family [Desulfovibrio sp. ND132]
 gi|323460513|gb|EGB16378.1| transcriptional regulator, CarD family [Desulfovibrio desulfuricans
           ND132]
          Length = 171

 Score =  187 bits (475), Expect = 7e-46,   Method: Composition-based stats.
 Identities = 48/171 (28%), Positives = 88/171 (51%), Gaps = 3/171 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+  E +VYP+ GVG +  ++ QE+ G+K +F+++    + + L VPV  A+++G+R +
Sbjct: 1   MFKVDELVVYPSQGVGRVERVESQEIGGVKADFYIVRILSNNVTLMVPVANAVNVGLRSV 60

Query: 73  SEAHFVERALKLVRGK---ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
             A   +   + ++ +          W+RR +EY  K+ SGDL  +A V+++L       
Sbjct: 61  CPADVGQAIFESLKDRTGFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLKELFLIGKDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           E S+ ER+L E A+  +  E+A     S+ E    I    +   +  EK+ 
Sbjct: 121 ELSFGERRLLEQAMGLVSMELAYSLDRSQEEIKGDINEMFADVIAAQEKND 171


>gi|183601479|ref|ZP_02962849.1| possible transcriptional regulator [Bifidobacterium animalis subsp.
           lactis HN019]
 gi|219683979|ref|YP_002470362.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           AD011]
 gi|241191021|ref|YP_002968415.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           Bl-04]
 gi|241196427|ref|YP_002969982.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           DSM 10140]
 gi|183219085|gb|EDT89726.1| possible transcriptional regulator [Bifidobacterium animalis subsp.
           lactis HN019]
 gi|219621629|gb|ACL29786.1| possible transcriptional regulator [Bifidobacterium animalis subsp.
           lactis AD011]
 gi|240249413|gb|ACS46353.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           Bl-04]
 gi|240250981|gb|ACS47920.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           DSM 10140]
 gi|295794010|gb|ADG33545.1| transcriptional regulator [Bifidobacterium animalis subsp. lactis
           V9]
          Length = 198

 Score =  186 bits (473), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 54/181 (29%), Positives = 92/181 (50%), Gaps = 4/181 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-DKMCLKVPVGKAIDIGMR 70
            G++ G+ +VYP HG   + EI ++ V G+  E+  ++    D + + VPV     +G+R
Sbjct: 1   MGYKVGDMVVYPRHGAARVEEILQRTVKGVTREYLKLSVLSSDDLEIFVPVDNLKKVGVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQP 129
            + +   V R  +++R     K   WSRR +    KI +GD+  IAEVVRDL + D  + 
Sbjct: 61  DIVDGDEVSRVFEILRTPIVEKEMNWSRRYKLNVEKIATGDVNNIAEVVRDLSQRDVDEH 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKA 187
             S  E+++   A + +  EIA    +SE E   L++VNL     +    +  +E  ++ 
Sbjct: 121 GLSAGEKRMLTKARSILTSEIALSEELSEEETQRLLDVNLGYAEPQEGDAEHHTEVPEEP 180

Query: 188 A 188
           A
Sbjct: 181 A 181


>gi|229019949|ref|ZP_04176742.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
 gi|229026183|ref|ZP_04182547.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228735111|gb|EEL85742.1| Transcriptional regulator, CarD [Bacillus cereus AH1272]
 gi|228741333|gb|EEL91540.1| Transcriptional regulator, CarD [Bacillus cereus AH1273]
          Length = 164

 Score =  186 bits (473), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 81/157 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTTRQYCVIRIINKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L             W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDGILLEFHHGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   ++ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMVISEVALVQNVSEHQATEFLQDTIN 163


>gi|224368792|ref|YP_002602953.1| transcriptional regulator (CarD family protein) [Desulfobacterium
           autotrophicum HRM2]
 gi|223691508|gb|ACN14791.1| transcriptional regulator (CarD family protein) [Desulfobacterium
           autotrophicum HRM2]
          Length = 153

 Score =  186 bits (473), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 45/151 (29%), Positives = 85/151 (56%), Gaps = 1/151 (0%)

Query: 21  VYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVER 80
           VYPAHGVG I  I+ +E+ G  + F+++    + M + +P      +G+R++ +   V  
Sbjct: 3   VYPAHGVGCIESIESKEINGENMNFYMMKIVDNGMVIMIPTANVESVGLREVIKQKDVPE 62

Query: 81  ALKLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLY 139
             ++++ K   + +  W+RR +EY  KI +G +  IAEV RDL +   + + S+ ER+L 
Sbjct: 63  VYRIMQEKGPDLDKQTWNRRYREYMDKIKTGSIYDIAEVFRDLFQLKLEKDLSFGERKLL 122

Query: 140 ESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           ++A N +V+E++   ++ E   +  IE   +
Sbjct: 123 DTAQNLLVQELSMAKNMDEAAMMTEIEQLFN 153


>gi|229099195|ref|ZP_04230127.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
 gi|229105347|ref|ZP_04235994.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|229118208|ref|ZP_04247566.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228665255|gb|EEL20739.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-3]
 gi|228678059|gb|EEL32289.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-28]
 gi|228684176|gb|EEL38122.1| Transcriptional regulator, CarD [Bacillus cereus Rock3-29]
          Length = 164

 Score =  186 bits (473), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 80/157 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRILSKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLNDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V  +SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQDVSEHQATEFLQETIN 163


>gi|206969561|ref|ZP_03230515.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|228954994|ref|ZP_04117011.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|229147285|ref|ZP_04275636.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|229181033|ref|ZP_04308368.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|296505181|ref|YP_003666881.1| CarD family transcriptional regulator [Bacillus thuringiensis
           BMB171]
 gi|206735249|gb|EDZ52417.1| transcriptional regulator, CarD family [Bacillus cereus AH1134]
 gi|228602590|gb|EEK60076.1| Transcriptional regulator, CarD [Bacillus cereus 172560W]
 gi|228636186|gb|EEK92665.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-ST24]
 gi|228804721|gb|EEM51323.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|296326233|gb|ADH09161.1| CarD family transcriptional regulator [Bacillus thuringiensis
           BMB171]
          Length = 164

 Score =  186 bits (472), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V +++E +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQDTIN 163


>gi|229048423|ref|ZP_04193990.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
 gi|228722938|gb|EEL74316.1| Transcriptional regulator, CarD [Bacillus cereus AH676]
          Length = 164

 Score =  186 bits (472), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V +++E +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQDTIN 163


>gi|30022787|ref|NP_834418.1| CarD family transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|229129995|ref|ZP_04258959.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
 gi|29898346|gb|AAP11619.1| CarD-like transcriptional regulator [Bacillus cereus ATCC 14579]
 gi|228653439|gb|EEL09313.1| Transcriptional regulator, CarD [Bacillus cereus BDRD-Cer4]
          Length = 164

 Score =  186 bits (472), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEFLQDTIN 163


>gi|228941895|ref|ZP_04104439.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228974826|ref|ZP_04135389.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228981418|ref|ZP_04141717.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228778301|gb|EEM26569.1| Transcriptional regulator, CarD [Bacillus thuringiensis Bt407]
 gi|228784886|gb|EEM32902.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228817728|gb|EEM63809.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|326942500|gb|AEA18396.1| CarD family transcriptional regulator [Bacillus thuringiensis
           serovar chinensis CT-43]
          Length = 164

 Score =  186 bits (472), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMNQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V +++E +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQDTIN 163


>gi|78045099|ref|YP_361149.1| CarD family transcriptional regulator [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77997214|gb|ABB16113.1| transcriptional regulator, CarD family [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 160

 Score =  185 bits (471), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 51/158 (32%), Positives = 87/158 (55%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G  +VYP HG G I EI+E+  A   ++++V++F    M L +PV K   +G+R +
Sbjct: 1   MFKVGAKVVYPMHGAGIIREIEERLAADRVMKYYVLSFWATNMILWLPVEKVERVGLRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                VE+   +++       + W++R + +  KI S D++AIA+VVRDL R +     S
Sbjct: 61  IGKDMVEKVFAVLKEGEEKIHSNWNKRYKNHVDKIKSNDILAIADVVRDLRRREKVKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             E++L ESA   +V E+  V    E + + +IE  ++
Sbjct: 121 TGEKKLLESARQILVSELILVLEEDEEKVLAMIEEAIT 158


>gi|258591297|emb|CBE67594.1| CarD-like transcriptional regulator [NC10 bacterium 'Dutch
           sediment']
          Length = 162

 Score =  185 bits (471), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 46/159 (28%), Positives = 82/159 (51%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             +RTG  +VYP HGVG I  I+ +EV G    F+V+    + M + VP   A  +G+R+
Sbjct: 1   MMYRTGTKVVYPTHGVGWIEAIENKEVGGGPQAFYVVRIIGNGMTILVPTKNAKRVGLRE 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + EA  + + L +++       + W+RR ++   +I +G L  +A V+R L     +   
Sbjct: 61  VIEASEIPKILAILKKNDLEISSNWNRRFKDNLERIRTGSLFEVALVLRKLVLLQKERSL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S+ E+ + E+    +V EI+  + I +  A  L+E  + 
Sbjct: 121 SFGEKTMLENVRRLIVSEISHASGIDQERAKVLVEQAVG 159


>gi|28493316|ref|NP_787477.1| transcriptional regulator [Tropheryma whipplei str. Twist]
 gi|28572573|ref|NP_789353.1| transcription regulator CarD [Tropheryma whipplei TW08/27]
 gi|28410705|emb|CAD67091.1| putative CarD-family transcriptional regulator [Tropheryma whipplei
           TW08/27]
 gi|28476357|gb|AAO44446.1| transcriptional regulator [Tropheryma whipplei str. Twist]
          Length = 160

 Score =  185 bits (471), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 45/160 (28%), Positives = 84/160 (52%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG  +I EIK++ + G ++ +  +      + ++VP  K   +G+R 
Sbjct: 1   MQFKVGQTVVYPHHGTASILEIKKRVIRGEEVTYLKLHVSDGDLMIEVPAEKIEAVGLRG 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + ++    R ++++R     + T WSRR +    KI SGD+  + EVVRDL R +     
Sbjct: 61  VIDSDGARRVVEVLRENLVDEPTNWSRRYKSNLEKIASGDVTKVTEVVRDLSRREKTRVL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S  E+++   A   +V E+A     ++ +A  L++  L+ 
Sbjct: 121 SAGEKRMLTRARGILVAELALARHTNQEDAEALLDEVLAE 160


>gi|228923471|ref|ZP_04086756.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228836197|gb|EEM81553.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 164

 Score =  185 bits (470), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 83/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L+  AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLLDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEYLQDTIN 163


>gi|38234538|ref|NP_940305.1| putative CarD-like transcriptional factor [Corynebacterium
           diphtheriae NCTC 13129]
 gi|38200801|emb|CAE50505.1| Putative CarD-like transcriptional factor [Corynebacterium
           diphtheriae]
          Length = 193

 Score =  185 bits (470), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 48/173 (27%), Positives = 87/173 (50%), Gaps = 4/173 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   I  I+ +E+ G  LE+ V+  ++  + ++VP   A  +G+R 
Sbjct: 1   MEFKVGDTVVYPHHGAAVIEAIEHREMGGETLEYLVLQINQSDLVVRVPSKNAELVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + +   +++    +R     +   WSRR +    ++ SGD+  +AEVVRDL R D     
Sbjct: 61  VVDDDGLQKVFGFLRETDVEEAGNWSRRFKANQERLASGDVNKVAEVVRDLWRRDQGKGL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
           S  E+++   A   +V E+A   +  E +     E  L+   +  E+  +EN+
Sbjct: 121 SAGEKRMLAKARQVLVGELALAENKDEKQ----TEEILAQVDATIERHRAENK 169


>gi|218235392|ref|YP_002369513.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228960989|ref|ZP_04122619.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|229112178|ref|ZP_04241720.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|229152915|ref|ZP_04281097.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|218163349|gb|ACK63341.1| transcriptional regulator, CarD family [Bacillus cereus B4264]
 gi|228630528|gb|EEK87175.1| Transcriptional regulator, CarD [Bacillus cereus m1550]
 gi|228671294|gb|EEL26596.1| Transcriptional regulator, CarD [Bacillus cereus Rock1-15]
 gi|228798706|gb|EEM45689.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           pakistani str. T13001]
          Length = 164

 Score =  185 bits (470), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEFLQDTIN 163


>gi|304439404|ref|ZP_07399316.1| CarD family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304372186|gb|EFM25780.1| CarD family transcriptional regulator [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 160

 Score =  185 bits (470), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 43/146 (29%), Positives = 82/146 (56%), Gaps = 1/146 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +  G+ +VYP HG G I +I+++E+ G    ++++     +M + VPV +A +IG+R +
Sbjct: 1   MYSIGDKVVYPMHGAGVIVDIEKKEILGEIRNYYILKMPIQEMKVMVPVEQAEEIGVRPI 60

Query: 73  SEAHFVERALKLVRGKAR-VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                ++  L+ ++   +    + W+RR +    KI +GD++ IA+VVR L R D++   
Sbjct: 61  YGTEEMKEVLETLQSDKKLDMPSNWNRRFRFSTEKIKTGDIVEIAKVVRCLVRMDNEKNL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSIS 157
           S  ER+L  +A   +V E+A +   +
Sbjct: 121 STGERKLLNNAKKIIVSEMALIYEKT 146


>gi|228910571|ref|ZP_04074385.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
 gi|228849135|gb|EEM93975.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 200]
          Length = 164

 Score =  184 bits (469), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMDQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGEADPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V +++E +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQDTIN 163


>gi|75760847|ref|ZP_00740862.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|218899872|ref|YP_002448283.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228903236|ref|ZP_04067369.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
 gi|228967819|ref|ZP_04128833.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|229072221|ref|ZP_04205428.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|229076225|ref|ZP_04209192.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|229081972|ref|ZP_04214463.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|229193002|ref|ZP_04319958.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|74491661|gb|EAO54862.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|218545825|gb|ACK98219.1| transcriptional regulator, CarD family [Bacillus cereus G9842]
 gi|228590449|gb|EEK48312.1| Transcriptional regulator, CarD [Bacillus cereus ATCC 10876]
 gi|228701349|gb|EEL53844.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-2]
 gi|228706874|gb|EEL59080.1| Transcriptional regulator, CarD [Bacillus cereus Rock4-18]
 gi|228710878|gb|EEL62846.1| Transcriptional regulator, CarD [Bacillus cereus F65185]
 gi|228791869|gb|EEM39457.1| Transcriptional regulator, CarD [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228856410|gb|EEN00937.1| Transcriptional regulator, CarD [Bacillus thuringiensis IBL 4222]
          Length = 164

 Score =  184 bits (469), Expect = 4e-45,   Method: Composition-based stats.
 Identities = 44/157 (28%), Positives = 82/157 (52%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTSRQYCVIRIISKDMQVMLPMEQLKKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DRGTLDDILLEFQNGESDPSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERTLNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V +++E +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVTEHQATEFLQDTIN 163


>gi|297568584|ref|YP_003689928.1| transcriptional regulator, CarD family [Desulfurivibrio
           alkaliphilus AHT2]
 gi|296924499|gb|ADH85309.1| transcriptional regulator, CarD family [Desulfurivibrio
           alkaliphilus AHT2]
          Length = 165

 Score =  184 bits (469), Expect = 4e-45,   Method: Composition-based stats.
 Identities = 49/165 (29%), Positives = 86/165 (52%), Gaps = 1/165 (0%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
             A  + FR G+  VYPAHGVG I  I+ ++V  ++  F+V+ F +  M + +P      
Sbjct: 1   MSATLEMFRVGDMAVYPAHGVGKIESIESRKVGELEQSFYVMRFIESNMTVMIPTTTCDT 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARV-KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
           +G+R +  A  V++   ++  +    +   W++R +EY  KI +G +  IA V+RDL   
Sbjct: 61  VGLRNIISADDVQQVFAILNQRDVETESQPWNQRYREYTNKIKTGSIFEIAAVLRDLLLL 120

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
               + S+ ER++ ++A   +V+EIA    I E +    I+   S
Sbjct: 121 RGDKDLSFGERKMVDTAKTLLVKEIALAKQIQEEQVAEHIDRIFS 165


>gi|303238352|ref|ZP_07324887.1| transcriptional regulator, CarD family [Acetivibrio cellulolyticus
           CD2]
 gi|302594056|gb|EFL63769.1| transcriptional regulator, CarD family [Acetivibrio cellulolyticus
           CD2]
          Length = 159

 Score =  184 bits (468), Expect = 4e-45,   Method: Composition-based stats.
 Identities = 42/158 (26%), Positives = 79/158 (50%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +  G+ IVYP HG G I  I+E+E+ G K  ++V+      M + +P      IG+R++
Sbjct: 1   MYNVGDRIVYPMHGAGIIESIEEREILGSKQSYYVVRIPIGDMKVMIPTKNVTGIGIREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +R   ++  +     + W++R +E   KI SG++  +A+VVR L   + +   S
Sbjct: 61  ISERDADRVFSVLGAENNSANSNWNKRYRENMVKIKSGNIYEVADVVRSLMVREKEKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ER++  SA   ++ E+    +++  E   +I   L+
Sbjct: 121 TGERKMLSSAKQILISELVLAKNMNAIEIEKIISKFLN 158


>gi|229163710|ref|ZP_04291657.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
 gi|228619772|gb|EEK76651.1| Transcriptional regulator, CarD [Bacillus cereus R309803]
          Length = 164

 Score =  184 bits (468), Expect = 5e-45,   Method: Composition-based stats.
 Identities = 45/157 (28%), Positives = 81/157 (51%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP HG G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMHGAGIIEAIEEKEILGTLRQYCVIRILSKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   +   L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLNDILLEFQQGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           SE+Q+ ++A   M+ E+A V ++SE +A   ++  ++
Sbjct: 127 SEKQMLDNARKMMISEVALVQNVSEHQATEFLQDTIN 163


>gi|56962605|ref|YP_174331.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56908843|dbj|BAD63370.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 153

 Score =  184 bits (467), Expect = 7e-45,   Method: Composition-based stats.
 Identities = 38/152 (25%), Positives = 78/152 (51%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HG G I  I+E ++   K ++++I    + M + +P  K ++  +R +
Sbjct: 1   MFQIGDNIVYPMHGAGVIEAIEEIDLLEEKQQYYIIKMSINNMKVMIPTSKIVNSRIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   +   + + +         W +R +    KI  G++   AEVVRDL R   +   +
Sbjct: 61  TDILAINHIIHIFQHGESDTLLPWKQRYKVNADKIKMGEMQEGAEVVRDLRRIKKEKTLN 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE++L ++A   ++ E+  V  I++ +  + 
Sbjct: 121 TSEKELLDNAYEFLLSELEVVKGITDRQIKSF 152


>gi|227824939|ref|ZP_03989771.1| transcriptional regulator [Acidaminococcus sp. D21]
 gi|226905438|gb|EEH91356.1| transcriptional regulator [Acidaminococcus sp. D21]
          Length = 162

 Score =  183 bits (466), Expect = 7e-45,   Method: Composition-based stats.
 Identities = 41/162 (25%), Positives = 85/162 (52%), Gaps = 2/162 (1%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M   F  G+ ++YP HG   I +++++ + G ++++FV       M + VP G    +G+
Sbjct: 1   MAYMFTVGDKVLYPMHGAAVIRDVEQKVIDGRQIDYFVFDMLLSNMKVMVPAGNVEKVGI 60

Query: 70  RKLSEAHFVERALKLVRGKA--RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           R + +   + +  ++++ +   R+KR  W+RR   Y  K+ +G +  +A+VVR L   + 
Sbjct: 61  RPIVDKSVMPKVEEVLKARPENRMKRITWNRRYNMYIDKMKTGSIFEVADVVRTLAVQEE 120

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + S  ER+L  +A   ++ E+  V S+ E ++   +E  +
Sbjct: 121 DKKLSTGERRLLSTAKQILLSEVMLVESVDEEKSEAWLEKFI 162


>gi|157692393|ref|YP_001486855.1| transcription factor CarD [Bacillus pumilus SAFR-032]
 gi|157681151|gb|ABV62295.1| possible transcription factor CarD [Bacillus pumilus SAFR-032]
          Length = 158

 Score =  183 bits (466), Expect = 9e-45,   Method: Composition-based stats.
 Identities = 43/157 (27%), Positives = 82/157 (52%), Gaps = 2/157 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G I  ++E+E+ G   E+F+I      M + +P G+   +G+R +
Sbjct: 1   MFQIGDKIVYPMHGAGVIEGMEEKEILGKTEEYFLIQMP--NMQMMIPRGRINQLGIRPV 58

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  +     +       W +R  E   K+ +G +   A+VV+DL R + +   +
Sbjct: 59  ADQATLKVVMNNFAEETNDDTLTWKQRYDENLKKLKTGAIEDGADVVKDLMRRNQKKALN 118

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
            SE+++ E A   +V EI+    +S+ E ++ +E  L
Sbjct: 119 SSEKKMLEDARGMLVSEISLAQGLSQDEVLSALENEL 155


>gi|46579983|ref|YP_010791.1| CarD family transcriptional regulator [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120602605|ref|YP_967005.1| CarD family transcriptional regulator [Desulfovibrio vulgaris DP4]
 gi|46449399|gb|AAS96050.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120562834|gb|ABM28578.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris DP4]
 gi|311234019|gb|ADP86873.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris
           RCH1]
          Length = 171

 Score =  183 bits (466), Expect = 9e-45,   Method: Composition-based stats.
 Identities = 50/157 (31%), Positives = 81/157 (51%), Gaps = 3/157 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   E +VYPA GVG +  I+ QEV G+  EF+++    + + L VPV  A ++G+R L
Sbjct: 1   MFSPDELVVYPAQGVGKVERIERQEVGGVTAEFYIVRILTNNVTLMVPVKNAANVGLRPL 60

Query: 73  SEAHFVERALKLVRGK---ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                    +  +  +          W+RR +EY  K+ S DL  +A V+R+L       
Sbjct: 61  CSTERANEIMLSLEDRSGFTGYTGQNWNRRYREYSEKLKSPDLGDVAYVLRELLLIGKDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           E S+ ER+L E A++ +V E++ V  +++ E    IE
Sbjct: 121 ELSFGERRLLEQAMSLLVVELSHVQGLTQEEVRANIE 157


>gi|301167408|emb|CBW26990.1| putative transcriptional regulator [Bacteriovorax marinus SJ]
          Length = 176

 Score =  183 bits (466), Expect = 9e-45,   Method: Composition-based stats.
 Identities = 47/159 (29%), Positives = 83/159 (52%), Gaps = 3/159 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G++ V P HGVG + +I+E+EV G KL F++I    + M + VP     + G+R+L
Sbjct: 20  MFNIGDYAVCPGHGVGQVCDIEEKEVGGDKLSFYIIKIIANGMTVMVPTNS--ENGIREL 77

Query: 73  SEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                +    +L++     V  + W+RR +EY  KI +G L+ IA+V+R L    ++   
Sbjct: 78  VGNEEINEVYELLQDHDVEVDNSTWNRRYREYMTKIKTGSLLEIADVLRALFLLRAKKNL 137

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S+ E+++ E   + + +EI+  N     E    I+   +
Sbjct: 138 SFGEKKMLEQCRDLLAQEISLSNGNDTKEISTTIDDYFN 176


>gi|116624660|ref|YP_826816.1| CarD family transcriptional regulator [Candidatus Solibacter
           usitatus Ellin6076]
 gi|116227822|gb|ABJ86531.1| transcriptional regulator, CarD family [Candidatus Solibacter
           usitatus Ellin6076]
          Length = 170

 Score =  183 bits (465), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 43/162 (26%), Positives = 79/162 (48%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP  GVG I  I  +       +F+++ F    M + VP   A +IG+R+
Sbjct: 2   MTFQIGDKVVYPNQGVGIIENISIRSFGSAFEKFYLLRFGCSSMTVLVPFSNAANIGLRR 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +++   + R L  +          W  R +E   K+ SGDL+  AEV + L +       
Sbjct: 62  VTKDREISRILSYLATGWCPLNPDWKVRFKENTDKMQSGDLLKAAEVFKVLLQLHVDKPL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S+ E+++ + A + +V EI+   ++ E  A+ L++  L+   
Sbjct: 122 SFREKKMLDRARHMLVSEISIARNVPEIHAVGLMQRALAKAG 163


>gi|189183652|ref|YP_001937437.1| hypothetical protein OTT_0745 [Orientia tsutsugamushi str. Ikeda]
 gi|189180423|dbj|BAG40203.1| hypothetical protein OTT_0745 [Orientia tsutsugamushi str. Ikeda]
          Length = 169

 Score =  183 bits (465), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 68/164 (41%), Positives = 105/164 (64%), Gaps = 1/164 (0%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
             ++ F+ G+ +VYP+HGVG +  I+ Q   G +L  +V++F  DKM LKVPV      G
Sbjct: 4   QQQEQFKIGDKVVYPSHGVGEVIGIENQVFCGKELRVYVVSFPMDKMTLKVPVNSKSASG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R +S     ++  K++  +++    MWSRRAQEY+ KINSGDL +IAEVVRDL++   +
Sbjct: 64  LRAISYKTDTDKIYKILCSQSQPGNRMWSRRAQEYENKINSGDLCSIAEVVRDLYKNA-E 122

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            ++SYSER +YESA+ R+ RE+A + S+   E I  +   L ++
Sbjct: 123 VDRSYSERTIYESAITRLARELAILESLKYEEIIEKLTEILKNR 166


>gi|283853058|ref|ZP_06370314.1| transcriptional regulator, CarD family [Desulfovibrio sp. FW1012B]
 gi|283571525|gb|EFC19529.1| transcriptional regulator, CarD family [Desulfovibrio sp. FW1012B]
          Length = 170

 Score =  183 bits (465), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 48/170 (28%), Positives = 84/170 (49%), Gaps = 7/170 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG +  I+ Q + G   +FF++    + + L VPV  A ++G+R L
Sbjct: 1   MFSEEQLVVYPAQGVGRVERIETQVIGGASADFFIVRILSNNVTLMVPVKNAANVGLRPL 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
             A   +  ++ ++ ++         W+RR +EY  K+ SGDL  +A V+++L       
Sbjct: 61  CTAEEGQAIIETLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLGDVAYVLKELLLIGQNK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV----NLSSKSSK 175
           E S+ ER+L E A + +  E+A      + E  ++I       L  K  +
Sbjct: 121 ELSFGERRLLEQATSLLTLELALAMDKEQQEIKDIINEIFADVLQPKPEE 170


>gi|328952413|ref|YP_004369747.1| transcriptional regulator, CarD family [Desulfobacca acetoxidans
           DSM 11109]
 gi|328452737|gb|AEB08566.1| transcriptional regulator, CarD family [Desulfobacca acetoxidans
           DSM 11109]
          Length = 169

 Score =  182 bits (462), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 48/164 (29%), Positives = 89/164 (54%), Gaps = 1/164 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+  VYPAHGVG I  I+++E++G    F+++    + M + +P   A ++G+R +
Sbjct: 1   MFQLGDLAVYPAHGVGVIESIEDKEISGNHQTFYIMRILDNNMIIMIPTHNASNVGLRGI 60

Query: 73  SEAHFVERALKLVRGKAR-VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
            +   V    +++  K R V+   W+RR ++Y  KI +G L  +AEV+RDL       + 
Sbjct: 61  IDGQAVTTIYEILAKKDRVVEHQTWNRRYRDYMEKIKTGSLFHVAEVLRDLTLLKLDKDL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           S+ ER++ ++A N +V+E++      E +    I   L   + +
Sbjct: 121 SFGERKMLDTAKNLLVKELSIAEKKEEDKIEQKINSLLELTAME 164


>gi|297587316|ref|ZP_06945961.1| CarD family transcriptional regulator [Finegoldia magna ATCC 53516]
 gi|297575297|gb|EFH94016.1| CarD family transcriptional regulator [Finegoldia magna ATCC 53516]
          Length = 160

 Score =  182 bits (462), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 40/157 (25%), Positives = 86/157 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G ITE++ +EV G+K +++++     +M + +PV K  D+G+R +
Sbjct: 1   MFKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYYILQMPMGEMKISIPVDKINDMGIRFV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   +     +++       + W++R +E   K+ +GD+   A V + L+  D     S
Sbjct: 61  AQEEIIHSLRDILKNSEVDFPSNWNKRYKENLEKLRTGDIKETAIVYKGLYELDCSKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             E+++  ++   ++ EIA+  +I   +A +++   +
Sbjct: 121 MIEKKVLNTSRKMLISEIASGLNIKPSKAESMVNELI 157


>gi|284048085|ref|YP_003398424.1| transcriptional regulator, CarD family [Acidaminococcus fermentans
           DSM 20731]
 gi|283952306|gb|ADB47109.1| transcriptional regulator, CarD family [Acidaminococcus fermentans
           DSM 20731]
          Length = 159

 Score =  181 bits (461), Expect = 3e-44,   Method: Composition-based stats.
 Identities = 38/157 (24%), Positives = 80/157 (50%), Gaps = 2/157 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ ++YP HG   I  ++++++ G  + +FV+      M + +P      IG+R +
Sbjct: 1   MFTVGDKVLYPMHGAAVIKNVEQKQIDGHPVNYFVLKMLLSDMKVLIPEVNVDKIGLRPI 60

Query: 73  SEAHFVERALKLVRGKAR--VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                + +   +++ +    +KR  W+RR   Y  K+ +GD+  +A+VVR L   +++ +
Sbjct: 61  VNKAILPKVEDVLKARPENKMKRITWNRRYNMYVDKMKTGDIFEVADVVRTLAVQETEKK 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
            S  ER+L  +A   ++ E   V S+ E ++   ++ 
Sbjct: 121 LSAGERRLLTTAKQILLSEFMLVESVDEEKSEKWLDQ 157


>gi|148284672|ref|YP_001248762.1| putative transcriptional factor regulator [Orientia tsutsugamushi
           str. Boryong]
 gi|146740111|emb|CAM80284.1| putative transcriptional factor regulator [Orientia tsutsugamushi
           str. Boryong]
          Length = 169

 Score =  181 bits (461), Expect = 3e-44,   Method: Composition-based stats.
 Identities = 68/164 (41%), Positives = 105/164 (64%), Gaps = 1/164 (0%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
             ++ F+ G+ +VYP+HGVG +  I+ Q   G +L  +V++F  DKM LKVPV      G
Sbjct: 4   QQQEQFKIGDKVVYPSHGVGEVIGIENQVFCGKELRVYVVSFPMDKMTLKVPVNSKSTSG 63

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R +S     ++  K++  +++    MWSRRAQEY+ KINSGDL +IAEVVRDL++   +
Sbjct: 64  LRAISYKTDTDKIYKILSSQSQPGNRMWSRRAQEYENKINSGDLCSIAEVVRDLYKNA-E 122

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            ++SYSER +YESA+ R+ RE+A + S+   E I  +   L ++
Sbjct: 123 VDRSYSERIIYESAITRLARELAILESVKYEEIIEKLTEILKNR 166


>gi|315924877|ref|ZP_07921094.1| CarD family transcriptional regulator [Pseudoramibacter
           alactolyticus ATCC 23263]
 gi|315621776|gb|EFV01740.1| CarD family transcriptional regulator [Pseudoramibacter
           alactolyticus ATCC 23263]
          Length = 159

 Score =  181 bits (459), Expect = 5e-44,   Method: Composition-based stats.
 Identities = 41/158 (25%), Positives = 85/158 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +  G+ IVYP HG G I  I+E ++      ++ +    + M + +PV KA ++G+R++
Sbjct: 1   MYNIGDKIVYPMHGAGVIKNIQEMDIFEKTQMYYKVTIAAEGMEILIPVDKAEEVGLREI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                +E  L+++        + WS+R Q+   ++ SGD+I +A+V R+L   D +   S
Sbjct: 61  PTHQDLEAMLQVLSQPEDKMTSNWSKRYQDNMDQMKSGDIIDVAKVTRNLMLLDRRKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ++++  +A N ++ E+  ++   + EA  +IE  ++
Sbjct: 121 SGDKKMLMTAKNFLISEMMLIDGKEKEEACKIIETTVA 158


>gi|134301075|ref|YP_001114571.1| CarD family transcriptional regulator [Desulfotomaculum reducens
           MI-1]
 gi|134053775|gb|ABO51746.1| transcriptional regulator, CarD family [Desulfotomaculum reducens
           MI-1]
          Length = 155

 Score =  181 bits (459), Expect = 5e-44,   Method: Composition-based stats.
 Identities = 37/158 (23%), Positives = 78/158 (49%), Gaps = 4/158 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ + YP HG G I  I+E+E+ G K  ++V+      M +  P+    DI +R +
Sbjct: 1   MFQIGDKVFYPMHGAGVIEAIEEKEILGNKQLYYVMQIR--NMQVMFPMKS--DIPLRPV 56

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++        +A       ++R +    K+ SGD+    +V+RDL     +   +
Sbjct: 57  VDLDILDVLFTTFNEEALDLTLKPNQRYRSNMNKMKSGDIYQGVQVIRDLILMSKKRTLA 116

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             ++ + ++AL  ++ E+  V  I+E +A++L+   ++
Sbjct: 117 TGDKAMLDNALQILISELVLVKGITEEQAVDLVNGVIN 154


>gi|89893788|ref|YP_517275.1| hypothetical protein DSY1042 [Desulfitobacterium hafniense Y51]
 gi|219668161|ref|YP_002458596.1| CarD family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|89333236|dbj|BAE82831.1| hypothetical protein [Desulfitobacterium hafniense Y51]
 gi|219538421|gb|ACL20160.1| transcriptional regulator, CarD family [Desulfitobacterium
           hafniense DCB-2]
          Length = 161

 Score =  181 bits (459), Expect = 6e-44,   Method: Composition-based stats.
 Identities = 41/160 (25%), Positives = 82/160 (51%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ I YP +G G I  IKE+EV G K  ++ +     K+ + +P+ +  DIG+R++
Sbjct: 1   MFQVGDKIFYPLYGAGIIEAIKEKEVLGKKQFYYFLNIPHIKLKIMIPIERTHDIGIREV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQ--EYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +   ++  L  +        +  ++R +     +KI +GD+    EV+RDL R     +
Sbjct: 61  VKPDVLQHVLDDLYNGTTDPLSDNNQRYRRDMNKSKIKTGDIYKGTEVIRDLMRKSKVKK 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            S  ++ + E+AL  +  E   V  + + +A++L+   ++
Sbjct: 121 LSAEDKAMLENALQILTSEFIQVRGVCKEQAVHLLNEVIN 160


>gi|317152592|ref|YP_004120640.1| transcription factor carD [Desulfovibrio aespoeensis Aspo-2]
 gi|316942843|gb|ADU61894.1| transcription factor CarD [Desulfovibrio aespoeensis Aspo-2]
          Length = 171

 Score =  180 bits (458), Expect = 6e-44,   Method: Composition-based stats.
 Identities = 43/161 (26%), Positives = 80/161 (49%), Gaps = 3/161 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+  E +VYP+ GVG +  ++ QE+ G+K +F+++    + + L VPV  A ++G+R +
Sbjct: 1   MFKVNELVVYPSQGVGRVERVESQEIGGVKADFYIVRILSNNVTLMVPVANAKNVGLRSV 60

Query: 73  SEAHFVERALKLVRGK---ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 +   + ++ +          W+RR +EY  K+ SGDL  +A V+++L       
Sbjct: 61  CSLRVGQEIFESLKDRTGFTGYTGQNWNRRYREYSEKLKSGDLSDVAYVLKELFLIGRDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           E S+ ER+L E A+  +  E+A      +      I    +
Sbjct: 121 ELSFGERRLLEQAMGLVSMELAYSVDRPQDAVKADINAMFA 161


>gi|302379533|ref|ZP_07268018.1| CarD-like protein [Finegoldia magna ACS-171-V-Col3]
 gi|302312440|gb|EFK94436.1| CarD-like protein [Finegoldia magna ACS-171-V-Col3]
          Length = 160

 Score =  180 bits (458), Expect = 7e-44,   Method: Composition-based stats.
 Identities = 43/157 (27%), Positives = 87/157 (55%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G ITE++ +EV G+K ++F++     +M + +PV K  D+G+R +
Sbjct: 1   MFKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYFILKMPMGEMKISIPVDKINDMGIRFV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +E   +     +++ +     + W++R +E   K+  GD+   A V + L+  DS    S
Sbjct: 61  AEEEIIHSLRDILKNQEVDFPSNWNQRYKENLEKLRIGDIKETAVVYKGLYELDSSKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             E+++  ++   ++ EIA+  ++   EA +++   +
Sbjct: 121 MIEKKVLNTSRKMLISEIASGLNLKPSEAESMVNDLI 157


>gi|169824929|ref|YP_001692540.1| CarD family transcriptional regulator [Finegoldia magna ATCC 29328]
 gi|167831734|dbj|BAG08650.1| transcriptional regulator CarD family [Finegoldia magna ATCC 29328]
          Length = 160

 Score =  180 bits (458), Expect = 7e-44,   Method: Composition-based stats.
 Identities = 43/157 (27%), Positives = 87/157 (55%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G ITE++ +EV G+K ++F++     +M + +PV K  D+G+R +
Sbjct: 1   MFKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYFILKMPMGEMKISIPVDKINDMGIRFV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +E   +     +++ +     + W++R +E   K+  GD+   A V + L+  DS    S
Sbjct: 61  AEEEIIHSLRDILKNQEVDFPSNWNQRYKENLEKLRIGDIKETAIVYKGLYELDSSKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             E+++  ++   ++ EIA+  ++   EA +++   +
Sbjct: 121 MIEKKVLNTSRKMLISEIASGLNLKPSEAESMVNDLI 157


>gi|78357172|ref|YP_388621.1| CarD family transcriptional regulator [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
 gi|78219577|gb|ABB38926.1| transcriptional regulator, CarD family [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
          Length = 171

 Score =  180 bits (458), Expect = 7e-44,   Method: Composition-based stats.
 Identities = 46/158 (29%), Positives = 83/158 (52%), Gaps = 3/158 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG +  ++ Q V G + EF+++    + + L VPV  A+++G+R L
Sbjct: 1   MFVPDQLVVYPAQGVGKVERLESQVVGGAEAEFYIVRILSNNVTLMVPVKNAVNVGLRAL 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
             A   ++ L  ++ ++         W+RR +EY  K+ SG L  +A V+++L       
Sbjct: 61  CSAEEGQKILDSLQDRSDFTGYTGQNWNRRYREYSEKLKSGSLEDVAYVLKELLLIGKDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
           E S+ ER+L E ++  +  E+A     ++ +    IEV
Sbjct: 121 ELSFGERRLLEQSMGLITLELAHALDTTQEDVKARIEV 158


>gi|325474975|gb|EGC78161.1| transcriptional regulator [Treponema denticola F0402]
          Length = 209

 Score =  180 bits (457), Expect = 8e-44,   Method: Composition-based stats.
 Identities = 51/170 (30%), Positives = 81/170 (47%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  F   E +VYP  GVGTIT+I ++E+AG  ++++VI      M + VP+    ++G
Sbjct: 2   SKKFVFSAKEVVVYPGQGVGTITDITKKEIAGEVIDYYVIYLSDSDMTVLVPITGIDNLG 61

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R++      E ALK +          W  R Q       SG ++    VVR L++    
Sbjct: 62  IRRIVTKAEAEAALKFLSEDFEPIPIDWKARYQMNMDLFKSGKILDTGSVVRSLYQRSKT 121

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
            E    ER+LY+SA      EIAA   +++ E    I ++L       EK
Sbjct: 122 KELPIQERKLYDSAYRIFQDEIAAALKMTKTEVEAAIHLHLEPLGGPIEK 171


>gi|42527792|ref|NP_972890.1| transcriptional regulator, putative [Treponema denticola ATCC
           35405]
 gi|41818620|gb|AAS12809.1| transcriptional regulator, putative [Treponema denticola ATCC
           35405]
          Length = 208

 Score =  180 bits (457), Expect = 8e-44,   Method: Composition-based stats.
 Identities = 51/170 (30%), Positives = 81/170 (47%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  F   E +VYP  GVGTIT+I ++E+AG  ++++VI      M + VP+    ++G
Sbjct: 2   SKKFVFSAKEVVVYPGQGVGTITDITKKEIAGEVIDYYVIYLSDSDMTVLVPITGIDNLG 61

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R++      E ALK +          W  R Q       SG ++    VVR L++    
Sbjct: 62  IRRIVTKAEAEAALKFLSEDFEPIPIDWKARYQMNMDLFKSGKILDTGSVVRSLYQRSKT 121

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
            E    ER+LY+SA      EIAA   +++ E    I ++L       EK
Sbjct: 122 KELPIQERKLYDSAYRIFQDEIAAALKMTKTEVEAAIHLHLEPLGGPIEK 171


>gi|121535694|ref|ZP_01667498.1| transcriptional regulator, CarD family [Thermosinus carboxydivorans
           Nor1]
 gi|121305725|gb|EAX46663.1| transcriptional regulator, CarD family [Thermosinus carboxydivorans
           Nor1]
          Length = 164

 Score =  180 bits (457), Expect = 9e-44,   Method: Composition-based stats.
 Identities = 36/150 (24%), Positives = 68/150 (45%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +VYP HG G +  ++E EV G K  ++V+      M + +P  +    G+R +   
Sbjct: 4   VGDKVVYPMHGAGIVEALEEHEVLGKKQYYYVLTMFYGGMRVMIPQDQVGQSGLRAVVGE 63

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSE 135
             + +  +++          W+RR      KI SG ++ +AEVVR+L + +     S  E
Sbjct: 64  TEIAQVKEVLSASPEQDTGNWNRRINNSLTKIKSGSILEVAEVVRNLMKQEVTRRLSTGE 123

Query: 136 RQLYESALNRMVREIAAVNSISEPEAINLI 165
           R+L ++A   ++ E+              +
Sbjct: 124 RRLLDTAKQILISELVLACDKDVDSVEGWV 153


>gi|258404969|ref|YP_003197711.1| transcriptional regulator, CarD family [Desulfohalobium retbaense
           DSM 5692]
 gi|257797196|gb|ACV68133.1| transcriptional regulator, CarD family [Desulfohalobium retbaense
           DSM 5692]
          Length = 174

 Score =  180 bits (457), Expect = 9e-44,   Method: Composition-based stats.
 Identities = 47/174 (27%), Positives = 85/174 (48%), Gaps = 4/174 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG +  I+ QE+ G + +F+++    + + L VPV  A ++G+R +
Sbjct: 1   MFSEKQLVVYPAQGVGEVERIESQEIGGTRADFYIVRILSNNVTLMVPVANAENVGLRSV 60

Query: 73  SEAHFVERALKLVRGKARVK---RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
             A      L+ ++ ++         W+RR +EY  K+ SG+L  ++ V+++L       
Sbjct: 61  CGADEGRLVLEGLKDRSDFMGYSGQNWNRRYREYSEKLKSGELDDVSYVLKELILIGRDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           E S+ ER+L E A+  +  EIA      +      IE   +    K   +  E+
Sbjct: 121 ELSFGERRLLEQAMTLITMEIAYALGTQQDAVRKEIEEIFADI-LKRPGADEED 173


>gi|218885594|ref|YP_002434915.1| CarD family transcriptional regulator [Desulfovibrio vulgaris str.
           'Miyazaki F']
 gi|218756548|gb|ACL07447.1| transcriptional regulator, CarD family [Desulfovibrio vulgaris str.
           'Miyazaki F']
          Length = 171

 Score =  179 bits (456), Expect = 1e-43,   Method: Composition-based stats.
 Identities = 51/171 (29%), Positives = 83/171 (48%), Gaps = 3/171 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG +  ++ Q V G+  +F+++    + + L VPV  A ++G+R L
Sbjct: 1   MFAQDQLVVYPAQGVGKVERVESQVVGGVATDFYIVRILGNNVTLMVPVRNAANVGLRSL 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                    L+ +R ++         W+RR +EY  K+ SGDL  +A V+R+L       
Sbjct: 61  CAPELGAEILESLRDRSGFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLRELLLIGRDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
           E S+ ER+L E A+  +  E+A V   ++      IE          EKS 
Sbjct: 121 ELSFGERRLLEQAMGLITLELACVLDRTQDNVRAEIEEMFQDVLQAREKSE 171


>gi|330994677|ref|ZP_08318600.1| hypothetical protein SXCC_04565 [Gluconacetobacter sp. SXCC-1]
 gi|329758318|gb|EGG74839.1| hypothetical protein SXCC_04565 [Gluconacetobacter sp. SXCC-1]
          Length = 196

 Score =  179 bits (455), Expect = 1e-43,   Method: Composition-based stats.
 Identities = 67/159 (42%), Positives = 98/159 (61%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FREGDAIVYAAHGVGRVDRIGVDEIAGTKLEMIQISFPGNQMTLRIPLSKARKSGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V R MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSRGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SER+L+E+A  R V E+A +      E +  +   + + 
Sbjct: 158 SERKLFEAAQERFVAEVAVLEGKDPTEVLEKLTEVMKAA 196


>gi|194014646|ref|ZP_03053263.1| transcriptional regulator, CarD family [Bacillus pumilus ATCC 7061]
 gi|194013672|gb|EDW23237.1| transcriptional regulator, CarD family [Bacillus pumilus ATCC 7061]
          Length = 157

 Score =  178 bits (453), Expect = 2e-43,   Method: Composition-based stats.
 Identities = 43/157 (27%), Positives = 82/157 (52%), Gaps = 2/157 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G  IVYP HG G I  ++E+E+ G   E+F+I      M + +P G+   +G+R++
Sbjct: 1   MFQIGNKIVYPMHGAGVIEGMEEKEILGKTEEYFLIQMP--NMQMMIPRGRINQLGIRQV 58

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  +     +       W +R  E   K+ +G +   A+VV+DL R + +   +
Sbjct: 59  ADQATLKVVMNNFAEETNDDTLTWKQRYDENMKKLKTGAIEDGADVVKDLMRRNQKKALN 118

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
            SE+++ E A   +V EI+    +S+ E ++ +E  L
Sbjct: 119 SSEKKMLEDARGMLVSEISLAQGLSQDEVLSALENEL 155


>gi|149919688|ref|ZP_01908166.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
 gi|149819459|gb|EDM78889.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
          Length = 165

 Score =  178 bits (453), Expect = 3e-43,   Method: Composition-based stats.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 1/159 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
             Q F  G   VYPAHGV  I  ++ + V G  L F+ +      + + VPV KA + GM
Sbjct: 3   AAQRFDIGSTAVYPAHGVADIIGVETKTVGGHDLSFYQLQVRGSGLKIIVPVNKANENGM 62

Query: 70  RKLSEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R L+    ++R  +++R     + R  W+RR + +  KI +G +  +AEV RDL    SQ
Sbjct: 63  RPLAGPDAIDRTFQILRDHDVPIDRQTWNRRYRNFMDKIRAGAIEGVAEVYRDLALLRSQ 122

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              S+ ER++  +A + +V E+A     SE E    ++ 
Sbjct: 123 KTLSHGEREMLRTARDLLVGELAVARETSESEVAEELDS 161


>gi|303234185|ref|ZP_07320831.1| CarD-like protein [Finegoldia magna BVS033A4]
 gi|302494726|gb|EFL54486.1| CarD-like protein [Finegoldia magna BVS033A4]
          Length = 160

 Score =  178 bits (453), Expect = 3e-43,   Method: Composition-based stats.
 Identities = 42/157 (26%), Positives = 85/157 (54%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP HG G ITE++ +EV G+K ++F++     +M + +PV K  D+G+R +
Sbjct: 1   MFKIGDKIVYPMHGAGIITEVQNKEVLGVKKDYFILKMPMGEMKISIPVDKINDMGIRFV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           +E   +     +++ +     + W++R +    K+  GD+   A V + L+  DS    S
Sbjct: 61  AEEEIIHSLRDILKNQEVDFPSNWNQRYKGNLEKLRIGDIKETAVVYKGLYELDSSKGLS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             E+++  ++   ++ EIA+  ++   EA  ++   +
Sbjct: 121 MIEKKVLNTSRKMLISEIASGLNLKPSEAEKMVNDLI 157


>gi|296332858|ref|ZP_06875318.1| YdeB [Bacillus subtilis subsp. spizizenii ATCC 6633]
 gi|305673204|ref|YP_003864876.1| putative transcriptional regulator [Bacillus subtilis subsp.
           spizizenii str. W23]
 gi|296150138|gb|EFG91027.1| YdeB [Bacillus subtilis subsp. spizizenii ATCC 6633]
 gi|305411448|gb|ADM36567.1| putative transcriptional regulator [Bacillus subtilis subsp.
           spizizenii str. W23]
          Length = 158

 Score =  178 bits (452), Expect = 3e-43,   Method: Composition-based stats.
 Identities = 41/152 (26%), Positives = 81/152 (53%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G++IVYP HGVG I  I+E+E+ G K +++VI      M + +P  K +   +R +
Sbjct: 6   MFQIGDNIVYPMHGVGIIEAIEEKEILGKKQQYYVIKMTISNMQVMIPTRKILSSSIRPV 65

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           ++   ++  + + +     +   W +R      KI +G++   AEVVRDL R   +   +
Sbjct: 66  TDIRALKHIIHIFQHGESDRLLPWKQRYIVNTNKIKTGEIQEGAEVVRDLMRMKKEKALN 125

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINL 164
            SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 126 ASEKKMLDNAYEFLISELEVIKGITENQIKSF 157


>gi|115372710|ref|ZP_01460016.1| hmga-type transcription factor [Stigmatella aurantiaca DW4/3-1]
 gi|115370191|gb|EAU69120.1| hmga-type transcription factor [Stigmatella aurantiaca DW4/3-1]
          Length = 361

 Score =  177 bits (450), Expect = 5e-43,   Method: Composition-based stats.
 Identities = 55/180 (30%), Positives = 90/180 (50%), Gaps = 2/180 (1%)

Query: 6   KRDAMRQGFR--TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            R  M +G +   G+ +VYP  GV  I+ I+ +EVAG KL F  +  ++D   + VP  K
Sbjct: 32  TRGDMPEGLQLSVGDRVVYPNQGVCLISAIEVKEVAGQKLTFVTMRREEDGAVVMVPQAK 91

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
              IG+RK++    VE+    +R  +      W +RA+    ++  G ++ +AEVV+ L 
Sbjct: 92  VQAIGVRKVAGPAEVEQIYAFLRSDSDKADLDWKQRARTNLDRMTQGGILGLAEVVKGLQ 151

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
                      ER+LY++A + +V E+AA  SI E  A + I++ L     +  K T   
Sbjct: 152 VLSELRPLPTKERELYDNARHLLVTEVAAALSIPEVNAEDSIDIVLFPPGKERPKRTVAE 211


>gi|42523769|ref|NP_969149.1| putative CarD-like transcriptional regulator [Bdellovibrio
           bacteriovorus HD100]
 gi|39575976|emb|CAE80142.1| putative CarD-like transcriptional regulator [Bdellovibrio
           bacteriovorus HD100]
          Length = 164

 Score =  177 bits (450), Expect = 6e-43,   Method: Composition-based stats.
 Identities = 42/148 (28%), Positives = 77/148 (52%), Gaps = 1/148 (0%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q F  G++ VYP +GV  +  I+ +E+ G K  F+ +      + + +P       G+R 
Sbjct: 2   QTFDVGDNAVYPGYGVVKVVSIETKEMLGTKTTFYNMQLVDTGLKIMIPTTNVKSAGLRP 61

Query: 72  LSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           +       R + +++ K  ++    W+RR +EY  KI +G +  IAEV+RDL    +  E
Sbjct: 62  IISKSEASRVVGILKEKDIKIDNQTWNRRYREYMEKIKTGSVFEIAEVLRDLFLLKADKE 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISE 158
            S+ ER++ +SA + +++E+    S  E
Sbjct: 122 LSFGERKMLDSARSLLLKELTLATSQEE 149


>gi|94967584|ref|YP_589632.1| CarD family transcriptional regulator [Candidatus Koribacter
           versatilis Ellin345]
 gi|94549634|gb|ABF39558.1| transcriptional regulator, CarD family [Candidatus Koribacter
           versatilis Ellin345]
          Length = 186

 Score =  177 bits (449), Expect = 7e-43,   Method: Composition-based stats.
 Identities = 41/180 (22%), Positives = 79/180 (43%), Gaps = 2/180 (1%)

Query: 7   RDAMRQ--GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           R AM     F  G+ +VYP HGVG I +I  + +     + + +      + + VP    
Sbjct: 6   RSAMNNTLSFIVGDKVVYPNHGVGIIEQISSRTIGAAVQKCYWLKIKASSLRVMVPFDSV 65

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             +G+R++     + + ++ +          W  R +E   K+ +G L+ +A V++ L  
Sbjct: 66  HLVGLRRVVRNGEITKIIEYLSDGKCESNHDWKDRFKENSDKMRTGSLMEVAGVLKSLLL 125

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
                  S+ E+++ E A   +V E+A   S  EPE   L+   L     +  +++S  +
Sbjct: 126 LGQSKPLSFREKKMLERARYLLVSELAMAKSCEEPEVEELLGRALQKCKLRFPEASSIAE 185


>gi|332298572|ref|YP_004440494.1| transcriptional regulator, CarD family [Treponema brennaborense DSM
           12168]
 gi|332181675|gb|AEE17363.1| transcriptional regulator, CarD family [Treponema brennaborense DSM
           12168]
          Length = 217

 Score =  176 bits (448), Expect = 9e-43,   Method: Composition-based stats.
 Identities = 46/181 (25%), Positives = 79/181 (43%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M +       +  F   + IVYP+ GVG ITEI E++     L ++VI  +   M + VP
Sbjct: 1   MVYYMTMSDTKMTFEVNQKIVYPSQGVGKITEITEKKFKDNVLPYYVIYLEVSDMTVMVP 60

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           V +  ++G+R +       +A++++  +     + W  R Q     +  G +  IA +VR
Sbjct: 61  VNRVEELGIRAIVSQQEALQAIEMMGEEVEPVTSDWKLRYQMNLDLLKKGSVSDIATIVR 120

Query: 121 DLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
            L+      E    ER+LY+SA   +  EI+     +  E   L+   L       +   
Sbjct: 121 CLYHRSKVKELPILERKLYDSAKKLLEDEISFALEKTPKEVETLLLAKLEPLGLLRDSKH 180

Query: 181 S 181
           S
Sbjct: 181 S 181


>gi|256828487|ref|YP_003157215.1| CarD family transcriptional regulator [Desulfomicrobium baculatum
           DSM 4028]
 gi|256577663|gb|ACU88799.1| transcriptional regulator, CarD family [Desulfomicrobium baculatum
           DSM 4028]
          Length = 176

 Score =  176 bits (447), Expect = 1e-42,   Method: Composition-based stats.
 Identities = 44/161 (27%), Positives = 76/161 (47%), Gaps = 3/161 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   E +VYPA GVG +  I+ QE+ G+  E  ++    + + L VPV  A ++G+R +
Sbjct: 1   MFSVDELVVYPAQGVGKVERIETQEIGGVATELIIVRILSNNVTLMVPVKNARNVGLRGV 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 +     ++ +          W+RR +EY  K+ S DL  +A V+++L       
Sbjct: 61  YTPEQADEIRVYLQDRTDFTGYSGQNWNRRYREYSEKLKSSDLRDVAYVLKELILIGKDK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           E S+ ER+L E A+  +  E++      + E    IE   +
Sbjct: 121 ELSFGERRLLEQAMGLISLELSFALKQDQAEVKKSIEDLFA 161


>gi|15613946|ref|NP_242249.1| transcriptional factor [Bacillus halodurans C-125]
 gi|10173999|dbj|BAB05102.1| transcriptional factor [Bacillus halodurans C-125]
          Length = 164

 Score =  176 bits (447), Expect = 1e-42,   Method: Composition-based stats.
 Identities = 38/164 (23%), Positives = 81/164 (49%), Gaps = 3/164 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+H+VYP HG G + +I+E+E+ G    +FV+ F    + + +P  +    G+RK+
Sbjct: 1   MFKIGDHVVYPFHGAGVVQDIEEKEILGETHSYFVLHFPLTDIKVMLPKHRIQQSGLRKV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP--E 130
            +   V+  +  ++       +  ++ +++ +  + SG +I  A ++  L +  ++    
Sbjct: 61  IDQSDVDHLIDALQKGPETPLST-NQFSKDTENLLKSGSIIDAAHLISGLAKKQAERTNG 119

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
               +R   + A   +  E+  V +ISE +A   I+ +L S S 
Sbjct: 120 LHIQDRNFLQKAKQFIASELIVVKNISEEQAYAFIDEHLPSPSE 163


>gi|258542109|ref|YP_003187542.1| CarD family transcriptional regulator [Acetobacter pasteurianus IFO
           3283-01]
 gi|256633187|dbj|BAH99162.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-01]
 gi|256636244|dbj|BAI02213.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-03]
 gi|256639299|dbj|BAI05261.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-07]
 gi|256642353|dbj|BAI08308.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-22]
 gi|256645408|dbj|BAI11356.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-26]
 gi|256648463|dbj|BAI14404.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-32]
 gi|256651516|dbj|BAI17450.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256654507|dbj|BAI20434.1| transcriptional regulator CarD [Acetobacter pasteurianus IFO
           3283-12]
          Length = 196

 Score =  176 bits (447), Expect = 1e-42,   Method: Composition-based stats.
 Identities = 65/159 (40%), Positives = 98/159 (61%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FEEGDAIVYAAHGVGRVDRIGVDEIAGTKLEVIQISFPGNQMTLRIPLSKARKAGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V + MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSKGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SER+L+E+A  R V E+A + +    E +  +   + + 
Sbjct: 158 SERKLFEAAQERFVAEVAVLENKDPTEVLESLTAVMKAA 196


>gi|89894787|ref|YP_518274.1| hypothetical protein DSY2041 [Desulfitobacterium hafniense Y51]
 gi|89334235|dbj|BAE83830.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 174

 Score =  176 bits (447), Expect = 1e-42,   Method: Composition-based stats.
 Identities = 43/173 (24%), Positives = 89/173 (51%), Gaps = 5/173 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ ++YP +G G I  I+E+EV G+K +++++      M + +PVGKA D+G+R++
Sbjct: 1   MFQVGDKVLYPMYGAGIIDSIEEKEVLGVKGQYYLLNIPHVNMEIMIPVGKAEDLGIRQV 60

Query: 73  SEAHFVERALKLVRGKARVK---RTMWSRRAQE-YDAKINSGDLIAIAEVVRDLHRTDSQ 128
             +  V+  L+             +  +R  ++    K+ SGD+   +E++RDL R  + 
Sbjct: 61  VNSEVVDDVLRFFFEGDTDPVMFESN-NRFYRDINKKKMKSGDIYQESEIIRDLTRKSNL 119

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTS 181
            +    +  +  +AL  +  EI  V  I   +A+ +++  ++    + EK  +
Sbjct: 120 HKLGMEDNNMLHTALQLVTSEIVQVKGIEMEKAVEMLQSVINQAKEEKEKQEA 172


>gi|257456307|ref|ZP_05621504.1| transcription factor [Treponema vincentii ATCC 35580]
 gi|257446393|gb|EEV21439.1| transcription factor [Treponema vincentii ATCC 35580]
          Length = 198

 Score =  176 bits (446), Expect = 2e-42,   Method: Composition-based stats.
 Identities = 51/175 (29%), Positives = 79/175 (45%), Gaps = 2/175 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   E +VYP  GVG I EI E++     L ++VI FD+  M + VP  KA ++G+R +
Sbjct: 5   SFTVKERVVYPGQGVGEIVEISEKKFKDEMLTYYVIYFDESDMTVLVPAMKAAELGIRTI 64

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             A   + AL  +  K     + W  R Q       +G ++  A +VR L+      E  
Sbjct: 65  VSADEAQAALAFLSEKFDPIPSDWKMRYQMNLDLFKTGSILDNASIVRSLYHRSKIKELP 124

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS--SKSSKTEKSTSENQD 185
             ER+LY+SA      E++      + E   +I   L   SK++   K    + D
Sbjct: 125 IQERKLYDSAYRIFYDELSYALQKPKSEIEAMIHSYLEVLSKNAPAGKQEQLDDD 179


>gi|30264785|ref|NP_847162.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Ames]
 gi|47778348|ref|YP_021614.2| CarD family transcriptional regulator [Bacillus anthracis str.
           'Ames Ancestor']
 gi|165869635|ref|ZP_02214293.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167638161|ref|ZP_02396439.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170705571|ref|ZP_02896035.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
 gi|254725089|ref|ZP_05186872.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. A1055]
 gi|254736826|ref|ZP_05194532.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Western North America USA6153]
 gi|254754539|ref|ZP_05206574.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Vollum]
 gi|254757371|ref|ZP_05209398.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Australia 94]
 gi|30259460|gb|AAP28648.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Ames]
 gi|47552053|gb|AAT34089.2| transcriptional regulator, CarD family [Bacillus anthracis str.
           'Ames Ancestor']
 gi|164714464|gb|EDR19983.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0488]
 gi|167513978|gb|EDR89346.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0193]
 gi|170129696|gb|EDS98559.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0389]
          Length = 148

 Score =  176 bits (446), Expect = 2e-42,   Method: Composition-based stats.
 Identities = 39/136 (28%), Positives = 68/136 (50%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R +
Sbjct: 1   MFQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   +
Sbjct: 61  VDKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALN 120

Query: 133 YSERQLYESALNRMVR 148
            SE+Q+ ++A   M R
Sbjct: 121 ASEKQMLDNARKMMFR 136


>gi|219669222|ref|YP_002459657.1| CarD family transcriptional regulator [Desulfitobacterium hafniense
           DCB-2]
 gi|219539482|gb|ACL21221.1| transcriptional regulator, CarD family [Desulfitobacterium
           hafniense DCB-2]
          Length = 174

 Score =  175 bits (445), Expect = 2e-42,   Method: Composition-based stats.
 Identities = 42/173 (24%), Positives = 89/173 (51%), Gaps = 5/173 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ ++YP +G G I  I+E+EV G+K +++++      M + +PVGKA D+G+R++
Sbjct: 1   MFQVGDKVLYPMYGAGIIDSIEEKEVLGVKGQYYLLNIPHVNMEIMIPVGKAEDLGIRQV 60

Query: 73  SEAHFVERALKLVRGKARVK---RTMWSRRAQE-YDAKINSGDLIAIAEVVRDLHRTDSQ 128
             +  V+  L+             +  +R  ++    K+ SGD+   +E++RDL R  + 
Sbjct: 61  VNSEVVDDVLRFFFEGDTDPVMFESN-NRFYRDINKKKMKSGDIYQESEIIRDLTRKSNL 119

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTS 181
            +    +  +  +AL  +  EI  V  +   +A+ +++  ++    + EK  +
Sbjct: 120 HKLGMEDNNMLHTALQLVTSEIVQVKGVEMEKAVEMLQSVINQAKDEKEKQEA 172


>gi|320538285|ref|ZP_08038170.1| CarD-like transcriptional regulator [Treponema phagedenis F0421]
 gi|320144861|gb|EFW36592.1| CarD-like transcriptional regulator [Treponema phagedenis F0421]
          Length = 205

 Score =  175 bits (445), Expect = 2e-42,   Method: Composition-based stats.
 Identities = 47/163 (28%), Positives = 76/163 (46%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + +  F   + +VYP  GVG ITEI ++E     L+++VI  +   M + VPV +A ++G
Sbjct: 2   SKKFTFAVNQKVVYPGQGVGEITEICKKEFKEEMLQYYVIYLEDSDMTMMVPVMRAEELG 61

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R +      E AL  +  +       W  R Q       SG ++  + +VR L+     
Sbjct: 62  IRTIVSKKDAESALDFLSKEVEQGPLDWKMRYQMNLDLFKSGGVLDNSTIVRSLYHRSKI 121

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            E    ER+LY+SA      EI+A   + + E  +LI   L  
Sbjct: 122 KELPIQERKLYDSAYRIFEDEISAALGLPQNEIKSLIHTYLEK 164


>gi|254687524|ref|ZP_05151380.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. CNEVA-9066]
 gi|254741862|ref|ZP_05199549.1| transcriptional regulator, CarD family protein [Bacillus anthracis
           str. Kruger B]
          Length = 146

 Score =  175 bits (445), Expect = 2e-42,   Method: Composition-based stats.
 Identities = 37/134 (27%), Positives = 66/134 (49%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R +
Sbjct: 1   MFQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   +
Sbjct: 61  VDKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALN 120

Query: 133 YSERQLYESALNRM 146
            SE+Q+ ++A    
Sbjct: 121 ASEKQMLDNARKMF 134


>gi|329114138|ref|ZP_08242900.1| Transcriptional Regulator CarD Family [Acetobacter pomorum DM001]
 gi|326696214|gb|EGE47893.1| Transcriptional Regulator CarD Family [Acetobacter pomorum DM001]
          Length = 196

 Score =  175 bits (444), Expect = 3e-42,   Method: Composition-based stats.
 Identities = 65/159 (40%), Positives = 97/159 (61%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FEEGDAIVYAAHGVGRVDRIGVDEIAGTKLEVIQISFPGNQMTLRIPLSKARKAGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V + MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSKGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SER+L+E+A  R V E+A +      E +  +   + + 
Sbjct: 158 SERKLFEAAQERFVAEVAVLEKKDPTEVLESLTAVMKAA 196


>gi|49187604|ref|YP_030857.1| CarD family transcriptional regulator [Bacillus anthracis str.
           Sterne]
 gi|65322084|ref|ZP_00395043.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Bacillus anthracis str. A2012]
 gi|177651210|ref|ZP_02934041.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190568329|ref|ZP_03021237.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|227817506|ref|YP_002817515.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
 gi|49181531|gb|AAT56907.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           Sterne]
 gi|172083036|gb|EDT68098.1| transcriptional regulator, CarD family [Bacillus anthracis str.
           A0174]
 gi|190560585|gb|EDV14562.1| transcriptional regulator, CarD family [Bacillus anthracis
           Tsiankovskii-I]
 gi|227003355|gb|ACP13098.1| transcriptional regulator, CarD family [Bacillus anthracis str. CDC
           684]
          Length = 153

 Score =  175 bits (444), Expect = 3e-42,   Method: Composition-based stats.
 Identities = 39/135 (28%), Positives = 68/135 (50%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+ IVYP +G G I  I+E+E+ G   ++ VI      M + +P+ +    G+R + 
Sbjct: 7   FQIGDKIVYPMNGAGVIEAIEEKEILGTIRQYCVIRIISKDMQVMLPMDQLQKSGIRYIV 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  L   +         W +R      K+ +G+L   AEVVRDL R + +   + 
Sbjct: 67  DKGTLDDILLEFQNGESDTSLSWKQRYTMNMEKMKNGNLQDSAEVVRDLLRRNKERALNA 126

Query: 134 SERQLYESALNRMVR 148
           SE+Q+ ++A   M R
Sbjct: 127 SEKQMLDNARKMMFR 141


>gi|114328507|ref|YP_745664.1| carD-like transcriptional regulator [Granulibacter bethesdensis
           CGDNIH1]
 gi|114316681|gb|ABI62741.1| carD-like transcriptional regulator [Granulibacter bethesdensis
           CGDNIH1]
          Length = 216

 Score =  175 bits (444), Expect = 3e-42,   Method: Composition-based stats.
 Identities = 69/164 (42%), Positives = 106/164 (64%), Gaps = 1/164 (0%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  Q   A +Q F+TG+ +VYP HGVG +  +  Q+VAG K+E   I+F +++M +++P 
Sbjct: 18  TAAQSSPAAKQ-FKTGDAVVYPGHGVGRVDHVGMQDVAGHKIEMIQISFAENQMTIRLPA 76

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            K    G+RKLS     E+A+  + G+ R+ + MWS+RAQEY A+INSGDL+A+AE++RD
Sbjct: 77  AKVATTGLRKLSSKADAEKAIAALSGRPRISKVMWSKRAQEYQARINSGDLLALAELLRD 136

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           L R     + S+SERQ++E+AL+R   EIA V    + +    +
Sbjct: 137 LRRNAGSQDGSFSERQIFETALDRFASEIATVRGEDKADTSQQL 180


>gi|302340584|ref|YP_003805790.1| transcriptional regulator, CarD family [Spirochaeta smaragdinae DSM
           11293]
 gi|301637769|gb|ADK83196.1| transcriptional regulator, CarD family [Spirochaeta smaragdinae DSM
           11293]
          Length = 171

 Score =  175 bits (444), Expect = 3e-42,   Method: Composition-based stats.
 Identities = 47/160 (29%), Positives = 77/160 (48%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+  +H+VYP  GVG IT+I+E+ + G K  ++VI  +   M + +P  K  + G+R 
Sbjct: 11  PAFKVNQHVVYPLQGVGIITDIQERVLKGKKTLYYVIYLELSDMTVMIPTDKTDERGIRA 70

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +      E+AL+L+  +       W  R Q     + SG +  IA VVR L+      E 
Sbjct: 71  IVPKEEAEKALQLISEEYEPVTADWKMRYQMNLDLLRSGSINDIATVVRALYHRSKVKEL 130

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
              ER+LY+ A+  ++ E+       + +   LI   L S
Sbjct: 131 PIQERKLYDDAMKILIDEVTCSLGKKKSDVEELIFERLES 170


>gi|94264420|ref|ZP_01288210.1| Transcription factor CarD [delta proteobacterium MLMS-1]
 gi|93455177|gb|EAT05395.1| Transcription factor CarD [delta proteobacterium MLMS-1]
          Length = 166

 Score =  175 bits (444), Expect = 3e-42,   Method: Composition-based stats.
 Identities = 47/166 (28%), Positives = 84/166 (50%), Gaps = 1/166 (0%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
            D     F+ G+  VYPAHGVG I  I+ ++V  ++  F+VI   +  M + +P     +
Sbjct: 1   MDVALDTFQVGDMAVYPAHGVGRIESIESRQVGELEQSFYVIRIVESNMTVMIPTKSCNN 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVK-RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
           +G+R +     V++   ++  +        W++R +EY  +I +G +  IA V+RDL   
Sbjct: 61  VGLRNIICPGDVKQVFAILGERGLEMVSQPWNQRYREYTNRIKTGSVFEIAAVLRDLLLL 120

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            +  E S+ ER++ E+A   +++EIA      E +    I+   SS
Sbjct: 121 RADKELSFGERKMVETARGLLIKEIALATDNDEEQVAQRIDRIFSS 166


>gi|328949054|ref|YP_004366391.1| CarD family transcriptional regulator [Treponema succinifaciens DSM
           2489]
 gi|328449378|gb|AEB15094.1| transcriptional regulator, CarD family [Treponema succinifaciens
           DSM 2489]
          Length = 206

 Score =  174 bits (443), Expect = 4e-42,   Method: Composition-based stats.
 Identities = 46/169 (27%), Positives = 75/169 (44%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           +  F   + +VYP+ GVG ITEI +++       ++ I  +   M + VPV ++ D+G+R
Sbjct: 5   KTEFSVNQKVVYPSQGVGKITEIFKKDFNNEPTYYYKIYLEVSDMNVMVPVSRSKDLGIR 64

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +      + AL  +        + W  R Q     +  G +  IA +VR L+      E
Sbjct: 65  AIVSKDEAQTALNSISDDFEPPTSDWKLRYQMNLDLLKKGTIGDIAAIVRCLYHRSKVKE 124

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
               ER+LY++A   +  EIA    IS  E   ++   L     K EK 
Sbjct: 125 LPILERKLYDNAKKLLEDEIAEAFGISNKEVEAMLHEKLEPLGLKIEKK 173


>gi|162147634|ref|YP_001602095.1| CarD family transcriptional regulator [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209542263|ref|YP_002274492.1| CarD family transcriptional regulator [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|161786211|emb|CAP55793.1| Transcriptional regulator, CarD family [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209529940|gb|ACI49877.1| transcriptional regulator, CarD family [Gluconacetobacter
           diazotrophicus PAl 5]
          Length = 196

 Score =  174 bits (441), Expect = 6e-42,   Method: Composition-based stats.
 Identities = 66/159 (41%), Positives = 97/159 (61%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FREGDAIVYAAHGVGRVDRIGIDEIAGTKLEMIQISFPGNQMTLRIPLAKARKAGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V R MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSRGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SER+L+E+A  R V E+A +        +  +   + + 
Sbjct: 158 SERKLFEAAQERFVAEVAVLEGKEPTAVLEALTAAMKAA 196


>gi|296116291|ref|ZP_06834907.1| transcriptional regulator, CarD family protein [Gluconacetobacter
           hansenii ATCC 23769]
 gi|295977110|gb|EFG83872.1| transcriptional regulator, CarD family protein [Gluconacetobacter
           hansenii ATCC 23769]
          Length = 196

 Score =  174 bits (441), Expect = 7e-42,   Method: Composition-based stats.
 Identities = 66/159 (41%), Positives = 97/159 (61%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG +  I   E+AG KLE   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 38  FREGDAIVYAAHGVGRVDRIGIDEIAGTKLEMIQISFPGNQMTLRIPLSKARKSGLRKIV 97

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V R MW+RRA  Y  KINSGDL+ IAEV+RDL R     + S+
Sbjct: 98  SREIVDKAMAIIKGKPHVSRGMWARRAVAYQEKINSGDLVQIAEVLRDLRRNVDSLDGSF 157

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SER+L+E+A  R V E+A +        +  +   + + 
Sbjct: 158 SERKLFEAAQERFVAEVAVLEGKEPAIVLETLTAVMKAA 196


>gi|262277939|ref|ZP_06055732.1| transcriptional regulator, CarD family [alpha proteobacterium
           HIMB114]
 gi|262225042|gb|EEY75501.1| transcriptional regulator, CarD family [alpha proteobacterium
           HIMB114]
          Length = 255

 Score =  173 bits (440), Expect = 7e-42,   Method: Composition-based stats.
 Identities = 67/171 (39%), Positives = 110/171 (64%), Gaps = 3/171 (1%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           ++  ++ ++  ++++YP HG+G I  + +  +AG++   + I   KDK+ L +P  +   
Sbjct: 82  QETEKRTYKVKDYVIYPKHGIGQIISVDKLTIAGIEASVYKIEITKDKLNLTIPTNQQQH 141

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
             +R LS  + + +AL +++GKA++KRTMWSRRA EY+ KINSGD+  IAEVVRDL++  
Sbjct: 142 --LRPLSSLNQINKALSILKGKAKIKRTMWSRRAAEYEQKINSGDIYQIAEVVRDLNKNT 199

Query: 127 SQP-EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
             P ++SYSERQL+E A +R++ E++ V  ISE E    +   L  K  +T
Sbjct: 200 DMPVDQSYSERQLFEKAYDRLLGEVSIVLKISEEEGKARLNKALGKKVEET 250


>gi|71083129|ref|YP_265848.1| hypothetical protein SAR11_0423 [Candidatus Pelagibacter ubique
           HTCC1062]
 gi|71062242|gb|AAZ21245.1| hypothetical protein SAR11_0423 [Candidatus Pelagibacter ubique
           HTCC1062]
          Length = 299

 Score =  173 bits (440), Expect = 8e-42,   Method: Composition-based stats.
 Identities = 67/181 (37%), Positives = 111/181 (61%), Gaps = 3/181 (1%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K++  ++ ++  +++VYP HGVG ITE K+  + G+ +E +V+ F+KDK    VPV K 
Sbjct: 100 KKQETEKREYKVKDYVVYPKHGVGQITEFKKINIGGIDVETYVLKFEKDKANGMVPVNK- 158

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R L+  + V + + +++ K ++KR+MWSRRAQEY+AKI+SG +  +AEVVRDL++
Sbjct: 159 -QSHLRPLATINQVNKCISILKSKPKIKRSMWSRRAQEYEAKISSGKIYELAEVVRDLNK 217

Query: 125 TDSQ-PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
            D    ++SYSERQL+E A  R++ E   V  IS  +    ++  L        K+ +  
Sbjct: 218 GDDLMVDQSYSERQLFEKAYERILSEFQIVMGISLEDTQKKLDKALKRNLEGQAKAVAAP 277

Query: 184 Q 184
            
Sbjct: 278 T 278


>gi|330837541|ref|YP_004412182.1| transcriptional regulator, CarD family [Spirochaeta coccoides DSM
           17374]
 gi|329749444|gb|AEC02800.1| transcriptional regulator, CarD family [Spirochaeta coccoides DSM
           17374]
          Length = 161

 Score =  173 bits (440), Expect = 9e-42,   Method: Composition-based stats.
 Identities = 48/161 (29%), Positives = 75/161 (46%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F  G+HIVYP  GVG I  I+E+   G    ++VI      M +K+P+ KA ++G+R 
Sbjct: 1   MKFSVGDHIVYPLQGVGIIKCIEERNFQGEPQPYYVIHIAISDMIVKIPIAKAAEMGIRA 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +      + A+  +  K       W  R Q     +  G + +IA+VV+ L+      E 
Sbjct: 61  IVPPSEAQEAIDSISSKYDPLPVDWKTRYQMNVDLLQQGSIASIAQVVQALYHRSKVKEL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
              ER+LY+ AL  ++ E++      E E   LI   L  K
Sbjct: 121 PVQERKLYDGALRLLIDEVSFSLKRPEDEIEKLIFSRLEKK 161


>gi|91762444|ref|ZP_01264409.1| hypothetical protein PU1002_04226 [Candidatus Pelagibacter ubique
           HTCC1002]
 gi|91718246|gb|EAS84896.1| hypothetical protein PU1002_04226 [Candidatus Pelagibacter ubique
           HTCC1002]
          Length = 304

 Score =  172 bits (437), Expect = 2e-41,   Method: Composition-based stats.
 Identities = 66/181 (36%), Positives = 111/181 (61%), Gaps = 3/181 (1%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K++  ++ ++  +++VYP HGVG ITE K+  + G+ +E +V+ F+KDK    VPV K 
Sbjct: 105 KKQETEKREYKVKDYVVYPKHGVGQITEFKKINIGGIDVETYVLKFEKDKANGMVPVNK- 163

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R L+  + V + + +++ K ++KR+MWSRRAQEY+AKI+SG +  +AEVVRDL++
Sbjct: 164 -QSHLRPLATINQVNKCISILKSKPKIKRSMWSRRAQEYEAKISSGKIYELAEVVRDLNK 222

Query: 125 TDSQ-PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
            D    ++SYSERQL+E A  R++ E   V  +S  +    ++  L        K+ +  
Sbjct: 223 GDDLMVDQSYSERQLFEKAYERILSEFQIVMGVSLEDTQKKLDKALKRNLEGQAKAVAAP 282

Query: 184 Q 184
            
Sbjct: 283 T 283


>gi|146296815|ref|YP_001180586.1| CarD family transcriptional regulator [Caldicellulosiruptor
           saccharolyticus DSM 8903]
 gi|145410391|gb|ABP67395.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           saccharolyticus DSM 8903]
          Length = 173

 Score =  172 bits (436), Expect = 2e-41,   Method: Composition-based stats.
 Identities = 37/163 (22%), Positives = 82/163 (50%), Gaps = 4/163 (2%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           ++ ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R
Sbjct: 4   QRMYKVGDTIIHPLHGAGEIVEIVEEKVFDNVQKYYVVRILYNGMKILVPVNSAAEIGIR 63

Query: 71  KLSEAHFVERALKLVRG---KARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            +       +  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +
Sbjct: 64  NVISEEEANKVFELLKDNNFKVDINNCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAARE 123

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
                S +E+ ++ +A   +V E+     +   E   +++  L
Sbjct: 124 KVKGLSTNEKMMFNNAKQILVSELGLAKGLDMEEVEKMVDSIL 166


>gi|254455735|ref|ZP_05069164.1| CarD-like transcriptional regulator family protein [Candidatus
           Pelagibacter sp. HTCC7211]
 gi|207082737|gb|EDZ60163.1| CarD-like transcriptional regulator family protein [Candidatus
           Pelagibacter sp. HTCC7211]
          Length = 279

 Score =  172 bits (436), Expect = 3e-41,   Method: Composition-based stats.
 Identities = 70/192 (36%), Positives = 118/192 (61%), Gaps = 11/192 (5%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K++  ++ ++  +H+VYP HGVG I+E K+  + G+ +E +VI F+KDK    VPV K 
Sbjct: 79  KKQETEKREYKIKDHVVYPKHGVGQISEFKKINIGGIDVETYVIKFEKDKANGMVPVNK- 137

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R L+  + V + + +++ K ++KR+MWSRRAQEY+AKI+SG +  +AEVVRDL++
Sbjct: 138 -QSHLRPLATINQVNKCISILKSKPKIKRSMWSRRAQEYEAKISSGKIYELAEVVRDLNK 196

Query: 125 TDSQ-PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL--------SSKSSK 175
            D    ++SYSERQL+E A  R++ E   V ++S  +    ++  L           +S 
Sbjct: 197 GDDLMVDQSYSERQLFEKAYERILSEFQIVLNMSLEDTQKKLDKALKRNLGGQTQPVASP 256

Query: 176 TEKSTSENQDKA 187
            + ST+E  ++ 
Sbjct: 257 PKASTTELPEEE 268


>gi|226311543|ref|YP_002771437.1| hypothetical protein BBR47_19560 [Brevibacillus brevis NBRC 100599]
 gi|226094491|dbj|BAH42933.1| conserved hypothetical protein [Brevibacillus brevis NBRC 100599]
          Length = 167

 Score =  171 bits (435), Expect = 3e-41,   Method: Composition-based stats.
 Identities = 41/155 (26%), Positives = 78/155 (50%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ + YP HG G I  ++E+E  G K  ++V+     ++ + VPV K   +G+RK+
Sbjct: 1   MFLVGDKVFYPIHGAGVIEAMEEKEFLGEKHLYYVLNMSLKELNIMVPVEKMSALGIRKV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            EA  +E  L  +    R      ++R + +  K+ SGD+   +EV+RDL     +    
Sbjct: 61  VEADILENVLAAMLEGQRDTALNAAQRYKLHTEKMKSGDIYEQSEVIRDLVGMSKEKVLG 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
            S++ + ++A   ++ EI  V  +   +A  +++ 
Sbjct: 121 TSDKVMLDNAQQLLISEIELVKDVDTQQATEMLKQ 155


>gi|310823503|ref|YP_003955861.1| transcriptional regulator CarD [Stigmatella aurantiaca DW4/3-1]
 gi|27651196|emb|CAD60088.1| HMGA-type transcription factor [Stigmatella aurantiaca DW4/3-1]
 gi|309396575|gb|ADO74034.1| Transcriptional regulator CarD [Stigmatella aurantiaca DW4/3-1]
          Length = 305

 Score =  171 bits (434), Expect = 5e-41,   Method: Composition-based stats.
 Identities = 52/169 (30%), Positives = 85/169 (50%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +VYP  GV  I+ I+ +EVAG KL F  +  ++D   + VP  K   IG+RK++ 
Sbjct: 8   SVGDRVVYPNQGVCLISAIEVKEVAGQKLTFVTMRREEDGAVVMVPQAKVQAIGVRKVAG 67

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              VE+    +R  +      W +RA+    ++  G ++ +AEVV+ L            
Sbjct: 68  PAEVEQIYAFLRSDSDKADLDWKQRARTNLDRMTQGGILGLAEVVKGLQVLSELRPLPTK 127

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           ER+LY++A + +V E+AA  SI E  A + I++ L     +  K T   
Sbjct: 128 ERELYDNARHLLVTEVAAALSIPEVNAEDSIDIVLFPPGKERPKRTVAE 176


>gi|288555760|ref|YP_003427695.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
 gi|288546920|gb|ADC50803.1| CarD family transcriptional regulator [Bacillus pseudofirmus OF4]
          Length = 162

 Score =  171 bits (433), Expect = 5e-41,   Method: Composition-based stats.
 Identities = 38/159 (23%), Positives = 80/159 (50%), Gaps = 3/159 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+H+VYP HG GTI +I+E++V G    ++++ F    + L +P  +    G+RK+
Sbjct: 1   MFKVGDHVVYPYHGAGTIQDIEEKDVLGETHSYYILHFPLVDVKLMLPENRIDQSGLRKV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP--E 130
            +   +E  ++ ++       +  S  ++E +  + SG++I  A ++  L +  S+    
Sbjct: 61  IDQQELEVLVEALQNGPETPPST-SHFSRETENLLKSGNIIDAAHLISSLSKKQSERANG 119

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
               +R   + A   +  E+  +N ++E +A   I+  L
Sbjct: 120 LHIQDRNHLQKARQMIASELVLMNDMTEEQAYEFIDSAL 158


>gi|58040444|ref|YP_192408.1| transcriptional regulator [Gluconobacter oxydans 621H]
 gi|58002858|gb|AAW61752.1| Transcriptional regulator [Gluconobacter oxydans 621H]
          Length = 184

 Score =  171 bits (433), Expect = 6e-41,   Method: Composition-based stats.
 Identities = 64/159 (40%), Positives = 99/159 (62%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           FR G+ IVY AHGVG + +I   EVA   +E   I+F  ++M L++P+ KA   G+RK+ 
Sbjct: 26  FREGDSIVYAAHGVGRVDKIGMVEVADTVIEMIQISFPGNQMTLRIPLAKARKAGLRKIV 85

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V++A+ +++GK  V + MW+RRA  Y  KINSGDLI IAEV+RDL R     + S+
Sbjct: 86  TRDIVDKAMTVIKGKPHVSKGMWARRAVAYQEKINSGDLIQIAEVLRDLRRNVDSLDGSF 145

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           SER+L+E+A  R V E+A + ++   + +  +   + + 
Sbjct: 146 SERKLFEAAQERFVAEVAVLENVDPAQVLENLTKTMKAA 184


>gi|303327050|ref|ZP_07357492.1| transcriptional regulator, CarD family [Desulfovibrio sp. 3_1_syn3]
 gi|302863038|gb|EFL85970.1| transcriptional regulator, CarD family [Desulfovibrio sp. 3_1_syn3]
          Length = 171

 Score =  171 bits (433), Expect = 6e-41,   Method: Composition-based stats.
 Identities = 48/150 (32%), Positives = 78/150 (52%), Gaps = 3/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG I  I  Q + G+  EF+++    + + L VPV  A ++G+R L
Sbjct: 1   MFAPDDLVVYPAQGVGKIERIDRQNIGGIACEFYIVRIRANNITLMVPVNNAANVGLRTL 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +     +  L+ +RG           W+RR +EY  ++ S DL  + EV+R+L       
Sbjct: 61  TPEADAQGILETLRGDTDKTIYTGQNWNRRFREYSERLKSPDLAVVTEVLRELLLISRSK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEP 159
           E S+ ER+L E A+  +  E+A V  ++E 
Sbjct: 121 ELSFGERRLQEQAMGLVTGELAEVLHLTED 150


>gi|220904723|ref|YP_002480035.1| CarD family transcriptional regulator [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
 gi|219869022|gb|ACL49357.1| transcriptional regulator, CarD family [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
          Length = 171

 Score =  170 bits (432), Expect = 6e-41,   Method: Composition-based stats.
 Identities = 49/150 (32%), Positives = 78/150 (52%), Gaps = 3/150 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG I  I  Q + G+  +F+++    + + L VPV  A  +G+R L
Sbjct: 1   MFTPNDLVVYPAQGVGKIESIDSQTIGGIACDFYIVRIQANNVTLMVPVNNAAHVGLRTL 60

Query: 73  SEAHFVERALKLVR---GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +     ER L+ +R   GK       W+RR +EY  ++ S +L  + EV+R+L       
Sbjct: 61  TTTEEAERILEELRSSTGKVVHTGQNWNRRFREYSERLKSPELAVVTEVLRELLLIGRTK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEP 159
           E S+ ER+L E A+  +  E+A V  + E 
Sbjct: 121 ELSFGERRLQEQAMGLVTGELAEVLKVEED 150


>gi|108760592|ref|YP_633761.1| transcriptional regulator CarD [Myxococcus xanthus DK 1622]
 gi|1022328|emb|CAA91224.1| carD [Myxococcus xanthus]
 gi|108464472|gb|ABF89657.1| transcriptional regulator CarD [Myxococcus xanthus DK 1622]
          Length = 316

 Score =  170 bits (431), Expect = 9e-41,   Method: Composition-based stats.
 Identities = 51/168 (30%), Positives = 86/168 (51%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +VYP  GV  ++ I  +EVAG KL F  +  ++D   + VP GK + IG+RK++ A
Sbjct: 12  VGDRVVYPNQGVCRVSAIDVKEVAGQKLTFVTMRREEDGAVVMVPEGKVLAIGVRKVASA 71

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSE 135
             VE     +R  +      W +RA+    ++  G ++ +AEVV+ L            E
Sbjct: 72  EDVEAIFTFLRSDSDKADLDWKQRARTNLDRMTQGGIMGLAEVVKGLQVLSELRPLPTKE 131

Query: 136 RQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           R+LY++A + +V E+AA    +E  A + I++ L     +  K T+  
Sbjct: 132 RELYDNARHLLVTEVAAALGTAEVNAEDAIDIVLFPPGRERPKRTAAE 179


>gi|325970599|ref|YP_004246790.1| CarD family transcriptional regulator [Spirochaeta sp. Buddy]
 gi|324025837|gb|ADY12596.1| transcriptional regulator, CarD family [Spirochaeta sp. Buddy]
          Length = 167

 Score =  169 bits (430), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 75/161 (46%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
                 +  F  GEH+VYP  GVG I  I+E+   G    ++VI  D   M + +PV K+
Sbjct: 1   MNLPQEKVQFAVGEHVVYPLQGVGVIKRIEERTFRGAVTMYYVIYLDISDMTVMIPVEKS 60

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
            ++G+R + E    + A+  +  K       W  R Q     +  G + +IA+VV+ L+ 
Sbjct: 61  KEMGIRPIVEQKEAQSAIDSISSKYEPMPVDWKARYQMNVDLLKQGSIASIAKVVQALYH 120

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
                E    ER+LY++AL  ++ E A      + E   L+
Sbjct: 121 RSKIKELPVQERKLYDNALRLLIDETAFSLKKDKKEIELLV 161


>gi|303246473|ref|ZP_07332752.1| transcriptional regulator, CarD family [Desulfovibrio
           fructosovorans JJ]
 gi|302492183|gb|EFL52058.1| transcriptional regulator, CarD family [Desulfovibrio
           fructosovorans JJ]
          Length = 170

 Score =  169 bits (429), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 48/170 (28%), Positives = 84/170 (49%), Gaps = 7/170 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG +  I+ Q + G   +FF++    + + L VPV  A ++G+R L
Sbjct: 1   MFSEEQLVVYPAQGVGRVERIETQVIGGTSADFFIVRILSNNVTLMVPVANAENVGLRPL 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
             A      ++ ++ ++         W+RR +EY  K+ SGDL  +A V+++L       
Sbjct: 61  CTAEEGLAIIESLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLKELLLIGQNK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV----NLSSKSSK 175
           E S+ ER+L E A + +  E+A      + E  ++I       L+ K  +
Sbjct: 121 ELSFGERRLLEQATSLLTLELALALDKDQQEIKDVINEIFADVLAPKPEE 170


>gi|212703168|ref|ZP_03311296.1| hypothetical protein DESPIG_01209 [Desulfovibrio piger ATCC 29098]
 gi|212673434|gb|EEB33917.1| hypothetical protein DESPIG_01209 [Desulfovibrio piger ATCC 29098]
          Length = 172

 Score =  169 bits (429), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 47/172 (27%), Positives = 86/172 (50%), Gaps = 4/172 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F + + +VYPA GVG I  I  Q + G   +F+++    + + L VPV  A ++G+R L
Sbjct: 1   MFTSEQLVVYPAQGVGQIERIDSQNIGGSACDFYIVRIRANSITLMVPVKNASNVGLRTL 60

Query: 73  SEAHFVERALKLVRGKARV---KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                 E   + +R   +        W+RR +EY  ++ S DL  +A V+R+L       
Sbjct: 61  VSTKEAEHIWEALRNNPQQTVHTGQNWNRRFREYSERLKSPDLSIVANVLRELLLIGRTK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTS 181
           + S+ ER+L E A++ +  E+  V    + +  + + ++L S  +K   +T+
Sbjct: 121 DLSFGERRLLEQAMSLVTGELGEVLKTEQRDLQSEL-ISLYSPPAKQPATTA 171


>gi|312135061|ref|YP_004002399.1| CarD family transcriptional regulator [Caldicellulosiruptor
           owensensis OL]
 gi|311775112|gb|ADQ04599.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           owensensis OL]
          Length = 168

 Score =  169 bits (429), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 38/161 (23%), Positives = 80/161 (49%), Gaps = 4/161 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R +
Sbjct: 1   MYKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNV 60

Query: 73  SEAHFVERALKLVRG---KARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                  R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +  
Sbjct: 61  ISEEEANRVFELLKDNSFKVDINSCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKI 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
              S +E+ ++ +A   +V E+     +   E   +++  L
Sbjct: 121 KGLSTNEKMMFNTAKQILVSELGLAKGLDMEEVERMVDSIL 161


>gi|56963460|ref|YP_175191.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
 gi|56909703|dbj|BAD64230.1| CarD family transcriptional regulator [Bacillus clausii KSM-K16]
          Length = 165

 Score =  169 bits (428), Expect = 2e-40,   Method: Composition-based stats.
 Identities = 40/159 (25%), Positives = 79/159 (49%), Gaps = 3/159 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP HG GTI E++E++V G    +F++ F    + L +P  +    G+RK+
Sbjct: 3   MFKVGDKVVYPYHGAGTIQEVEEKDVLGETHLYFILHFPLVDITLMLPESRIEQSGLRKV 62

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP--E 130
             +  +E+  K ++       +  S+ +++ +  + +G +I  A +V  L +  ++    
Sbjct: 63  IPSSDLEKVAKALQNGPDTPPST-SQFSRDTENLLKTGSIIDAAHLVSSLSKKQAERSNG 121

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
               +R   + A   +  E+ AV   SE +A   I+ NL
Sbjct: 122 LHIQDRHHLQKARQVLASELVAVQDFSEEQAYEFIDNNL 160


>gi|302871953|ref|YP_003840589.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           obsidiansis OB47]
 gi|302574812|gb|ADL42603.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           obsidiansis OB47]
          Length = 168

 Score =  168 bits (427), Expect = 3e-40,   Method: Composition-based stats.
 Identities = 38/161 (23%), Positives = 80/161 (49%), Gaps = 4/161 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R +
Sbjct: 1   MYKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNV 60

Query: 73  SEAHFVERALKLVRG---KARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                  R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +  
Sbjct: 61  ISEEEANRVFELLKDNSFKVDINSCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKI 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
              S +E+ ++ +A   +V E+     +   E   +++  L
Sbjct: 121 KGLSTNEKMMFNTAKQILVSELGLAKGLDMEEVERIVDSIL 161


>gi|311029189|ref|ZP_07707279.1| CarD family transcriptional regulator [Bacillus sp. m3-13]
          Length = 136

 Score =  168 bits (427), Expect = 3e-40,   Method: Composition-based stats.
 Identities = 39/132 (29%), Positives = 75/132 (56%), Gaps = 3/132 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++VYP HGVG I +I+E+E++G K +++VI+     M + +P GK +   +R ++
Sbjct: 7   FKIGDNVVYPMHGVGIIKDIEEKEISGEKQQYYVISMLISNMQIMIPTGKILSSSIRPVT 66

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +   ++  + + +     +   W +R +    KI +G ++  AEVVRDL R   +   + 
Sbjct: 67  DIIALKHIMHIFQHGESDRLLPWKQRFKLNTEKIKTGKILEGAEVVRDLLRMKKEKALNS 126

Query: 134 SERQLYESALNR 145
           SE++   +A  R
Sbjct: 127 SEKK---NAEQR 135


>gi|325291324|ref|YP_004267505.1| transcriptional regulator, CarD family [Syntrophobotulus glycolicus
           DSM 8271]
 gi|324966725|gb|ADY57504.1| transcriptional regulator, CarD family [Syntrophobotulus glycolicus
           DSM 8271]
          Length = 162

 Score =  168 bits (426), Expect = 3e-40,   Method: Composition-based stats.
 Identities = 40/162 (24%), Positives = 80/162 (49%), Gaps = 2/162 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ I+YP HG+  I  ++++E+ G +   +++   K  M + +PV KA  IG+RK+
Sbjct: 1   MFQVGDKILYPMHGICIIDAVEKKELFGQQELCYILNIQKANMKITIPVDKATKIGVRKV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRA-QE-YDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                +E  L              ++R  +E    K  +G++    E++RDL R   + +
Sbjct: 61  VGPEILENILNSFNLGDTDSNIFENQRYCKEINKKKFKTGNINQGTEIIRDLTRKSRRTK 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
               +  + ++A    V E+  V  ++  +A+ L++  L+SK
Sbjct: 121 LGQDDTNMLDNARRVFVSELMEVKGLALEQAVYLLDEALNSK 162


>gi|326386142|ref|ZP_08207766.1| CarD family transcriptional regulator [Novosphingobium
           nitrogenifigens DSM 19370]
 gi|326209367|gb|EGD60160.1| CarD family transcriptional regulator [Novosphingobium
           nitrogenifigens DSM 19370]
          Length = 151

 Score =  168 bits (426), Expect = 4e-40,   Method: Composition-based stats.
 Identities = 82/150 (54%), Positives = 112/150 (74%)

Query: 30  ITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKA 89
           + E++ +E+AGMKLE +V+ F+K++M L+VPV K   IGMRKLS    +  AL  ++GK 
Sbjct: 1   MVELQNEEIAGMKLELYVLRFEKERMTLRVPVNKVEAIGMRKLSSDKTLREALDTLKGKP 60

Query: 90  RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVRE 149
           +VKRTMWSRRAQEY+AKINSGDL+AIAEV RDL R D QPE+SYSERQ++E+A +R+ RE
Sbjct: 61  KVKRTMWSRRAQEYEAKINSGDLVAIAEVTRDLFRADDQPEQSYSERQIFEAASSRLARE 120

Query: 150 IAAVNSISEPEAINLIEVNLSSKSSKTEKS 179
           +AA+    EP A+  I V L+  + K  ++
Sbjct: 121 LAAMEKTDEPAALKKILVILNEHAPKYYET 150


>gi|330813497|ref|YP_004357736.1| carD-like transcriptional regulator [Candidatus Pelagibacter sp.
           IMCC9063]
 gi|327486592|gb|AEA80997.1| carD-like transcriptional regulator [Candidatus Pelagibacter sp.
           IMCC9063]
          Length = 273

 Score =  168 bits (425), Expect = 5e-40,   Method: Composition-based stats.
 Identities = 70/172 (40%), Positives = 112/172 (65%), Gaps = 3/172 (1%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K+D  ++ ++  ++++YP HG+G IT +++  +AG+ + F+ I   KDK+ L +P  + 
Sbjct: 100 KKQDNEKRTYKIKDYVIYPKHGIGQITAVEKDTIAGIDINFYKIEITKDKLVLTIPTNQQ 159

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               +R LS    V +A+ +++GKA+VKRTMWSRRAQEY+ KINSG++  IAEVVRDL++
Sbjct: 160 GH--LRSLSSTGQVAKAISILKGKAKVKRTMWSRRAQEYEQKINSGEIYQIAEVVRDLNK 217

Query: 125 TDSQP-EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
               P ++SYSERQL+E A  R++ E+  V   +E EA   +   L  K  +
Sbjct: 218 NTDMPVDQSYSERQLFEKAFERLLGEVTVVLEATEEEAKEKLNKALGKKPEQ 269


>gi|281414624|ref|ZP_06246366.1| transcriptional regulator, CarD family protein [Micrococcus luteus
           NCTC 2665]
          Length = 137

 Score =  167 bits (424), Expect = 6e-40,   Method: Composition-based stats.
 Identities = 36/135 (26%), Positives = 69/135 (51%)

Query: 36  QEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTM 95
           + + G +  +  +   +  + ++VP      +G+R + +A  +E  ++++R +   + T 
Sbjct: 2   RTIKGEEKMYLKLKVAQGDLTIEVPAENVDLVGVRDVVDAEGLEHVMEVLRAEHVEEPTN 61

Query: 96  WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNS 155
           WSRR +    K+ SGD+  +AEVVRDL R D     S  E+++   A   +V E+A    
Sbjct: 62  WSRRYKANLEKLASGDVNKVAEVVRDLWRRDQDRGLSAGEKRMLSKARQVLVSELALAKK 121

Query: 156 ISEPEAINLIEVNLS 170
           ++E EA   ++  L 
Sbjct: 122 VTEEEAEGRLDKVLE 136


>gi|312793424|ref|YP_004026347.1| CarD family transcriptional regulator [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312876058|ref|ZP_07736047.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           lactoaceticus 6A]
 gi|311797256|gb|EFR13596.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           lactoaceticus 6A]
 gi|312180564|gb|ADQ40734.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 168

 Score =  167 bits (424), Expect = 6e-40,   Method: Composition-based stats.
 Identities = 39/161 (24%), Positives = 81/161 (50%), Gaps = 4/161 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R +
Sbjct: 1   MYKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNV 60

Query: 73  SEAHFVERALKLVRG---KARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                  R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +  
Sbjct: 61  ISEEEANRVFELLKDNSFKVDINSCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKV 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
              S +E+ ++ +A   +V E+     I+  E   +++  L
Sbjct: 121 KGLSTNEKMMFNTAKQILVSELGLAKGIAIEEVERMVDSIL 161


>gi|239907582|ref|YP_002954323.1| hypothetical protein DMR_29460 [Desulfovibrio magneticus RS-1]
 gi|239797448|dbj|BAH76437.1| hypothetical protein [Desulfovibrio magneticus RS-1]
          Length = 170

 Score =  167 bits (424), Expect = 6e-40,   Method: Composition-based stats.
 Identities = 48/170 (28%), Positives = 83/170 (48%), Gaps = 7/170 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F   + +VYPA GVG +  I+ Q + G   +FF++    + + L VPV  A ++G+R L
Sbjct: 1   MFSEEQLVVYPAQGVGRVERIETQVIGGASADFFIVRILSNNVTLMVPVKNAANVGLRPL 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
             A      ++ ++ ++         W+RR +EY  K+ SGDL  +A V+++L       
Sbjct: 61  CTAEQGAAIIESLKDRSDFTGYTGQNWNRRYREYSEKLKSGDLADVAYVLKELLLIGQNK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV----NLSSKSSK 175
           E S+ ER+L E A + +  E+A      + E  ++I       L  K  +
Sbjct: 121 ELSFGERRLLEQATSLLTLELALALDKDQQEIKDVINEIFADVLQPKPEE 170


>gi|226360810|ref|YP_002778588.1| hypothetical protein ROP_13960 [Rhodococcus opacus B4]
 gi|226239295|dbj|BAH49643.1| hypothetical protein [Rhodococcus opacus B4]
          Length = 169

 Score =  167 bits (423), Expect = 7e-40,   Method: Composition-based stats.
 Identities = 38/162 (23%), Positives = 70/162 (43%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
                G+  +YP HG  T+T++  +    +  E+      +  + +++PV KA  +G+R 
Sbjct: 1   MNLNIGDIFLYPHHGSVTVTKLTTRMFKDLPTEYVQFEVAQTGLSIEIPVAKAEALGVRN 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 VER   ++RG      + WSRR +    K+  G +  ++EV+RDL     +   
Sbjct: 61  AISNDEVERVFDILRGPTVDDPSNWSRRYKANQEKLTVGGIFTVSEVIRDLMTRAQEKPL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           S  E++  E A+  ++ E+         +    IE      S
Sbjct: 121 SAGEKRQLEHAMQLVISELVLAMKSDPDDTRRRIEEIYEPAS 162


>gi|312127692|ref|YP_003992566.1| CarD family transcriptional regulator [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311777711|gb|ADQ07197.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 168

 Score =  166 bits (422), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 38/161 (23%), Positives = 81/161 (50%), Gaps = 4/161 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R +
Sbjct: 1   MYKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNV 60

Query: 73  SEAHFVERALKLVRG---KARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                  R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +  
Sbjct: 61  ISEEEANRVFELLKDNSFKVDINGCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKV 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
              S +E+ ++ +A   +V E+     ++  E   +++  L
Sbjct: 121 KGLSTNEKMMFNTAKQILVSELGLAKGLAIEEVERMVDSIL 161


>gi|222529236|ref|YP_002573118.1| CarD family transcriptional regulator [Caldicellulosiruptor bescii
           DSM 6725]
 gi|312622517|ref|YP_004024130.1| CarD family transcriptional regulator [Caldicellulosiruptor
           kronotskyensis 2002]
 gi|222456083|gb|ACM60345.1| transcriptional regulator, CarD family [Caldicellulosiruptor bescii
           DSM 6725]
 gi|312202984|gb|ADQ46311.1| transcriptional regulator, CarD family [Caldicellulosiruptor
           kronotskyensis 2002]
          Length = 168

 Score =  166 bits (421), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 38/161 (23%), Positives = 81/161 (50%), Gaps = 4/161 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++ G+ I++P HG G I EI E++V     +++V+    + M + VPV  A +IG+R +
Sbjct: 1   MYKVGDTIIHPLHGAGRIVEIVEEKVFDSVQKYYVVKILYNGMKVLVPVKSASEIGIRNV 60

Query: 73  SEAHFVERALKLVRG---KARVKR-TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                  R  +L++    K  +     +++R +E   K+ SG++  + EV++ L   +  
Sbjct: 61  ISEEEANRVFELLKDNSFKVDINGCGNYNKRIRENQQKLKSGNIYCVVEVLKMLAMREKV 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
              S +E+ ++ +A   +V E+     ++  E   +++  L
Sbjct: 121 KGLSTNEKMMFNTAKQILVSELGLAKGLAIEEVERMVDNIL 161


>gi|239621794|ref|ZP_04664825.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           CCUG 52486]
 gi|239514985|gb|EEQ54852.1| transcriptional regulator [Bifidobacterium longum subsp. infantis
           CCUG 52486]
          Length = 179

 Score =  165 bits (419), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 49/163 (30%), Positives = 81/163 (49%), Gaps = 4/163 (2%)

Query: 30  ITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGK 88
           +  I E+ V G+  E+  ++      + + VPV  A  +G+R +  A  V +   ++R  
Sbjct: 1   MEAITERTVKGVTREYLQLSVLSSDGLVINVPVDNAKKVGVRDIVSASEVAKVFGILRTP 60

Query: 89  ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-SQPEKSYSERQLYESALNRMV 147
              K   WSRR +    KI +GD+  IAEVVRDL + D  +   S  E+++   A   + 
Sbjct: 61  IIEKEMNWSRRYKLNVEKIATGDVNKIAEVVRDLAQRDVDEHGLSAGEKRMLTKARAILT 120

Query: 148 REIAAVNSISEPEAINLIEVNLSSKSSKT--EKSTSENQDKAA 188
            EIA    I E EA  L++VNL  + ++   +K  +   ++AA
Sbjct: 121 SEIALSEKIDEAEAQRLLDVNLGYEPAQPGDDKHHTAEPEEAA 163


>gi|111018698|ref|YP_701670.1| CarD family transcriptional regulator [Rhodococcus jostii RHA1]
 gi|110818228|gb|ABG93512.1| probable transcriptional regulator, CarD family protein
           [Rhodococcus jostii RHA1]
          Length = 171

 Score =  165 bits (418), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 38/157 (24%), Positives = 68/157 (43%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
                G+  +YP HG  T+T++  +    +  E+      ++ + +++PV KA  IG+R 
Sbjct: 1   MNLNIGDIFLYPHHGSVTVTKLTTRMFNDLPTEYVQFEVAQNGLSIEIPVAKAESIGVRN 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 V R   ++RG      + WSRR +    K+  G +  ++EV+RDL         
Sbjct: 61  AINNDEVGRVFDILRGPTVDDPSNWSRRFKANQEKLTVGGIFTVSEVIRDLMTRSQVKPL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           S  E++  E A+  ++ E+         E    IE  
Sbjct: 121 SAGEKRQLEHAMQLVISELVLAMKSDPDETRRRIEAI 157


>gi|225620858|ref|YP_002722116.1| transcriptional regulator [Brachyspira hyodysenteriae WA1]
 gi|225215678|gb|ACN84412.1| Transcriptional regulator [Brachyspira hyodysenteriae WA1]
          Length = 194

 Score =  162 bits (411), Expect = 2e-38,   Method: Composition-based stats.
 Identities = 42/163 (25%), Positives = 78/163 (47%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++   ++VYP +G+  +  I + +V    +E +V+  + + + LKVP+ +  +  +RK+
Sbjct: 1   MYKLNTYVVYPMYGICKVVGISDNKVNSNLVECYVLECESENITLKVPINRVKEYRIRKI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +  L +++ K       W  R QE + K+ SGD+    EV R L   +   E S
Sbjct: 61  ISKAEADNLLNILQTKPHDIENNWKIRYQENEEKLRSGDIKDTIEVARSLFTRNKLKELS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
            SE++LYE A   +V EI+        E  +++   L   + K
Sbjct: 121 ASEKRLYEKAYMFIVNEISIALKKDRDEIEDIVSNALEKSAKK 163


>gi|323141388|ref|ZP_08076279.1| CarD-like protein [Phascolarctobacterium sp. YIT 12067]
 gi|322414137|gb|EFY04965.1| CarD-like protein [Phascolarctobacterium sp. YIT 12067]
          Length = 161

 Score =  162 bits (411), Expect = 2e-38,   Method: Composition-based stats.
 Identities = 41/157 (26%), Positives = 72/157 (45%), Gaps = 3/157 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG   I +I+     G  ++++++    D M + VPV  A  +G+R +
Sbjct: 1   MFAMGDRVVYPLHGGAIIKDIEAHIQDGETVKYYILQMLFDNMTVSVPVENAEKLGLRYI 60

Query: 73  SEAHFVERALKLVRGKAR---VKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
            +   +      +        VK   W+RR Q Y  KI SG +  +A + + L   + + 
Sbjct: 61  GDDETLAIIQNTLHEVPDVQTVKAISWNRRFQLYMQKIKSGSVAEVARIFKILTILERRK 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           + S  ER+L  S    +  EI  +  +   +A N +E
Sbjct: 121 KISVGERRLLHSTKQILQSEIMLIKDVDAEKAGNWLE 157


>gi|319790303|ref|YP_004151936.1| transcriptional regulator, CarD family [Thermovibrio ammonificans
           HB-1]
 gi|317114805|gb|ADU97295.1| transcriptional regulator, CarD family [Thermovibrio ammonificans
           HB-1]
          Length = 163

 Score =  161 bits (407), Expect = 5e-38,   Method: Composition-based stats.
 Identities = 38/157 (24%), Positives = 70/157 (44%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ + YP HGVG I   + + V G ++ ++ I      M + +P       G+R +
Sbjct: 1   MFKVGDKVAYPPHGVGVIESTEVRVVGGKEVTYYRITLLGKNMSILIPEVGLESSGVRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                +E     +  K       W+ R +    ++ +G++  +A VVR+L       E S
Sbjct: 61  LSEEEIEEVFSYLAEKPTNISEKWTIRHRLNVDRLKTGNIRELATVVRNLSYRSKDKELS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           YSE++++E A +++  EIA        +    I   L
Sbjct: 121 YSEKRMFEEAFSKLAEEIALSLGEPVRKVKQRIRKIL 157


>gi|317128335|ref|YP_004094617.1| transcriptional regulator, CarD family [Bacillus cellulosilyticus
           DSM 2522]
 gi|315473283|gb|ADU29886.1| transcriptional regulator, CarD family [Bacillus cellulosilyticus
           DSM 2522]
          Length = 163

 Score =  160 bits (406), Expect = 7e-38,   Method: Composition-based stats.
 Identities = 44/159 (27%), Positives = 81/159 (50%), Gaps = 3/159 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+H+VYP HG GTI +I+E+++ G KL ++V+ F  + + L +P  +    G+RK+
Sbjct: 1   MFNVGDHVVYPYHGAGTIKDIEEKDILGEKLNYYVVFFPLNHVTLMLPENRIKSSGLRKI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRA-QEYDAKINSGDLIAIAEVVRDLHRTDSQP-- 129
            +   +E  +  ++      +   +R   +E +  + SG +I  A V+ +L   + +   
Sbjct: 61  IQPKQIEEVVTAMQPTEYASKKEAARPYSKENETLLKSGSIIDAAMVIANLTSKEGERTN 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
                +R+  + A   +V E+  V +ISE EA   I  N
Sbjct: 121 GLHMEDRKNLDRAKQFIVSELMLVKNISEEEAYQFINEN 159


>gi|325294895|ref|YP_004281409.1| transcriptional regulator, CarD family [Desulfurobacterium
           thermolithotrophum DSM 11699]
 gi|325065343|gb|ADY73350.1| transcriptional regulator, CarD family [Desulfurobacterium
           thermolithotrophum DSM 11699]
          Length = 163

 Score =  160 bits (405), Expect = 9e-38,   Method: Composition-based stats.
 Identities = 41/157 (26%), Positives = 72/157 (45%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +  P HGVG +   +E+EV G K+ +F I+     M + VP     + G+R +
Sbjct: 1   MFKIGDKVACPPHGVGIVEGKEEREVGGKKVIYFRISLVGKSMSILVPEESIENSGIRPV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                +E     +          W+ R +    ++ +GD+  +A VVR+L     + E S
Sbjct: 61  LSEESIEEIFNYLSEIPTNISEKWTVRHRLNVDRLKTGDIKELATVVRNLSYRSKEKELS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           YSE++++E A  ++  EIA        +    I   L
Sbjct: 121 YSEKRMFEEAFGKLAEEIALSLGEPVKKVKQKIRKIL 157


>gi|187935467|ref|YP_001885252.1| CarD family transcriptional regulator [Clostridium botulinum B str.
           Eklund 17B]
 gi|187723620|gb|ACD24841.1| transcriptional regulator, CarD family [Clostridium botulinum B
           str. Eklund 17B]
          Length = 160

 Score =  160 bits (405), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 37/160 (23%), Positives = 80/160 (50%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYP  G+G +  I+E+   G K ++ +I   K+ + + +P+ +     +R +
Sbjct: 1   MFKVGDKVVYPMQGIGIVQRIEEKLFCGTKRKYCIIQMLKNSLEIMIPIDRIAKSRLRMI 60

Query: 73  SEAHFVERALKLVRGKARVKRTM--WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           ++ + +E  L  ++  +  +        R +    KI SG L    +V  +L   +    
Sbjct: 61  NDINTLEDILNHIQDTSDPEELNLPSKERYEINLNKIKSGLLEDSLDVFYNLTLINKMKA 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            + +E+Q+  +A N ++ EI  +  ISE EA  +++ ++S
Sbjct: 121 LNSTEKQILNTAQNFLIDEIRVIKDISENEATKILKSSIS 160


>gi|297624760|ref|YP_003706194.1| CarD family transcriptional regulator [Truepera radiovictrix DSM
           17093]
 gi|297165940|gb|ADI15651.1| transcriptional regulator, CarD family [Truepera radiovictrix DSM
           17093]
          Length = 165

 Score =  159 bits (404), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 43/160 (26%), Positives = 78/160 (48%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+++VYP+ G G + EI  + V G + E+  I+F +  M + VP+ K  ++G+R  
Sbjct: 1   MFKVGDNVVYPSQGAGRVDEITTRVVLGERHEYLKISFVRGDMDVLVPLKKGEEVGLRHT 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                V   L  +        T W  R +     +  GD  A+A ++  L + D +   +
Sbjct: 61  VALAEVGELLAAIAHSDLSLPTQWPPRHRAEQDILAGGDAYALARLIGVLAQRDLEKGLA 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            +ER++ E A   +  E+A V SIS   A   I+  ++++
Sbjct: 121 ATEREMLEGAKAMLASELAVVQSISLEAAHAQIDETIATQ 160


>gi|300870668|ref|YP_003785539.1| CarD family transcriptional regulator [Brachyspira pilosicoli
           95/1000]
 gi|300688367|gb|ADK31038.1| transcriptional regulator, CarD family [Brachyspira pilosicoli
           95/1000]
          Length = 191

 Score =  159 bits (402), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 43/172 (25%), Positives = 82/172 (47%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++   ++VYP +G+  +  I + +V    +E +V+  + + + LKVP+ +  +  +RK+
Sbjct: 1   MYKVNSYVVYPMYGICKVIGIADNKVNSSVVECYVLECEGENITLKVPINRVKEYRIRKI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 E  L L++ K       W  R QE + K+ SG++    EV R L   +   E S
Sbjct: 61  ISKAEAENFLNLLQTKPHDIENNWKIRYQENEEKLRSGEIKDTIEVARSLFTRNKLKELS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQ 184
            SE++LYE A   +V EI+        +  +++   L   + K +   +E +
Sbjct: 121 ASEKRLYEKAYMFIVNEISIALKKDRDQIEDIVSNALEKSAKKFKTKPAEKE 172


>gi|150016433|ref|YP_001308687.1| CarD family transcriptional regulator [Clostridium beijerinckii
           NCIMB 8052]
 gi|149902898|gb|ABR33731.1| transcriptional regulator, CarD family [Clostridium beijerinckii
           NCIMB 8052]
          Length = 159

 Score =  159 bits (402), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 47/159 (29%), Positives = 84/159 (52%), Gaps = 1/159 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP  G+GT+  I+ +  +G   E+ ++    + + + +P  KA +  +RK+
Sbjct: 1   MFLIGDKVVYPMQGIGTVERIENKIFSGNTKEYIIVKITSNNLEIMIPSDKASNSNLRKV 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSR-RAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
            +   ++  L  +  K+       S+ R Q    KI SG L   AEVV DL   + +   
Sbjct: 61  CDNSTLDHILLTLENKSSEFELASSKERYQANAKKIRSGLLKDSAEVVYDLILMNKKKSL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           S SE+QL+ +A   +V E++ + +ISE EA + + +NL+
Sbjct: 121 SSSEKQLFNTAYKFLVEEVSVIKNISEIEATSFLNLNLN 159


>gi|296126550|ref|YP_003633802.1| CarD family transcriptional regulator [Brachyspira murdochii DSM
           12563]
 gi|296018366|gb|ADG71603.1| transcriptional regulator, CarD family [Brachyspira murdochii DSM
           12563]
          Length = 191

 Score =  158 bits (401), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 44/174 (25%), Positives = 87/174 (50%), Gaps = 1/174 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++   ++VYP +G+  +  I + +V    +E +V+  + + + LKVP+ +  +  +RK+
Sbjct: 1   MYKLNTYVVYPMYGICKVIGISDSKVNSNLVECYVLECESENITLKVPINRVKEYRIRKI 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                 +  + +++ K +     W  R QE + K+ SG++    EV R L   +   E S
Sbjct: 61  ISKAEADELINVLQTKPQDIENNWKIRYQENEEKLRSGNIKDTIEVARSLFTRNKLKELS 120

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDK 186
            SE++LYE A   +V EI+      + E  +++   L  KS+K  K+    ++K
Sbjct: 121 ASEKRLYEKAYMFIVNEISIALKKDKDEIEDIVSNALE-KSAKKFKTKPLEKEK 173


>gi|328950177|ref|YP_004367512.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
 gi|328450501|gb|AEB11402.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
          Length = 163

 Score =  158 bits (401), Expect = 3e-37,   Method: Composition-based stats.
 Identities = 49/164 (29%), Positives = 81/164 (49%), Gaps = 1/164 (0%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +VYPA G G I E+ E+EV G + +++V+    D   + VPVG   + G+R  
Sbjct: 1   MFQVGDAVVYPAQGAGRIVEVVEREVMGSRKQYYVVQLLSDAARIMVPVGAVREAGLRPP 60

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
             A  +ER  + +  +     ++W  R +E    + SGD   +A +V  L+R D     +
Sbjct: 61  LAAAELERLWQAL-AEDLPLPSVWMPRYREEQRLLASGDPFKLAALVGTLYRRDQAKPLA 119

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
            SER+LYE AL  +  E+A   S +   A   +   L + +   
Sbjct: 120 SSERRLYEDALTALASEVALSLSETLEAAKARVMGMLEALTPSP 163


>gi|251781081|ref|ZP_04824001.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|243085396|gb|EES51286.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 160

 Score =  158 bits (401), Expect = 3e-37,   Method: Composition-based stats.
 Identities = 35/160 (21%), Positives = 79/160 (49%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP  G+G +  I+E+   G K ++ +I   K+ + + +P+ +  +  +R +
Sbjct: 1   MFNVGDKVVYPMQGIGIVQRIEEKLFCGKKKKYCIIQMLKNNLEIMIPLDRIPNSKLRMI 60

Query: 73  SEAHFVERALKLVRGKARVKRTM--WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           ++ + +E  L  +   +  +       +R +    KI SG L    +V  +L   +    
Sbjct: 61  NDINTLEDILNNIGDTSNPEEADLPSKQRYEINLNKIKSGLLEDSLDVFYNLTLINKNKA 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            + +E+Q+  +A   ++ EI  +  ISE EA  +++ +++
Sbjct: 121 LNSTEKQILNTAQKFLIDEIRVIKDISENEATKILKSSIN 160


>gi|188590479|ref|YP_001920384.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
 gi|188500760|gb|ACD53896.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
          Length = 160

 Score =  157 bits (399), Expect = 5e-37,   Method: Composition-based stats.
 Identities = 35/160 (21%), Positives = 79/160 (49%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP  G+G +  I+E+   G K ++ +I   K+ + + +P+ +  +  +R +
Sbjct: 1   MFNVGDKVVYPMQGIGIVQRIEEKLFCGKKKKYCIIQMLKNNLEIMIPIDRLPNSKLRMI 60

Query: 73  SEAHFVERALKLVRGKARVKRTM--WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           ++ + +E  L  +   +  +       +R +    KI SG L    +V  +L   +    
Sbjct: 61  NDINTLEDILNNIGDTSNPEEADLPSKQRYEINLNKIKSGLLEDSLDVFYNLTLINKNKA 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            + +E+Q+  +A   ++ EI  +  ISE EA  +++ +++
Sbjct: 121 LNSTEKQILNTAQKFLIDEIRVIKDISENEATKILKSSIN 160


>gi|23009120|ref|ZP_00050287.1| COG1329: Transcriptional regulators, similar to M. xanthus CarD
           [Magnetospirillum magnetotacticum MS-1]
          Length = 143

 Score =  156 bits (394), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 80/133 (60%), Positives = 111/133 (83%), Gaps = 1/133 (0%)

Query: 55  MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIA 114
           M L+VP  KA  +GMRKL+E   V++AL ++ G+AR+KRTMWSRRAQEY+AKINSGDLI+
Sbjct: 1   MVLRVPTAKANSVGMRKLAEPELVKKALDVLTGRARIKRTMWSRRAQEYEAKINSGDLIS 60

Query: 115 IAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           + EVVRDL+R+++QPE+SYSERQLYE+AL+R+VREI++VN I+E EA+ LIE +L+ KS 
Sbjct: 61  VTEVVRDLYRSEAQPEQSYSERQLYEAALDRVVREISSVNKITETEALKLIEQSLA-KSP 119

Query: 175 KTEKSTSENQDKA 187
           +  K+ +E + +A
Sbjct: 120 RRAKADAETEAEA 132


>gi|297584628|ref|YP_003700408.1| CarD family transcriptional regulator [Bacillus selenitireducens
           MLS10]
 gi|297143085|gb|ADH99842.1| transcriptional regulator, CarD family [Bacillus selenitireducens
           MLS10]
          Length = 164

 Score =  156 bits (394), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 42/162 (25%), Positives = 81/162 (50%), Gaps = 4/162 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP HG G + +I+E+E+ G KL +FV+ F  +++ L +P  K  + G+R +
Sbjct: 1   MFSIGDCVVYPYHGAGRVEKIEEKEILGNKLLYFVVYFPLNQVTLMLPENKIGESGLRPV 60

Query: 73  SEAHFVERALKLVRG--KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP- 129
                ++  ++ +    +AR         ++E +A + +G +   A V+  L+   S+  
Sbjct: 61  ITKKELDDVVESLCEEVEARETAATAKPYSRENEALLKTGSIYDAARVISLLNAKKSERA 120

Query: 130 -EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
                 +R+  E A   +V E+  +N  SE +A   I+ N+ 
Sbjct: 121 NGLHIEDRKNLERATQFLVSEVKNINGFSEEDAKLFIKNNIP 162


>gi|40062705|gb|AAR37618.1| transcriptional regulator, CarD family [uncultured marine bacterium
           314]
          Length = 223

 Score =  155 bits (393), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 63/172 (36%), Positives = 101/172 (58%), Gaps = 6/172 (3%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
              ++ +   +++VYP HGVG I  I + ++  + + F+ +  +K+K+ L +P+      
Sbjct: 53  PNEKKLYNVKDYVVYPKHGVGKIISIDKAKMGDIDITFYKVLIEKEKLTLSIPIN--QQS 110

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
            +R +S    + +A  +++ K R+KRTMWSRRAQEYD KINSG L  +AEVVRDL++   
Sbjct: 111 HLRHVSSISQINKAASILKSKPRIKRTMWSRRAQEYDQKINSGKLYELAEVVRDLNKKTD 170

Query: 128 QP-EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
              E+SYSERQL+E A NR+  E+  V      +A   ++  L  K +  +K
Sbjct: 171 IIAEQSYSERQLFEKAYNRLKSELEVVLG---EKAQQKMDKALKFKENSLQK 219


>gi|297566998|ref|YP_003685970.1| CarD family transcriptional regulator [Meiothermus silvanus DSM
           9946]
 gi|296851447|gb|ADH64462.1| transcriptional regulator, CarD family [Meiothermus silvanus DSM
           9946]
          Length = 163

 Score =  155 bits (393), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 47/153 (30%), Positives = 74/153 (48%), Gaps = 2/153 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  GE +VYPAHG G I  + E+ V G K  ++V+        + VPVG      +R  
Sbjct: 1   MFAIGEAVVYPAHGAGRIVGLDERSVLGEKRIYYVLELLGQAHTVMVPVG-VAQACLRPP 59

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                VER L  ++ + ++  T+W +R +E +  + SGD   +A +   L R       S
Sbjct: 60  LAGAAVERLLDELKTEVKL-PTIWMQRHREEEKILASGDPYQVAALAGTLFRYQRGKTLS 118

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLI 165
            SER ++E AL  +  E+A +  +S  EA   +
Sbjct: 119 LSERGVFEKALAMLASELALIWGVSLDEAKARV 151


>gi|220918135|ref|YP_002493439.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
 gi|219955989|gb|ACL66373.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-1]
          Length = 404

 Score =  154 bits (390), Expect = 6e-36,   Method: Composition-based stats.
 Identities = 38/160 (23%), Positives = 76/160 (47%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +VYP  GV  +   + +++AG KLE   +  ++D   + VP GK   IG+R+++ 
Sbjct: 31  KPGDRVVYPNQGVCAVVGWEVKDIAGQKLELVRMTREEDGAAVMVPKGKVPSIGLRRVAT 90

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +E     +          W  R ++   ++ +G ++ +AEVV+ LH           
Sbjct: 91  GAQMEGVFHYLGAVYDDPELDWKVRHRDNADRLIAGGVLGVAEVVKGLHSLSRLRPLPTK 150

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           ER+ Y++A + +V E++    +    A + I+  L   + 
Sbjct: 151 EREQYDNARHLLVHEVSVSLGVPPGLAEDYIDYALMPPAG 190


>gi|153005645|ref|YP_001379970.1| CarD family transcriptional regulator [Anaeromyxobacter sp.
           Fw109-5]
 gi|152029218|gb|ABS26986.1| transcriptional regulator, CarD family [Anaeromyxobacter sp.
           Fw109-5]
          Length = 364

 Score =  154 bits (389), Expect = 7e-36,   Method: Composition-based stats.
 Identities = 39/160 (24%), Positives = 77/160 (48%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G  +VYP  GV  +  ++E+++AG KL+   +  ++D   + VP  K   IG+R+++ 
Sbjct: 30  RPGNRVVYPNQGVCEVVGVEEKDIAGQKLQLVRMRREEDGAAVLVPRNKVPSIGLRRVAT 89

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +E     +  +       W  R ++   ++ +G ++ +AEVV+ LH           
Sbjct: 90  GEQIEGVFHFLAAQFEDPELDWKVRHRDNADRLIAGGVLGVAEVVKGLHSLSRIRPLPAK 149

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           ER+ Y++A + +V E+A    +    A + I+  L   + 
Sbjct: 150 EREQYDNARHLLVHEVAVSLGVPPALAEDYIDYALMPPAG 189


>gi|197123346|ref|YP_002135297.1| CarD family transcriptional regulator [Anaeromyxobacter sp. K]
 gi|196173195|gb|ACG74168.1| transcriptional regulator, CarD family [Anaeromyxobacter sp. K]
          Length = 404

 Score =  152 bits (386), Expect = 1e-35,   Method: Composition-based stats.
 Identities = 38/160 (23%), Positives = 76/160 (47%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +VYP  GV  +   + +++AG KLE   +  ++D   + VP GK   IG+R+++ 
Sbjct: 31  KPGDRVVYPNQGVCAVVGWEVKDIAGQKLELVRMTREEDGAAVMVPKGKVPSIGLRRVAT 90

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +E     +          W  R ++   ++ +G ++ +AEVV+ LH           
Sbjct: 91  GAQMEGVFHYLGAVYDDPELDWKVRHRDNADRLIAGGVLGVAEVVKGLHSLSRLRPLPTK 150

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           ER+ Y++A + +V E++    +    A + I+  L   + 
Sbjct: 151 EREQYDNARHLLVHEVSVSLGVPPGLAEDYIDYALMPPAG 190


>gi|306841480|ref|ZP_07474180.1| transcriptional regulator [Brucella sp. BO2]
 gi|306288444|gb|EFM59800.1| transcriptional regulator [Brucella sp. BO2]
          Length = 136

 Score =  152 bits (386), Expect = 1e-35,   Method: Composition-based stats.
 Identities = 95/133 (71%), Positives = 112/133 (84%), Gaps = 1/133 (0%)

Query: 55  MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIA 114
           M LKVPV KA  IGMRKLSE  +VERALK+V+G+ARVKRTMWSRRAQEYDAKINSGDLI+
Sbjct: 1   MRLKVPVAKAASIGMRKLSETDYVERALKVVQGRARVKRTMWSRRAQEYDAKINSGDLIS 60

Query: 115 IAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           I+EVVRDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ LIEVNL+ K  
Sbjct: 61  ISEVVRDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKLSETEAVRLIEVNLA-KGP 119

Query: 175 KTEKSTSENQDKA 187
           K  K+ +E  D  
Sbjct: 120 KRGKAEAELDDDE 132


>gi|187935638|ref|YP_001884929.1| CarD family transcriptional regulator [Clostridium botulinum B str.
           Eklund 17B]
 gi|187723791|gb|ACD25012.1| transcriptional regulator, CarD family [Clostridium botulinum B
           str. Eklund 17B]
          Length = 163

 Score =  151 bits (383), Expect = 4e-35,   Method: Composition-based stats.
 Identities = 42/162 (25%), Positives = 80/162 (49%), Gaps = 4/162 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ IVYP+ GVG I  I E    G    ++ I    + M L +PV +  D+ +R +
Sbjct: 1   MFNIGDKIVYPSQGVGIIELIGEMLFKGEIQNYYKIHIFNNNMTLTLPVNRVEDLNIRLV 60

Query: 73  SEAHFVERALKLVRGK----ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           S++  ++  L+ V+        + ++ + +RA   + KI SG L    EV+ +L +   Q
Sbjct: 61  SDSETLDSVLENVKDFTTNIEELNKSDFKQRAAINNQKIKSGTLTDYLEVIYNLTKVKEQ 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
              + SE+      +  +V EI+   ++S  +A +L+ + ++
Sbjct: 121 HSLNSSEKDTLRKTVKTLVEEISQSKNLSNDDASSLLNLAIN 162


>gi|188589570|ref|YP_001920088.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
 gi|251778617|ref|ZP_04821537.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|188499851|gb|ACD52987.1| transcriptional regulator, CarD family [Clostridium botulinum E3
           str. Alaska E43]
 gi|243082932|gb|EES48822.1| transcriptional regulator, CarD family [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 163

 Score =  151 bits (381), Expect = 6e-35,   Method: Composition-based stats.
 Identities = 41/162 (25%), Positives = 80/162 (49%), Gaps = 4/162 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ IVYP+ GVG I  I E    G    ++ I    + M L +P+ +  D+ +R +
Sbjct: 1   MFNIGDKIVYPSQGVGIIELIGEMLFKGEVQNYYKIHIFNNNMTLTLPINRVDDLNIRLV 60

Query: 73  SEAHFVERALKLVRGK----ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           S++  ++  L+ V+        + ++ + +RA   + KI SG L    EV+ +L +   Q
Sbjct: 61  SDSETLDSVLENVKDFTTNIEELNKSDFKQRAAINNQKIKSGTLTDYLEVIYNLTKVREQ 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
              + SE+      +  +V EI+   ++S  +A +L+ + ++
Sbjct: 121 HSLNSSEKDTLRKTVKTLVEEISQSKNLSNDDASSLLNLAIN 162


>gi|86159279|ref|YP_466064.1| CarD family transcriptional regulator [Anaeromyxobacter
           dehalogenans 2CP-C]
 gi|85775790|gb|ABC82627.1| transcriptional regulator, CarD family [Anaeromyxobacter
           dehalogenans 2CP-C]
          Length = 399

 Score =  150 bits (380), Expect = 7e-35,   Method: Composition-based stats.
 Identities = 38/160 (23%), Positives = 77/160 (48%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +VYP  GV  +   + +++AG KLE   +  ++D   + VP GK   IG+R+++ 
Sbjct: 31  KPGDRVVYPNQGVCAVVGWEVKDIAGQKLELVRMTREEDGAAVMVPKGKVPSIGLRRVAT 90

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +E     +          W  R ++   ++ +G ++ +AEVV+ LH           
Sbjct: 91  GAQMEGVFHYLGAVYDDPELDWKIRHRDNADRLIAGGVLGVAEVVKGLHSLSRLRPLPTK 150

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           ER+ Y++A + +V E++   ++    A + I+  L   + 
Sbjct: 151 EREQYDNARHLLVHEVSVSLAVPPGLAEDYIDYALMPPAG 190


>gi|297624690|ref|YP_003706124.1| CarD family transcriptional regulator [Truepera radiovictrix DSM
           17093]
 gi|297165870|gb|ADI15581.1| transcriptional regulator, CarD family [Truepera radiovictrix DSM
           17093]
          Length = 168

 Score =  149 bits (377), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 39/160 (24%), Positives = 69/160 (43%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
               ++ ++ G+ +V P +GVG +     + VAG    ++ + F        VPV     
Sbjct: 1   MKEAQKTYKHGDQVVLPPYGVGVVAGTTVRTVAGTDHHYYEVEFPNGTSKAFVPVAAPQA 60

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
            G+R       V + L+ +          W+ R +     ++SGD   IA +  +L R D
Sbjct: 61  AGLRPALTKAEVHKVLERLSNGRINLPKQWAARHRRVTEILSSGDPYQIATLGSELRRWD 120

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            +      +RQ Y  AL  +  EI+AV  I+  EA  +++
Sbjct: 121 LERGLPDLDRQAYRRALRLLAGEISAVLGITPKEAREMMD 160


>gi|224534394|ref|ZP_03674972.1| putative transcription factor [Borrelia spielmanii A14S]
 gi|224514496|gb|EEF84812.1| putative transcription factor [Borrelia spielmanii A14S]
          Length = 162

 Score =  148 bits (375), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 42/159 (26%), Positives = 75/159 (47%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSREKVEEVFDVIKKFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  EA   I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEAKKKIKNIL 156


>gi|187918225|ref|YP_001883788.1| CarD-like transcriptional regulator [Borrelia hermsii DAH]
 gi|119861073|gb|AAX16868.1| CarD-like transcriptional regulator [Borrelia hermsii DAH]
          Length = 161

 Score =  148 bits (374), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 44/171 (25%), Positives = 75/171 (43%), Gaps = 18/171 (10%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R 
Sbjct: 1   MTFVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVSRADDLGIRA 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSG--------DLIAIAEVVRDLH 123
           L     VE    +++              Q    KI  G        D+++ A++ + L+
Sbjct: 61  LVSREKVEEVFDIMKDFEG----------QIDQKKIKDGSHDFYKQSDILSTAKLYKFLY 110

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
               Q E  + E+++       +  EI+    IS  EA   I+  LS+  S
Sbjct: 111 TKSMQKELPFYEKRILNDFELILQHEISLALQISFEEAKQKIKEVLSTGKS 161


>gi|15594700|ref|NP_212489.1| transcription factor, putative [Borrelia burgdorferi B31]
 gi|195941293|ref|ZP_03086675.1| transcription factor, putative [Borrelia burgdorferi 80a]
 gi|216264671|ref|ZP_03436663.1| putative transcription factor [Borrelia burgdorferi 156a]
 gi|218249763|ref|YP_002374875.1| putative transcription factor [Borrelia burgdorferi ZS7]
 gi|223889019|ref|ZP_03623610.1| putative transcription factor [Borrelia burgdorferi 64b]
 gi|224533174|ref|ZP_03673774.1| putative transcription factor [Borrelia burgdorferi WI91-23]
 gi|224533714|ref|ZP_03674302.1| putative transcription factor [Borrelia burgdorferi CA-11.2a]
 gi|225549124|ref|ZP_03770099.1| putative transcription factor [Borrelia burgdorferi 94a]
 gi|226320426|ref|ZP_03795993.1| putative transcription factor [Borrelia burgdorferi 29805]
 gi|226321672|ref|ZP_03797198.1| putative transcription factor [Borrelia burgdorferi Bol26]
 gi|2688253|gb|AAC66731.1| transcription factor, putative [Borrelia burgdorferi B31]
 gi|215981144|gb|EEC21951.1| putative transcription factor [Borrelia burgdorferi 156a]
 gi|218164951|gb|ACK75012.1| putative transcription factor [Borrelia burgdorferi ZS7]
 gi|223885835|gb|EEF56934.1| putative transcription factor [Borrelia burgdorferi 64b]
 gi|224511901|gb|EEF82302.1| putative transcription factor [Borrelia burgdorferi WI91-23]
 gi|224513007|gb|EEF83370.1| putative transcription factor [Borrelia burgdorferi CA-11.2a]
 gi|225370350|gb|EEG99788.1| putative transcription factor [Borrelia burgdorferi 94a]
 gi|226232861|gb|EEH31614.1| putative transcription factor [Borrelia burgdorferi Bol26]
 gi|226234179|gb|EEH32893.1| putative transcription factor [Borrelia burgdorferi 29805]
 gi|312148240|gb|ADQ30899.1| transcription factor, putative [Borrelia burgdorferi JD1]
 gi|312149526|gb|ADQ29597.1| transcription factor, putative [Borrelia burgdorferi N40]
          Length = 162

 Score =  148 bits (374), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 42/159 (26%), Positives = 75/159 (47%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSREKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  EA   I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEAKKKIKNIL 156


>gi|219684504|ref|ZP_03539447.1| putative transcription factor [Borrelia garinii PBr]
 gi|219671866|gb|EED28920.1| putative transcription factor [Borrelia garinii PBr]
          Length = 162

 Score =  148 bits (374), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 42/159 (26%), Positives = 74/159 (46%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F    M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFSDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSREKVEEVFDIIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  EA   I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEAKEKIKNIL 156


>gi|328951535|ref|YP_004368870.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
 gi|328451859|gb|AEB12760.1| transcriptional regulator, CarD family [Marinithermus
           hydrothermalis DSM 14884]
          Length = 164

 Score =  148 bits (374), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 39/158 (24%), Positives = 70/158 (44%), Gaps = 1/158 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           M+Q +R G+ +V P +GVG +  I ++ VAG+   ++ + F   +    VPV     +G+
Sbjct: 1   MKQ-YRPGDKVVLPPYGVGVVAGIAKRTVAGVGRSYYQVEFPGTRSKAFVPVESPGQVGL 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R       V   L+ ++         W+ R +     +  GD   IA +   L R + + 
Sbjct: 60  RPALSREEVGEILERLKNGRVSLPKQWAARHRRVTEILAEGDPYRIAVLAGQLRRWEVER 119

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
                +RQ +  A+N +  E++    I+  EA  L E 
Sbjct: 120 GLPDLDRQAFRRAVNLLAEEVSQALEITVEEARQLFED 157


>gi|150016777|ref|YP_001309031.1| CarD family transcriptional regulator [Clostridium beijerinckii
           NCIMB 8052]
 gi|149903242|gb|ABR34075.1| transcriptional regulator, CarD family [Clostridium beijerinckii
           NCIMB 8052]
          Length = 165

 Score =  147 bits (373), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 43/165 (26%), Positives = 81/165 (49%), Gaps = 4/165 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F  G+ +VYP+ G+G I  I+E+E+ G K++ ++I    + M L +P+  A    +R +
Sbjct: 1   MFNIGDKVVYPSQGIGIIDVIEEKELKGEKIKCYIIHLINNTMKLTLPISAANTFNIRLV 60

Query: 73  SEAHFVERALKLVR----GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           S+   +E +LK +        +  +  +  R      K+ SG      EV+ DL +    
Sbjct: 61  SDIKTLENSLKHLDRFMTEAEKFSKINYKERRNISKIKMKSGTFDEFIEVIFDLTQLKRW 120

Query: 129 PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
              + SE+Q+       +V EIA    ++  EA  L++++++ KS
Sbjct: 121 HSLNSSEKQMLNHIKKIVVEEIAQAKCLTSDEASELLDISMNLKS 165


>gi|224531667|ref|ZP_03672299.1| putative transcription factor [Borrelia valaisiana VS116]
 gi|224511132|gb|EEF81538.1| putative transcription factor [Borrelia valaisiana VS116]
          Length = 162

 Score =  147 bits (373), Expect = 5e-34,   Method: Composition-based stats.
 Identities = 42/159 (26%), Positives = 74/159 (46%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F    M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFSDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSREKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  EA   I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEAKEKIKNIL 156


>gi|111115179|ref|YP_709797.1| transcription factor, putative [Borrelia afzelii PKo]
 gi|216263817|ref|ZP_03435811.1| putative transcription factor [Borrelia afzelii ACA-1]
 gi|110890453|gb|ABH01621.1| transcription factor, putative [Borrelia afzelii PKo]
 gi|215979861|gb|EEC20683.1| putative transcription factor [Borrelia afzelii ACA-1]
          Length = 162

 Score =  147 bits (373), Expect = 5e-34,   Method: Composition-based stats.
 Identities = 42/159 (26%), Positives = 75/159 (47%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSREKVEEVFDVIKKFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  EA   I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEAKKKIKNIL 156


>gi|221217751|ref|ZP_03589219.1| putative transcription factor [Borrelia burgdorferi 72a]
 gi|225550083|ref|ZP_03771043.1| putative transcription factor [Borrelia burgdorferi 118a]
 gi|221192428|gb|EEE18647.1| putative transcription factor [Borrelia burgdorferi 72a]
 gi|225369195|gb|EEG98648.1| putative transcription factor [Borrelia burgdorferi 118a]
          Length = 162

 Score =  147 bits (372), Expect = 6e-34,   Method: Composition-based stats.
 Identities = 42/159 (26%), Positives = 75/159 (47%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSREKVEEVFDVIKEFEGQIDSKKIKDGGYEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  EA   I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEAKKKIKNIL 156


>gi|51598613|ref|YP_072801.1| transcription factor, putative [Borrelia garinii PBi]
 gi|219685417|ref|ZP_03540235.1| putative transcription factor [Borrelia garinii Far04]
 gi|51573184|gb|AAU07209.1| transcription factor, putative [Borrelia garinii PBi]
 gi|219672973|gb|EED29994.1| putative transcription factor [Borrelia garinii Far04]
          Length = 162

 Score =  147 bits (372), Expect = 7e-34,   Method: Composition-based stats.
 Identities = 42/159 (26%), Positives = 74/159 (46%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F    M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFSDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSREKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  EA   I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEAKEKIKNIL 156


>gi|119953150|ref|YP_945359.1| CarD-like transcriptional regulator [Borrelia turicatae 91E135]
 gi|119861921|gb|AAX17689.1| CarD-like transcriptional regulator [Borrelia turicatae 91E135]
          Length = 161

 Score =  147 bits (371), Expect = 9e-34,   Method: Composition-based stats.
 Identities = 44/171 (25%), Positives = 74/171 (43%), Gaps = 18/171 (10%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R 
Sbjct: 1   MAFVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVSRADDLGIRA 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSG--------DLIAIAEVVRDLH 123
           L     VE    +++              Q    KI  G        D+++ A++ + L+
Sbjct: 61  LVSKEKVEEVFNIIKDFEE----------QIDQKKIKDGSHDFYKQSDILSTAKLYKFLY 110

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
               Q E  + E+++       +  EI+    IS  EA   I+  LS   S
Sbjct: 111 TKSMQKELPFYEKRILNDFELILQHEISLALQISFEEAKQKIKEVLSMGKS 161


>gi|225552173|ref|ZP_03773113.1| putative transcription factor [Borrelia sp. SV1]
 gi|225371171|gb|EEH00601.1| putative transcription factor [Borrelia sp. SV1]
          Length = 162

 Score =  146 bits (370), Expect = 1e-33,   Method: Composition-based stats.
 Identities = 41/159 (25%), Positives = 74/159 (46%), Gaps = 4/159 (2%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP HGVGTI +I+ +E  G  ++++ I F  + M   VPV K  D G+R 
Sbjct: 1   MAFLLNQSVVYPMHGVGTIKDIRTKEFNGEIIDYYEIHFPFNDMIFMVPVAKVDDFGIRA 60

Query: 72  LSEAHFVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           L     VE    +++  + ++          E+  K    D++  A++ + L++  +Q E
Sbjct: 61  LVSKEKVEEVFDVIKEFEGQIDSKKIKDGGHEFYKK---SDILDTAKLYKFLYKKSTQKE 117

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
             + E+++       +  EI+    IS  E    I+  L
Sbjct: 118 LPFYEKRILNDFELILEHEISLALQISFEEVKKKIKNIL 156


>gi|203284271|ref|YP_002222011.1| transcription factor, putative [Borrelia duttonii Ly]
 gi|201083714|gb|ACH93305.1| transcription factor, putative [Borrelia duttonii Ly]
          Length = 161

 Score =  145 bits (367), Expect = 2e-33,   Method: Composition-based stats.
 Identities = 43/167 (25%), Positives = 72/167 (43%), Gaps = 18/167 (10%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R 
Sbjct: 1   MSFVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVARAADLGIRA 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSG--------DLIAIAEVVRDLH 123
           L     VE    +++              Q    KI  G        D+++ A++ + L+
Sbjct: 61  LVSKEKVEEVFDIIKDFEG----------QIDQKKIKDGSHDFYKQSDILSTAKLYKFLY 110

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
               Q E  + E+++       +  EI+    IS  EA   I   LS
Sbjct: 111 VKSMQKELPFYEKRILNDFELILQHEISLALQISFEEAKEKIREVLS 157


>gi|203287808|ref|YP_002222823.1| transcription factor, putative [Borrelia recurrentis A1]
 gi|201085028|gb|ACH94602.1| transcription factor, putative [Borrelia recurrentis A1]
          Length = 164

 Score =  145 bits (367), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 43/171 (25%), Positives = 73/171 (42%), Gaps = 18/171 (10%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F   + +VYP  GVG I  I+ +E  G  ++++ I F  ++M   VPV +A D+G+R 
Sbjct: 1   MSFVLDQAVVYPMQGVGKIKNIQNKEFNGEFIDYYEIYFPFNEMTFMVPVARAADLGIRA 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSG--------DLIAIAEVVRDLH 123
           L     VE    +++              Q    KI  G        D+++ A++ + L+
Sbjct: 61  LVSKEKVEEVFDIIKDFEG----------QIDQKKIKDGSHDFYKQSDILSTAKLYKFLY 110

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
               Q E  + E+++       +  EI+    IS  EA   I   LS   +
Sbjct: 111 VKSMQKELPFYEKRILNDFELILQHEISLALQISFEEAKEKIREVLSGGQA 161


>gi|55980137|ref|YP_143434.1| hypothetical protein TTHA0168 [Thermus thermophilus HB8]
 gi|55771550|dbj|BAD69991.1| conserved hypothetical protein [Thermus thermophilus HB8]
          Length = 164

 Score =  145 bits (367), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 37/156 (23%), Positives = 69/156 (44%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + FR G+ +V P +GVG +  I ++ V+G+   ++ + F   +    VPV     +G+RK
Sbjct: 2   KEFRPGDKVVLPPYGVGVVAGIAQRSVSGVSRAYYQVDFPGSRSKAYVPVEAPHSVGLRK 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 V   L L++         W+ R ++    +  G+   IA++   L   + +   
Sbjct: 62  ALAPEEVPVILDLLKNGRMPLPKQWAARHRKTSEILADGNPYRIAQMAGQLRAWEVERGL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              +RQ    A++ +  E+A    I+  EA  L E 
Sbjct: 122 PDLDRQALRRAIHLLAEEVAQSLEITVQEAKRLFEE 157


>gi|46200120|ref|YP_005787.1| transcriptional regulator [Thermus thermophilus HB27]
 gi|46197748|gb|AAS82160.1| transcriptional regulator [Thermus thermophilus HB27]
          Length = 164

 Score =  145 bits (366), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 37/156 (23%), Positives = 69/156 (44%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + FR G+ +V P +GVG +  I ++ V+G+   ++ + F   +    VPV     +G+RK
Sbjct: 2   KEFRPGDKVVLPPYGVGVVAGIAQRSVSGVSRAYYQVDFPGSRSKAYVPVEAPHSVGLRK 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 V   L L++         W+ R ++    +  G+   IA++   L   + +   
Sbjct: 62  ALAPEEVPVILDLLKNGRMPLPKQWAARHRKTSEILAEGNPYRIAQMAGQLRAWEVERGL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              +RQ    A++ +  E+A    I+  EA  L E 
Sbjct: 122 PDLDRQALRRAIHLLAEEVAQSLEITVQEAKRLFEE 157


>gi|313679234|ref|YP_004056973.1| CarD family transcriptional regulator [Oceanithermus profundus DSM
           14977]
 gi|313151949|gb|ADR35800.1| transcriptional regulator, CarD family [Oceanithermus profundus DSM
           14977]
          Length = 164

 Score =  145 bits (366), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 36/156 (23%), Positives = 70/156 (44%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + +R G+ +V P +GVG +  I ++ VAG+   ++ + F   +    VPV     +G+R 
Sbjct: 2   KEYRPGDKVVLPPYGVGVVAGIAQRTVAGIGRSYYQVEFPGSRSKAFVPVESPQQVGLRP 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 V + L+ ++         W+ R +     ++ G+   IA +   L R D++   
Sbjct: 62  ALTRDEVPQILEHLKHGQLPLPKQWAARHRRVTEILSEGNPHRIAILAGQLRRWDAERGL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              +RQ +  A+N +  E+A    I+  E   + E 
Sbjct: 122 PDLDRQAFRRAINLLAEEVAQALEITVSETRVVFEE 157


>gi|291294864|ref|YP_003506262.1| CarD family transcriptional regulator [Meiothermus ruber DSM 1279]
 gi|290469823|gb|ADD27242.1| transcriptional regulator, CarD family [Meiothermus ruber DSM 1279]
          Length = 164

 Score =  144 bits (364), Expect = 5e-33,   Method: Composition-based stats.
 Identities = 37/159 (23%), Positives = 66/159 (41%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           +R G+ +V P +GVG +  I ++ VAG    ++ + F   +    VPV       +R+  
Sbjct: 4   YRPGDKVVLPPYGVGVVAGIAQRSVAGSDRAYYQVDFPGTRSKAYVPVEAPQTTRLRRAL 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               V   L L++         W+ R ++    +  GD   IA +   L   + +     
Sbjct: 64  SPDQVNEILALLQEGRLPLPRQWAARHRKTTEILADGDPFRIATLAGQLRAWELEKGLPD 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            +RQ    A++ +  EI+ V  I+  EA  L E  +   
Sbjct: 124 LDRQALRRAMHLLAEEISQVLEITLDEARKLFEEAVGES 162


>gi|218294627|ref|ZP_03495481.1| transcriptional regulator, CarD family [Thermus aquaticus Y51MC23]
 gi|218244535|gb|EED11059.1| transcriptional regulator, CarD family [Thermus aquaticus Y51MC23]
          Length = 164

 Score =  144 bits (364), Expect = 5e-33,   Method: Composition-based stats.
 Identities = 36/156 (23%), Positives = 68/156 (43%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + FR G+ +V P +GVG +  I ++ ++G+   ++ + F   +    VPV     +GMRK
Sbjct: 2   KEFRPGDKVVLPPYGVGVVAGIAQRSISGVSRAYYQVDFPGSRSKAYVPVEAPQSVGMRK 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 V   L L++         W+ R ++    +  G+   IA++   L   + +   
Sbjct: 62  ALSPEEVPVILDLLKNGRMPLPKQWAARHRKTSEILADGNPYRIAQMAGQLRAWELERGL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              +RQ    A+  +  E++    I+  EA  L E 
Sbjct: 122 PDLDRQALRRAICLLAEEVSQTLEITVQEAKRLFEE 157


>gi|320449429|ref|YP_004201525.1| transcriptional regulator [Thermus scotoductus SA-01]
 gi|320149598|gb|ADW20976.1| transcriptional regulator [Thermus scotoductus SA-01]
          Length = 164

 Score =  142 bits (360), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 37/156 (23%), Positives = 68/156 (43%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + FR G+ +V P +GVG +  I ++ V+G+   ++ + F   +    VPV     +GMRK
Sbjct: 2   KEFRPGDKVVLPPYGVGVVAGIAQRSVSGISRAYYQVDFPGSRSKAYVPVEAPQSVGMRK 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 V   L L++         W+ R ++    +  G+   IA++   L   + +   
Sbjct: 62  ALAPEEVPVILDLLKNGRMPLPKQWAARHRKTSEILADGNPYRIAQMAGQLRAWELERGL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              +RQ    A+  +  E++    I+  EA  L E 
Sbjct: 122 PDLDRQALRRAIYLLAEEVSQTLEITVQEAKRLFEE 157


>gi|149919813|ref|ZP_01908290.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
 gi|149819420|gb|EDM78851.1| transcriptional regulator, CarD family protein [Plesiocystis
           pacifica SIR-1]
          Length = 125

 Score =  140 bits (353), Expect = 9e-32,   Method: Composition-based stats.
 Identities = 39/120 (32%), Positives = 62/120 (51%), Gaps = 1/120 (0%)

Query: 48  IAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAK 106
           +      M L VP+  A  +G+R L     VE   +++R +  ++    W+RR +EY  K
Sbjct: 2   LRVLGKDMTLMVPMSNADSVGLRNLITNEQVEEVYEVLRKRGEKISTATWNRRHREYMDK 61

Query: 107 INSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
           I +G L  IA V+RDL+      + SY ER + E+A   +++E+A V   +E E    IE
Sbjct: 62  IRTGSLAKIATVLRDLYLLRGDKDLSYGERNMLETARALLIQELALVKEKTEDEVEKEIE 121


>gi|313680694|ref|YP_004058433.1| CarD family transcriptional regulator [Oceanithermus profundus DSM
           14977]
 gi|313153409|gb|ADR37260.1| transcriptional regulator, CarD family [Oceanithermus profundus DSM
           14977]
          Length = 167

 Score =  139 bits (352), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 44/166 (26%), Positives = 77/166 (46%), Gaps = 1/166 (0%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
              GF  G+ +VYPA G G I EI E+EV G +  ++VI   +    + VPV KA  +G+
Sbjct: 2   AAMGFNVGDPVVYPAQGGGYIREIAEREVMGERNTYYVIELLRKPGTIMVPVEKAERLGL 61

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R        +  ++ + G+AR   + W  R +E    ++  D + +A ++  LHR     
Sbjct: 62  RPPLAGADRDALVRAL-GEARDLASGWPARQREIGRALSESDPLELARMLASLHRRHQLR 120

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
             S +E Q Y   +  +  E+A   +     A   +   L++ + +
Sbjct: 121 PLSGTEHQQYRELVGILSEELALAENGDLQAAEAYLTERLNALADE 166


>gi|4154037|emb|CAA22685.1| putative transcriptional regulator [Mycobacterium leprae]
          Length = 94

 Score =  139 bits (352), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 47/94 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
             F+ G+ +VYP HG   +  I+ + + G + E+ V+   +  + ++VP   A  +G+R 
Sbjct: 1   MIFKVGDTVVYPHHGAALVEAIETRTINGEQKEYLVLKVAQGDLTVRVPAENAEYVGVRD 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDA 105
           +     +++  +++R     + T WSRR +    
Sbjct: 61  VVGQEGLDQVFQVLRAPHTEEPTNWSRRYKANLE 94


>gi|326792245|ref|YP_004310066.1| CarD family transcriptional regulator [Clostridium lentocellum DSM
           5427]
 gi|326543009|gb|ADZ84868.1| transcriptional regulator, CarD family [Clostridium lentocellum DSM
           5427]
          Length = 160

 Score =  139 bits (351), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 34/160 (21%), Positives = 67/160 (41%), Gaps = 2/160 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +  P  G G +  I+E+++     E+ +I        + +P  K      R +
Sbjct: 1   MFKVGDKVFCPLRGAGIVATIEERKMLDETKEYIIIKLQSSNTTVMIPTDKVEASHFRFV 60

Query: 73  SEAHFVERALKLVRGKARV--KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           S+       L+ +  K       T+  +R +    ++ +G L    EV+R+L        
Sbjct: 61  SDETMTNEVLEKLADKETEIHASTVLKQRMKVNKERLMAGSLADYGEVIRELTHIQRGKA 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            + SE  +   A   +  E++ + SIS  EA  L++  L+
Sbjct: 121 LNASENAMLMEARKFLADELSLIKSISMKEATKLLDKVLA 160


>gi|2393788|gb|AAC45647.1| OrfC [Bacillus subtilis]
          Length = 116

 Score =  139 bits (350), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 23/115 (20%), Positives = 55/115 (47%)

Query: 50  FDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS 109
                M + +P  K +   +R +++   ++  + + +     +   W +R +    KI +
Sbjct: 1   MSISNMTVMIPTSKILSSNIRPVTDILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKT 60

Query: 110 GDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           G++   AEVVRDL R   +   + SE+++ ++A   ++ E+  +  I+E +  + 
Sbjct: 61  GEIQEGAEVVRDLMRMKKEKALNASEKKMLDNAYEFLISELEVIKGITEKQIKSF 115


>gi|160946835|ref|ZP_02094038.1| hypothetical protein PEPMIC_00794 [Parvimonas micra ATCC 33270]
 gi|158447219|gb|EDP24214.1| hypothetical protein PEPMIC_00794 [Parvimonas micra ATCC 33270]
          Length = 159

 Score =  134 bits (337), Expect = 8e-30,   Method: Composition-based stats.
 Identities = 34/156 (21%), Positives = 66/156 (42%), Gaps = 1/156 (0%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIGMRKLSE 74
            GE I YP HG G I  I+++++      F+VI    +  + + +          RKL  
Sbjct: 3   VGEKIFYPMHGAGLIKSIEDKDLGDYCERFYVIELPFEQNLHIFIKEDDIDKFEFRKLVN 62

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              ++     +  +       W +R +E   ++ S D+  IA V++ L   + + + S  
Sbjct: 63  EDTLDEVYNYLNNEEFPMPNNWVQRYKENTKRLKSSDIFNIAYVLKGLSIRNEKGKLSLK 122

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           E  +   A   +V E   V+  S+ +   +IE ++ 
Sbjct: 123 ELFMLNLAKRILVSEFVMVSGFSKNKINKIIEYSME 158


>gi|320333642|ref|YP_004170353.1| CarD family transcriptional regulator [Deinococcus maricopensis DSM
           21211]
 gi|319754931|gb|ADV66688.1| transcriptional regulator, CarD family [Deinococcus maricopensis
           DSM 21211]
          Length = 165

 Score =  133 bits (336), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 33/154 (21%), Positives = 65/154 (42%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +V P +G+G ++    + VAG    ++ + F        VPV   +  GMR   
Sbjct: 4   FSKGDRVVLPPYGIGVVSGTCTRPVAGTPHAYYQVEFPNTTSRAFVPVDAPMTAGMRPAL 63

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
               +   L+ ++         W+ R ++    + SGD   +A +  +L R + +     
Sbjct: 64  TGEDMPALLERLQEGQLNLPRQWAARHRKVTEILVSGDPFELATLACELRRWNVERGLPD 123

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
            +RQ Y  AL  + +E+  +N        +L++ 
Sbjct: 124 LDRQAYRRALKLLNQEVHDLNENDAFHVRSLLDT 157


>gi|255527262|ref|ZP_05394143.1| transcriptional regulator, CarD family [Clostridium carboxidivorans
           P7]
 gi|296187241|ref|ZP_06855637.1| CarD-like transcriptional regulator [Clostridium carboxidivorans
           P7]
 gi|255509047|gb|EET85406.1| transcriptional regulator, CarD family [Clostridium carboxidivorans
           P7]
 gi|296048112|gb|EFG87550.1| CarD-like transcriptional regulator [Clostridium carboxidivorans
           P7]
          Length = 158

 Score =  131 bits (330), Expect = 4e-29,   Method: Composition-based stats.
 Identities = 34/148 (22%), Positives = 74/148 (50%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHF 77
           + +  P +G G +T++++ +   +  ++  I    D + L +P  + +D  +R ++    
Sbjct: 6   QKVFVPNYGAGIMTKVEDSKSYDVNKKYVNIFILIDNINLYIPEDRLLDYRIRNITSKEN 65

Query: 78  VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQ 137
           +++A  +++ K +     WS+R ++ + KI  GD   + EV+RDL+   S+      ER+
Sbjct: 66  LDKAFDIIKSKPQTIEKKWSKRYKKNNDKIKEGDFFQMCEVIRDLYYLKSKGTIPPGERR 125

Query: 138 LYESALNRMVREIAAVNSISEPEAINLI 165
           + +   N +  EIA +  I    A+  I
Sbjct: 126 ILDKVENMVGSEIALLLGIKIEAALGEI 153


>gi|226354827|ref|YP_002784567.1| CarD family transcriptional regulator [Deinococcus deserti VCD115]
 gi|226316817|gb|ACO44813.1| putative Transcriptional regulator, CarD family [Deinococcus
           deserti VCD115]
          Length = 178

 Score =  131 bits (329), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 29/161 (18%), Positives = 65/161 (40%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F+ G+ +V P +G+G +    E+ VAG    ++ + F        VPV      G+R+ 
Sbjct: 5   AFQIGDRVVLPPYGIGVVCGTCERPVAGQAHAYYQVEFPATASRAYVPVADPACTGIRRA 64

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
                +   L  +          WS R +  +  +  G    +A +  +L R + Q    
Sbjct: 65  LNDQDLPDLLNQLCHGELELPRQWSARHRVVNDILAGGKPYELAALTCELRRWNMQRGLP 124

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             +RQ +  A+  + +E++ + +    +  + ++   + + 
Sbjct: 125 DLDRQAFRRAIRLLEQEVSDLRNHLARQIEDFLQEVWNEQP 165


>gi|229917522|ref|YP_002886168.1| CarD family transcriptional regulator [Exiguobacterium sp. AT1b]
 gi|229468951|gb|ACQ70723.1| transcriptional regulator, CarD family [Exiguobacterium sp. AT1b]
          Length = 172

 Score =  130 bits (327), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 41/164 (25%), Positives = 75/164 (45%), Gaps = 8/164 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD--KMCLKVPVGKAIDIGMR 70
            F+TG+ I+Y  HGV  I +I ++ VAG    ++ +    +  K+ + +PV    ++ M 
Sbjct: 1   MFKTGDLIIYSTHGVCRIDDISDKTVAGETKSYYTLHPINNSQKLQISIPVDN-DNVMML 59

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-- 128
            L EA      L+  R          + R +E+   ++SG+   IA+VV  L R   +  
Sbjct: 60  TLLEADEASEILESFRSPGVEWNPHSNNRNREFLNVVHSGNRHEIAQVVNTLSRRQIEAL 119

Query: 129 ---PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
               +    +R++ E+A   +V+E++     SE +    I   L
Sbjct: 120 QANKKLYEQDRKILENAKTILVKELSLALERSESDIERTIGEYL 163


>gi|182419889|ref|ZP_02951127.1| transcriptional regulator, CarD family [Clostridium butyricum 5521]
 gi|237669021|ref|ZP_04529005.1| transcriptional regulator, CarD family [Clostridium butyricum E4
           str. BoNT E BL5262]
 gi|182376258|gb|EDT73842.1| transcriptional regulator, CarD family [Clostridium butyricum 5521]
 gi|237657369|gb|EEP54925.1| transcriptional regulator, CarD family [Clostridium butyricum E4
           str. BoNT E BL5262]
          Length = 165

 Score =  129 bits (325), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 41/162 (25%), Positives = 81/162 (50%), Gaps = 4/162 (2%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +VYP  GVG I  I+E+E  G K +++ I    + M L +P+ +     MR +S
Sbjct: 4   FDIGDKVVYPNQGVGVIDLIEEKEFKGKKEKYYKIHLINNTMKLSLPLSRVKSANMRHIS 63

Query: 74  EAHFVERALKLV----RGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           ++  ++  L  +    +   ++ +T +  R + Y  K+ SG L    E++ +L    +  
Sbjct: 64  DSKTLDSKLNNIKYYVKEVDKLAKTNYKERNEIYSTKVKSGTLEDFLEIISNLTELKTIH 123

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           + +  E+ +  +    ++ EIA    IS  EA  L+++ ++S
Sbjct: 124 DLNSMEKTILRNTKRILIDEIAQSKKISLDEAGYLLDIFMNS 165


>gi|297567462|ref|YP_003686434.1| CarD family transcriptional regulator [Meiothermus silvanus DSM
           9946]
 gi|296851911|gb|ADH64926.1| transcriptional regulator, CarD family [Meiothermus silvanus DSM
           9946]
          Length = 164

 Score =  123 bits (310), Expect = 9e-27,   Method: Composition-based stats.
 Identities = 34/156 (21%), Positives = 67/156 (42%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           + +R G+ +V P +GVG +  I ++ ++G +  ++ + F   +    VPV       MR 
Sbjct: 2   KEYRPGDKVVLPPYGVGVVASIMQRTISGNQRAYYQVEFPNTRSKAYVPVESPQSARMRP 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                 +E  L+L+R         W+ R ++    +  GD   IA +   L   + +   
Sbjct: 62  ALCREEIEEILELLRNGRLSLPRQWAARHRKTSEILAEGDPYRIATLAGQLRAWELERGL 121

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              +RQ +  A++ +  E+     +S  EA  + E 
Sbjct: 122 PDLDRQAFRRAIHLLAEEVCQAMEVSLEEARAMFEN 157


>gi|94984278|ref|YP_603642.1| CarD family transcriptional regulator [Deinococcus geothermalis DSM
           11300]
 gi|94554559|gb|ABF44473.1| transcriptional regulator, CarD family [Deinococcus geothermalis
           DSM 11300]
          Length = 167

 Score =  122 bits (307), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 33/167 (19%), Positives = 70/167 (41%), Gaps = 2/167 (1%)

Query: 10  MRQGF-RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           M++ F RTG+ +V P +G+G ++   ++ VAG    ++ + F        VPV      G
Sbjct: 1   MKRAFFRTGDRVVLPPYGIGVVSGTCQRPVAGSIQVYYQVDFPNTASRAFVPVDAPQSTG 60

Query: 69  MRKLSEAHFVERALKLVRGKARVK-RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           +R    A  +   L+ ++    +     W+ R +     +  GD   IA +  +L R + 
Sbjct: 61  LRAALTAADMPGLLQRLQSSQTLNLPRQWAARHRRVTEILVGGDPYEIATLTCELRRWNM 120

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           +      +RQ +  A+  + +E+  +      +   L+    +   +
Sbjct: 121 ERGLPDLDRQAFRRAIRLLEQEVRGLEDPCAQDVQRLLNHVWNETPN 167


>gi|257068130|ref|YP_003154385.1| CarD-like transcriptional regulator [Brachybacterium faecium DSM
           4810]
 gi|256558948|gb|ACU84795.1| CarD-like transcriptional regulator [Brachybacterium faecium DSM
           4810]
          Length = 179

 Score =  120 bits (301), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 37/155 (23%), Positives = 68/155 (43%), Gaps = 2/155 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ + +P HG   I     + V G + E+  +    D+M + VP      +G+R L  
Sbjct: 14  KVGDVLTHPVHGPVRIVSTCTRTVRGTEREYVDLEVIGDEMRISVPSDGRDVVGLRTLLA 73

Query: 75  AHFVERALKLVRGKARV--KRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
              +   +  +        K+  W+ R +    ++ +G L    EV+R + R       S
Sbjct: 74  EPEIVEMITQLGAPIEAPGKKASWAHRIKSLQMQLQTGRLTDRVEVIRAIVRDSGGTPSS 133

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
            +ER L + A++ +  EIA   S+S  EA  L++ 
Sbjct: 134 LAERNLLKQAIDPLASEIAIARSVSREEAHELLQS 168


>gi|320335300|ref|YP_004172011.1| CarD family transcriptional regulator [Deinococcus maricopensis DSM
           21211]
 gi|319756589|gb|ADV68346.1| transcriptional regulator, CarD family [Deinococcus maricopensis
           DSM 21211]
          Length = 168

 Score =  117 bits (293), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 32/141 (22%), Positives = 60/141 (42%), Gaps = 1/141 (0%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +VYP HG G +  + E+ V G+K  ++ +        + VPV +A D+G+R+ + 
Sbjct: 8   REGDSVVYPNHGAGVVRALTERTVLGVKQAYYEVHLFGKDAQVLVPVARARDLGLRRATR 67

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              V   L  +     +  + +  R +     + + DL+ +  +V  L R D       S
Sbjct: 68  REDVPNLLAELSTDIPLPES-FQARYRAEQELLQAADLVTLTRLVGTLVRRDVTRGLPSS 126

Query: 135 ERQLYESALNRMVREIAAVNS 155
           E  +   A   +  E+     
Sbjct: 127 EMDVLMHARKTLEAELEVALG 147


>gi|255655277|ref|ZP_05400686.1| putative regulatory protein [Clostridium difficile QCD-23m63]
 gi|296451261|ref|ZP_06893001.1| probable regulatory protein [Clostridium difficile NAP08]
 gi|296880387|ref|ZP_06904350.1| probable regulatory protein [Clostridium difficile NAP07]
 gi|296259867|gb|EFH06722.1| probable regulatory protein [Clostridium difficile NAP08]
 gi|296428628|gb|EFH14512.1| probable regulatory protein [Clostridium difficile NAP07]
          Length = 165

 Score =  116 bits (290), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 32/164 (19%), Positives = 78/164 (47%), Gaps = 2/164 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            ++ GE ++YP  G   + +I  +++     +++ ++      + + +PV  A  IG+R 
Sbjct: 1   MYKIGESVMYPKEGACCVNDIVTKKINHQMQKYYELSVIFNSNLKISIPVLNADRIGIRP 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + + + V++ ++ +     V      +R + Y  K +SGD+  I ++++ L   D   + 
Sbjct: 61  VMDGNDVDKFIQSIDKTDGVWVFDRKQRLKLYHDKFHSGDVFEIVKLIKMLMIQDCSKQL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN-LSSKSS 174
             ++++    A    + E+AA    S    +  ++ + L+SKS 
Sbjct: 121 CSTDKEFLNKAQRFALSELAAAQCKSYTVVLEEMKKHILNSKSK 164


>gi|126698862|ref|YP_001087759.1| putative regulatory protein [Clostridium difficile 630]
 gi|255100283|ref|ZP_05329260.1| putative regulatory protein [Clostridium difficile QCD-63q42]
 gi|255306222|ref|ZP_05350394.1| putative regulatory protein [Clostridium difficile ATCC 43255]
 gi|115250299|emb|CAJ68121.1| Transcriptional regulator, CarD family [Clostridium difficile]
          Length = 165

 Score =  114 bits (286), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 32/162 (19%), Positives = 77/162 (47%), Gaps = 2/162 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            ++ GE ++YP  G  ++ +I  +++     +++ ++      + + +PV  A  IG+R 
Sbjct: 1   MYKIGESVMYPKEGACSVNDIVTKKINHEMQKYYELSVIFNSNLKISIPVLNADRIGIRP 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + + + V+  ++ +     V       R + Y  K +SGD+  I ++++ L   DS  + 
Sbjct: 61  VMDGNDVDNFIQSINKTDGVWIFDRKERLKLYQDKFHSGDVFEIVKLIKMLMIQDSSKQL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN-LSSK 172
             ++++    A    + E+AA    S    +  ++ + L+SK
Sbjct: 121 CSTDKEFLNKAQKFALSELAAAQCKSYTMVLEEMKKHILNSK 162


>gi|254974810|ref|ZP_05271282.1| putative regulatory protein [Clostridium difficile QCD-66c26]
 gi|255092198|ref|ZP_05321676.1| putative regulatory protein [Clostridium difficile CIP 107932]
 gi|255313937|ref|ZP_05355520.1| putative regulatory protein [Clostridium difficile QCD-76w55]
 gi|255516617|ref|ZP_05384293.1| putative regulatory protein [Clostridium difficile QCD-97b34]
 gi|255649717|ref|ZP_05396619.1| putative regulatory protein [Clostridium difficile QCD-37x79]
 gi|260682872|ref|YP_003214157.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260686470|ref|YP_003217603.1| putative regulatory protein [Clostridium difficile R20291]
 gi|306519829|ref|ZP_07406176.1| putative regulatory protein [Clostridium difficile QCD-32g58]
 gi|260209035|emb|CBA62142.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260212486|emb|CBE03403.1| putative regulatory protein [Clostridium difficile R20291]
          Length = 165

 Score =  112 bits (282), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 31/162 (19%), Positives = 76/162 (46%), Gaps = 2/162 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD-KMCLKVPVGKAIDIGMRK 71
            ++ GE ++YP  G   I+ +  +++     +++ +    +  + + +PV  A  IG+R 
Sbjct: 1   MYKIGESVMYPKEGACYISGLVTKDINHHIQKYYELTVIYNSNLKISIPVLNADKIGVRP 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           + + + VE  ++ +     +      +R + Y  K +SGD+  I ++++ L   D+  + 
Sbjct: 61  IMDENEVENFIQSLDKVDCLWVFDRKKRLKLYHDKFHSGDVFEIVKLIKMLMIQDNSKQL 120

Query: 132 SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN-LSSK 172
             +++     A    + E+AA    S    +  ++ + L+SK
Sbjct: 121 CSTDKDFLNKAQRFALSELAAAQCKSYTIVLEEMKNHILNSK 162


>gi|15807459|ref|NP_296192.1| hypothetical protein DR_2472 [Deinococcus radiodurans R1]
 gi|6460292|gb|AAF12015.1|AE002076_7 conserved hypothetical protein [Deinococcus radiodurans R1]
          Length = 169

 Score =  105 bits (263), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 29/167 (17%), Positives = 70/167 (41%), Gaps = 4/167 (2%)

Query: 9   AMRQ-GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +M+Q  FR G+ +V P +G+G ++   +   +G    ++ + F +      VP       
Sbjct: 3   SMKQTAFRPGDRVVLPPYGLGIVSGTCQHTRSGEGCWYYQVDFPESGHLALVPTHSPDQA 62

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           G+R       +    + +           S R ++ +  +  G    +A ++ +L+R   
Sbjct: 63  GLRPALRQRELRALRQALERGQLELARQCSSRQRQVNEVLRLGQPTQLALLIAELYRWQR 122

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           Q      +RQ    A+  + +E++    + + +A+ + +  L + +S
Sbjct: 123 QRPLPDLDRQALRQAIRLLQQEVS---GLEDSQALAIRDFLLRATAS 166


>gi|317055208|ref|YP_004103675.1| CarD family transcriptional regulator [Ruminococcus albus 7]
 gi|315447477|gb|ADU21041.1| transcriptional regulator, CarD family [Ruminococcus albus 7]
          Length = 165

 Score = 94.8 bits (235), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 28/165 (16%), Positives = 69/165 (41%), Gaps = 7/165 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL-KVPVGKAIDIG-MR 70
            ++TG+ ++Y   G+  +  ++++++ G + E++++        +  VPV     +G M 
Sbjct: 1   MYKTGDVVMYGTSGICRVAAVEKRDLTGEEQEYYILRNIYSDKNIYYVPVNNEAALGRMH 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-- 128
            +     V+  +  +  +  +     ++R +EY   I   D   I  +++ L+    +  
Sbjct: 61  PVCTKSEVDELISHMNSEGLIWIDNDNKRKEEYSRIIKDADKHEIIRLIKTLYLRRRELS 120

Query: 129 ---PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
                   S+      A + +  E A    I   E ++ IE +L+
Sbjct: 121 ENGRRLRSSDENYLGIAEDMLFEEFAYALGIDRCEVVDYIEKHLA 165


>gi|86450984|gb|ABC96759.1| transcriptional regulator CarD family [Rhizobium leguminosarum bv.
           trifolii TA1]
          Length = 86

 Score = 94.0 bits (233), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 57/86 (66%), Positives = 70/86 (81%), Gaps = 3/86 (3%)

Query: 105 AKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINL 164
           AKINSGDLI+IAEVVRDL+R ++QPE+SYSERQLYE+AL+RM REIAAVN +SE EA+ L
Sbjct: 2   AKINSGDLISIAEVVRDLYRAENQPEQSYSERQLYEAALDRMAREIAAVNKMSETEAVRL 61

Query: 165 IEVNLSSKSSKTEKSTSEN--QDKAA 188
            E NL+ K  K  K+  E+  QD+AA
Sbjct: 62  DETNLN-KGPKRGKAIEEDDSQDEAA 86


>gi|169335625|ref|ZP_02862818.1| hypothetical protein ANASTE_02045 [Anaerofustis stercorihominis DSM
           17244]
 gi|169258363|gb|EDS72329.1| hypothetical protein ANASTE_02045 [Anaerofustis stercorihominis DSM
           17244]
          Length = 170

 Score = 92.9 bits (230), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 39/164 (23%), Positives = 71/164 (43%), Gaps = 7/164 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAID-IGMR 70
            ++  E I+Y   GV  I+EI E+   G K +++++    K+ M + VPV        MR
Sbjct: 1   MYKVDEIILYDTEGVCRISEITEKTFGGKKQKYYILNTVSKNSMTIYVPVDNEKQTSKMR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-- 128
           K+  +  + + ++ +  +  +       R + Y   I SGD   + +++R LH    Q  
Sbjct: 61  KILSSDEIYKLIRNMPNEDLIWIENDGERKETYKQIIQSGDRRGLIKIIRTLHFQKEQLT 120

Query: 129 ---PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
               +   S+ Q  +SA   +  E + V  I   + I  I   L
Sbjct: 121 KQGKKLHMSDEQFMKSAQKILHEEFSHVLKIEPNQVIPFIVNEL 164


>gi|268608669|ref|ZP_06142396.1| transcriptional regulator, CarD family protein [Ruminococcus
           flavefaciens FD-1]
          Length = 165

 Score = 92.1 bits (228), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 28/165 (16%), Positives = 71/165 (43%), Gaps = 7/165 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAID-IGMR 70
            + TG+ ++Y + G+  +T I+++++ G + E++++   + +K    VP+        M 
Sbjct: 1   MYSTGDIVMYGSFGICKVTAIEKRDLTGEEQEYYILKHINSEKNIFYVPINNVTALSKMH 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-- 128
            +     V+  +  +  +  +      +R +EY   I   D+  I  +++ L+    +  
Sbjct: 61  PICSKAEVDELISHMDSEELIWIDNDIKRKEEYSRIIKDADIHEIIRLIKTLYLRRKELA 120

Query: 129 ---PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
               +   ++      A N +  E A    I + E +  IE +++
Sbjct: 121 VSGKKLRSTDENYLSLAENMLFEEFAYALDIDKSEVVEYIEKHIA 165


>gi|167754859|ref|ZP_02426986.1| hypothetical protein CLORAM_00363 [Clostridium ramosum DSM 1402]
 gi|237735409|ref|ZP_04565890.1| transcriptional regulator [Mollicutes bacterium D7]
 gi|167704909|gb|EDS19488.1| hypothetical protein CLORAM_00363 [Clostridium ramosum DSM 1402]
 gi|229381154|gb|EEO31245.1| transcriptional regulator [Coprobacillus sp. D7]
          Length = 166

 Score = 89.0 bits (220), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 67/163 (41%), Gaps = 6/163 (3%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID-IGMRK 71
            ++ G+ ++Y   GV  I +I  +++  +  +++ +    D + + VP         MRK
Sbjct: 1   MYKIGDTVLYGREGVCKIKDIVTRKLNNIDKQYYFLTPLDDHITILVPTDNEEALSKMRK 60

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +     +   +K +     +     + R Q+Y+  IN G+   + ++ + L+    + EK
Sbjct: 61  VLSKKDIYELIKTMPDNETIWINDKNIRKQKYNDIINHGNHEQLVKLTKTLYLNKQKQEK 120

Query: 132 SY-----SERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           +       ++   ++A   +  E     ++   + +  I   L
Sbjct: 121 AGKKFHVQDQHFLQTAEKMLYDEFCHTLNLKPEQILPFILETL 163


>gi|323488890|ref|ZP_08094129.1| transcriptional regulator, CarD family protein [Planococcus
           donghaensis MPA1U2]
 gi|323397453|gb|EGA90260.1| transcriptional regulator, CarD family protein [Planococcus
           donghaensis MPA1U2]
          Length = 169

 Score = 87.9 bits (217), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 36/169 (21%), Positives = 72/169 (42%), Gaps = 9/169 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-CLKVPVGKAIDIGMRK 71
            F  G+HI+Y  HG+  I +I +  V+ +  +++ +   ++ +  +  PV     + M K
Sbjct: 1   MFAIGDHIIYSTHGLCKINDIYDMTVSEVTKKYYQLQPLENTLVTISTPVDN-DKVVMLK 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT----DS 127
           L +       +++ +          + +AQ    KI SGD + IA V+  L R       
Sbjct: 60  LLQREEALAIIEVFKQPETESEVPQNLKAQ--PKKIQSGDRMQIAGVINGLLRKKFDTQI 117

Query: 128 QPEKSYS-ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
           Q E  Y  +  L  +    + +E+A   + S  E   +I   ++ +  +
Sbjct: 118 QKESLYEHDYNLLNNTQIILFKELAHALNTSFEEINKMINDLITDEQPQ 166


>gi|319937742|ref|ZP_08012145.1| hypothetical protein HMPREF9488_02981 [Coprobacillus sp. 29_1]
 gi|319807177|gb|EFW03791.1| hypothetical protein HMPREF9488_02981 [Coprobacillus sp. 29_1]
          Length = 169

 Score = 86.7 bits (214), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 23/160 (14%), Positives = 71/160 (44%), Gaps = 7/160 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIG-MR 70
            ++  + +VY   GV  IT++ ++  A   +E++V+     +   + +P+     +  ++
Sbjct: 1   MYKINDMVVYGNEGVCKITDLTKRSFANKVVEYYVLKPVYNEHSIVYIPIDNEELVSKIK 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-- 128
           ++     +   ++ +  +        ++R ++Y   I SG+   + +++R L+    +  
Sbjct: 61  RILSVEDIHELIRTLPNEDYCWIENDNQRKEKYREIIKSGNRKELMKMIRTLYLYQQELK 120

Query: 129 ---PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
               +   ++ + ++ A   +  E A V  I + + ++ I
Sbjct: 121 KDGKKIHAADDKFFKDAEKVLYDEFAYVLDIEQEDVVSFI 160


>gi|253576632|ref|ZP_04853960.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
           D14]
 gi|251844046|gb|EES72066.1| transcriptional regulator [Paenibacillus sp. oral taxon 786 str.
           D14]
          Length = 167

 Score = 86.3 bits (213), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 32/164 (19%), Positives = 62/164 (37%), Gaps = 7/164 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            F  G+ I Y  HGV  I E+  + +AG+   ++ +     + + + +PV +A  + ++K
Sbjct: 1   MFDKGDLISYSVHGVCRIDEVCVKSLAGVSKTYYELHPLSNETLKISIPVDRAP-LQLQK 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ--- 128
           L         +                R   Y A + +GD   IA+V   L R       
Sbjct: 60  LMGPEEAMALIDSFMAPGIPWIDNNHERHHNYSAIVKTGDREGIAKVANTLMRRKQWSEQ 119

Query: 129 --PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
              +    + QL     N    E+A V   +  + +  ++  ++
Sbjct: 120 NHKKLGNQDNQLLLGIQNTSFNEMAIVLKTTYDDVLQAVQEKVA 163


>gi|261367183|ref|ZP_05980066.1| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
 gi|282570778|gb|EFB76313.1| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
          Length = 167

 Score = 85.2 bits (210), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 39/170 (22%), Positives = 68/170 (40%), Gaps = 10/170 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDI-GMR 70
            F+ G+ + Y   GV TI E K   +AG + E +++       M + VP    + +  MR
Sbjct: 1   MFQVGDAVSYGTSGVCTIAEKKNVRLAGQQCECYILKPVYDSTMKICVPCNSQVLLDRMR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----RT 125
            L     +   + L++  A         R + Y   + SGD  A+  ++RD++     R 
Sbjct: 61  ALPSKQEL---MDLLQEPAPEHEPDPEVRKEHYRQTLQSGDRHALLRMIRDIYTERRHRH 117

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
               + S  E      A N +  E A    I   E  + I   L + +++
Sbjct: 118 AMGKQLSSYEDSALREAQNILHSEFAYTMGIDPGEVPDFIAGVLDNAANQ 167


>gi|254519000|ref|ZP_05131056.1| transcriptional regulator [Clostridium sp. 7_2_43FAA]
 gi|226912749|gb|EEH97950.1| transcriptional regulator [Clostridium sp. 7_2_43FAA]
          Length = 163

 Score = 85.2 bits (210), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 27/164 (16%), Positives = 67/164 (40%), Gaps = 15/164 (9%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            F+ G+ I+Y  HG+  + +I E+ ++ +K +++++   ++  + +  PV     + M +
Sbjct: 1   MFKKGDLILYSVHGICKVDDICEKTISHIKKQYYILHPINETNLSISTPVDN-DKVAMLE 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           L      +  L+L +         W      R++ Y+  I   +   I ++   L RT  
Sbjct: 60  LLTKEEAQETLELFKN----PGINWIEIDRERSEVYNEIIKQWNRREIVKIANTLMRTKI 115

Query: 128 QPEKSY-----SERQLYESALNRMVREIAAVNSISEPEAINLIE 166
             E +       ++++     + +  E+A     +  E    + 
Sbjct: 116 DLENNGKKFHEKDKKMLLDIQSILFSELAFSLDTTSEEIAKTVN 159


>gi|114567389|ref|YP_754543.1| transcriptional regulator [Syntrophomonas wolfei subsp. wolfei str.
           Goettingen]
 gi|114338324|gb|ABI69172.1| transcriptional regulator, CarD family [Syntrophomonas wolfei
           subsp. wolfei str. Goettingen]
          Length = 166

 Score = 84.8 bits (209), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 34/170 (20%), Positives = 75/170 (44%), Gaps = 16/170 (9%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEV-AGMKLEFFVIAFDKDKMC--LKVPVGKAIDIGM 69
            F+  +++VY  +GV  I +I++       + E++++    +     + VPV    +I M
Sbjct: 1   MFKVKDYVVYGLNGVCQIADIRKDNYDNSNETEYYILKPVYNTSITSIMVPVNN-SNIMM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLH-- 123
           R +S        L L+     ++ T W    ++R  +Y A + +G      ++++ L+  
Sbjct: 60  RAISTK---NDVLSLIAKMPDIETTSWIDNDTQRTNQYKAALRTGKTEEWVKIIKTLYQE 116

Query: 124 ---RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
              R+    + + ++  L  +A   +  E A    IS  E ++ I  ++S
Sbjct: 117 KKARSAVGRKLTTTDEGLLNTAEKHLNEEFAIALDISPDEVVSYIRKHIS 166


>gi|160940591|ref|ZP_02087935.1| hypothetical protein CLOBOL_05486 [Clostridium bolteae ATCC
           BAA-613]
 gi|158436551|gb|EDP14318.1| hypothetical protein CLOBOL_05486 [Clostridium bolteae ATCC
           BAA-613]
          Length = 165

 Score = 82.9 bits (204), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 34/167 (20%), Positives = 66/167 (39%), Gaps = 9/167 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI--AFDKDKMCLKVPVGKAIDIGMR 70
            F+ GE+I+Y   GV  +  I + + +     ++ +   FD+D   + +PV     + MR
Sbjct: 1   MFKKGEYILYGTVGVCQVEGISKPDFSNNDKVYYSLVPKFDQDT-TIYIPVDSP-KVKMR 58

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----RT 125
           ++      E+ +  +      +      R Q Y   + SGD   +A +++++      R 
Sbjct: 59  EIMTRQEAEQFILALPSVEGKQYANDKERPQAYRQILESGDCTQLASMIKEISEMEQNRR 118

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
                 S  ER   +SA   +  E+A    I   E  + I   +   
Sbjct: 119 GKGKPLSIRERDGVKSARKLLFGELATALDICPEEIPDYITSQIGEA 165


>gi|254518837|ref|ZP_05130893.1| CarD family transcriptional regulator [Clostridium sp. 7_2_43FAA]
 gi|226912586|gb|EEH97787.1| CarD family transcriptional regulator [Clostridium sp. 7_2_43FAA]
          Length = 162

 Score = 81.3 bits (200), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 38/163 (23%), Positives = 80/163 (49%), Gaps = 7/163 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            F+  +++VY ++GV  +T+I++  +   +LE+++++    +KM +K PV     I MR+
Sbjct: 1   MFKINDYVVYGSNGVCKVTDIEQVTLRNEELEYYILSPVYNEKMTIKTPVNN-QKILMRE 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ--- 128
           L     +   LK +     V+     RR +EY A I  G+   + +V+  +     +   
Sbjct: 60  LMTKAEIVNLLKEISKNETVEIEDSRRRVEEYKAIIRRGNAEELIKVINSIKLEKDEKIS 119

Query: 129 --PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
              + + ++  +  SA  ++ +E+A V  I   E  + I+ N+
Sbjct: 120 IGKKLNKTDEDIMISASKQLYQEMAIVLDIDVDEVQDYIKNNI 162


>gi|239627382|ref|ZP_04670413.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239517528|gb|EEQ57394.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
          Length = 167

 Score = 79.4 bits (195), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 35/163 (21%), Positives = 68/163 (41%), Gaps = 9/163 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI--AFDKDKMCLKVPVGKAIDIGMR 70
            F+ GE I+Y   GV  + +I   + +     ++ +   ++KD   + +PV     + MR
Sbjct: 1   MFKKGEFILYGTVGVCQVEKISRTDFSDNDRLYYYLVPRYEKDT-TICIPVDS-DKVMMR 58

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +      ER +K        +      R Q Y   I SGD + +A +++++ R +   +
Sbjct: 59  GIMSRKDAERFVKAWPDVECKEYANDRERPQAYKEAIQSGDCLELASMIKEISRMEQSRK 118

Query: 131 -----KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
                 S  E+   ++A   +  E+AA   I   +    IE +
Sbjct: 119 GKGRILSVREKDGAKAARRLLFGELAAALDIYPEDVPEYIEGH 161


>gi|220930374|ref|YP_002507283.1| CarD family transcriptional regulator [Clostridium cellulolyticum
           H10]
 gi|220000702|gb|ACL77303.1| transcriptional regulator, CarD family [Clostridium cellulolyticum
           H10]
          Length = 175

 Score = 78.3 bits (192), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 30/173 (17%), Positives = 69/173 (39%), Gaps = 7/173 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGK-AIDIGMR 70
            F  G  I+Y  HG+  I E+K+  +      ++V+    ++   +  PVG    +  MR
Sbjct: 1   MFSVGNTIIYGNHGICKIVEVKDMTIDSNTRPYYVLKPVFENNSTIYFPVGNEIAEKKMR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-- 128
           ++     +   ++ +  +  +     + R + Y + +   D  A+ ++++ LH  + +  
Sbjct: 61  RILSVEEIYTLIREMPDENTIWIENENERKEVYKSILTGTDRSALVKLIKTLHLHEKELK 120

Query: 129 ---PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
               +   S+ +  + A   +  E   V  I   E +  I   +   S K  +
Sbjct: 121 DLGKKLHASDEKFLKDAEKTLYDEFVYVLDIDREEVLPFIMEQIEINSKKQGE 173


>gi|291542940|emb|CBL16050.1| Transcriptional regulators, similar to M. xanthus CarD
           [Ruminococcus bromii L2-63]
          Length = 162

 Score = 77.5 bits (190), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 70/160 (43%), Gaps = 8/160 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDI-GMR 70
            +  GE ++Y ++GV  ITEI  +++    +E++V+     D   L VP    + +  MR
Sbjct: 1   MYSIGEIVLYGSNGVCEITEITTKKIGKDSIEYYVLKPVCSDSSTLFVPTQNEMLVSRMR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----RT 125
            +  +  ++  L   +    +     + R ++    I+ GD + + E++R +H     + 
Sbjct: 61  AVLSSDEIKDILS-QKTDNEIWIDNKAERCEKIKEIISGGDCMKLVELIRRMHFHSKLQL 119

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
                   ++ +  + A   +  E++ V  I   + + L+
Sbjct: 120 KKGRRLHITDERFLKEAEKMVCDEVSVVLHIDRNDVLPLV 159


>gi|269118963|ref|YP_003307140.1| CarD family transcriptional regulator [Sebaldella termitidis ATCC
           33386]
 gi|268612841|gb|ACZ07209.1| transcriptional regulator, CarD family [Sebaldella termitidis ATCC
           33386]
          Length = 172

 Score = 77.1 bits (189), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 34/165 (20%), Positives = 67/165 (40%), Gaps = 9/165 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVG-KAIDIGMR 70
            ++  + ++Y  HGV  I  I E++  G     + +    +DK  + +PV        M 
Sbjct: 1   MYKVNDTVLYNTHGVCKIVGISEKDFGGNHTSCYALKPVYRDKSMVFIPVNSNNALSKMH 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSG-DLIAIAEVVRDLH-----R 124
           ++  A  +   +K +  +  V      +R +EY  K+  G D   +  +++ LH      
Sbjct: 61  RILSADQIYSLIKALPAEYPVWIQDKDQR-KEYYEKVLLGEDREELIILIKTLHVYHQSL 119

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
            D   +   ++R   + A  ++  E A V +I   E I  I   +
Sbjct: 120 LDQGKKMHAADRYFMKEAEKKLHEEFAYVLNIKPDEVIPFITEQI 164


>gi|154484319|ref|ZP_02026767.1| hypothetical protein EUBVEN_02032 [Eubacterium ventriosum ATCC
           27560]
 gi|149734796|gb|EDM50713.1| hypothetical protein EUBVEN_02032 [Eubacterium ventriosum ATCC
           27560]
          Length = 172

 Score = 75.6 bits (185), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 31/173 (17%), Positives = 64/173 (36%), Gaps = 9/173 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F  GE+IV+   GV  + +I   ++ G   +  ++V+         +  P      I M
Sbjct: 1   MFNKGEYIVHGRKGVCKVEDITHLDIDGADKKSLYYVLIPMKNQDSKVFYPTDN-DKIPM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ- 128
           R +     VE  ++ +     +      +R  +Y   I S D   +  +++ LH+     
Sbjct: 60  RTIHTKDQVEEIVEHINEIEPIWIDNERQREYKYKEVIGSCDCKQLIGIIKTLHKRGRSR 119

Query: 129 ----PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
                + +Y + +    A   +  E +    I +P+    I  N++      E
Sbjct: 120 LAHGKKITYVDEKYLREAKEVLYDEFSLALDIDKPQVEKYIINNINESDKAAE 172


>gi|18309241|ref|NP_561175.1| CarD family transcriptional regulator [Clostridium perfringens str.
           13]
 gi|18143917|dbj|BAB79965.1| probable transcriptional regulator [Clostridium perfringens str.
           13]
          Length = 168

 Score = 74.8 bits (183), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 28/170 (16%), Positives = 71/170 (41%), Gaps = 13/170 (7%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQE-VAGMKLEFFVI-----AFDKDKMCLKVPVGKAID 66
            F+  ++I+Y   GV  + +I ++  +  ++ E++V+      + K  + +K+PV     
Sbjct: 1   MFKINDYIMYGTVGVCQVIDITKETLMNNIEKEYYVLSPVYSKYPKKTV-IKIPVDN-KK 58

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           I MR L     V   +  +     +      +R  E+   + SG+   +  ++R ++   
Sbjct: 59  ISMRTLLSKEDVNSIINSIPETETLWIDNDRQRNDEFKTILRSGNCDDLIVLIRSIYLDK 118

Query: 127 SQPEKSY-----SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            + +         + ++ ++A   +  E A +  I   E  + I+ ++  
Sbjct: 119 KKRKLDGKKACKGDDEIMQTAEKLINEEFAVILDIRPEEVKSYIKSHIPQ 168


>gi|225378792|ref|ZP_03756013.1| hypothetical protein ROSEINA2194_04462 [Roseburia inulinivorans DSM
           16841]
 gi|225209384|gb|EEG91738.1| hypothetical protein ROSEINA2194_04462 [Roseburia inulinivorans DSM
           16841]
          Length = 187

 Score = 74.4 bits (182), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 25/139 (17%), Positives = 61/139 (43%), Gaps = 4/139 (2%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVP 60
             +++  ++ F  GE+IVY   GV  + EI   ++ G   +  ++V+A  +     +  P
Sbjct: 49  SNRKENQKKMFEVGEYIVYGCKGVCQVEEITHIDIPGSNKDRLYYVLAPLEDRNGKIYAP 108

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
              A  + MRK+      E+ ++ +     +      +R  +Y   + + D  A   +++
Sbjct: 109 TDNA-KVAMRKVITRQEAEQLIEEMPQIEELWVVNEKQRELQYKEALKTCDFRAWISIIK 167

Query: 121 DLHRTDSQPEKSYSERQLY 139
            L+    + ++S  +  ++
Sbjct: 168 TLYFRKKRADRSGQKNNIF 186


>gi|168206625|ref|ZP_02632630.1| transcriptional regulator, CarD family [Clostridium perfringens E
           str. JGS1987]
 gi|168214107|ref|ZP_02639732.1| transcriptional regulator, CarD family [Clostridium perfringens CPE
           str. F4969]
 gi|168217539|ref|ZP_02643164.1| transcriptional regulator, CarD family [Clostridium perfringens
           NCTC 8239]
 gi|169343103|ref|ZP_02864129.1| transcriptional regulator, CarD family [Clostridium perfringens C
           str. JGS1495]
 gi|182625226|ref|ZP_02953001.1| transcriptional regulator, CarD family [Clostridium perfringens D
           str. JGS1721]
 gi|169298741|gb|EDS80816.1| transcriptional regulator, CarD family [Clostridium perfringens C
           str. JGS1495]
 gi|170661969|gb|EDT14652.1| transcriptional regulator, CarD family [Clostridium perfringens E
           str. JGS1987]
 gi|170714450|gb|EDT26632.1| transcriptional regulator, CarD family [Clostridium perfringens CPE
           str. F4969]
 gi|177909538|gb|EDT71978.1| transcriptional regulator, CarD family [Clostridium perfringens D
           str. JGS1721]
 gi|182380373|gb|EDT77852.1| transcriptional regulator, CarD family [Clostridium perfringens
           NCTC 8239]
          Length = 168

 Score = 73.6 bits (180), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/170 (16%), Positives = 71/170 (41%), Gaps = 13/170 (7%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQE-VAGMKLEFFVI-----AFDKDKMCLKVPVGKAID 66
            F+  ++I+Y   GV  + +I ++  +  ++ E++V+      + K  + +K+PV     
Sbjct: 1   MFKINDYIMYGTVGVCQVIDITKETLMNNIEKEYYVLSPVYSKYPKKTV-IKIPVDN-KK 58

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           I MR L     V   +  +     +      +R  E+   + SG+   +  ++R ++   
Sbjct: 59  ISMRTLLSKEDVNSIINSIPETETLWIDNDRQRNDEFKTMLRSGNCDDLIVLIRSIYLDK 118

Query: 127 SQPEKSY-----SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            + +         + ++ ++A   +  E A +  I   E  + I+ ++  
Sbjct: 119 KKRKLDGKKACKGDDEIMQTAEKLINEEFAVILDIRPEEVKSYIKSHIPQ 168


>gi|160880796|ref|YP_001559764.1| CarD family transcriptional regulator [Clostridium phytofermentans
           ISDg]
 gi|160429462|gb|ABX43025.1| transcriptional regulator, CarD family [Clostridium phytofermentans
           ISDg]
          Length = 168

 Score = 72.5 bits (177), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 28/161 (17%), Positives = 57/161 (35%), Gaps = 9/161 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQE--VAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F+ G++I+Y  +GV  +  I E E  V      ++ +  +  D+  +  P      + M
Sbjct: 1   MFQVGDYIIYGMNGVCVVENIGEIETKVVPKDRLYYTLRPYYSDRSTIFTPTDNL-KVKM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----R 124
           R +         L  +             R  EY   I   D   + ++V+ L+     +
Sbjct: 60  RSILTKDEAVSILNNIHNIDCSWDIDEKIREMEYKEAIRQCDCKQLLKIVKSLYFSRKAK 119

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
                +    + + Y  A + +  E+A    +   E   L+
Sbjct: 120 LADGKKVPARDEKYYHMAEDSLYGELAVSLGLEIEETKELV 160


>gi|238917224|ref|YP_002930741.1| hypothetical protein EUBELI_01297 [Eubacterium eligens ATCC 27750]
 gi|238872584|gb|ACR72294.1| Hypothetical protein EUBELI_01297 [Eubacterium eligens ATCC 27750]
          Length = 165

 Score = 72.5 bits (177), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 28/164 (17%), Positives = 63/164 (38%), Gaps = 7/164 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            F  G+ +VY   GV  +  I    + G+  +++ +      K  +  PV     + +R 
Sbjct: 1   MFEIGDKVVYGVVGVCEVENIDTPPIKGISGDYYFLQPVFDSKGIIYSPVDS-NKVMIRS 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----RTD 126
           +      ++  +  R   +           +YD  + S D + +  ++R L+     R  
Sbjct: 60  IMTVKECDKLKERARNCKKDGELSEKVTPMQYDEHMKSQDALKLMHLIRALYVIKNERAK 119

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
              +   ++ ++  +A   +  E AAV + +  E    ++  LS
Sbjct: 120 DLRKMKSADSRMLLAARKLLYGEFAAVYNQTFDEVAEEMDAFLS 163


>gi|260684556|ref|YP_003215841.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260688214|ref|YP_003219348.1| putative regulatory protein [Clostridium difficile R20291]
 gi|260210719|emb|CBA65560.1| putative regulatory protein [Clostridium difficile CD196]
 gi|260214231|emb|CBE06513.1| putative regulatory protein [Clostridium difficile R20291]
          Length = 169

 Score = 72.5 bits (177), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 30/165 (18%), Positives = 68/165 (41%), Gaps = 8/165 (4%)

Query: 14  FRTGEHIVYPAHGVGTITEIK-EQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           F+  ++I+Y   GV  + +I  E+   G+K E++V++    +   +K+PV     + MRK
Sbjct: 6   FKIDDYIMYGMTGVCKVMDITNERFTNGIKKEYYVLSPIYSNNTVIKIPVDN-EKVPMRK 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL-----HRTD 126
           L     V   +  +             R++++   +  G    + ++VR +     +   
Sbjct: 65  LLSKINVLSLINDIPNMDTSWIDNEKLRSEQFKKILRGGKCEELIKLVRSIDNNREYVKS 124

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
              +   ++  + + A   +  E A +  IS  E  + I  ++  
Sbjct: 125 IGKKTHQADDNIMKEAERLLSEEFATILDISPNEVSSYISSHIPQ 169


>gi|309777118|ref|ZP_07672082.1| probable transcriptional regulator [Erysipelotrichaceae bacterium
           3_1_53]
 gi|308915127|gb|EFP60903.1| probable transcriptional regulator [Erysipelotrichaceae bacterium
           3_1_53]
          Length = 165

 Score = 72.5 bits (177), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 36/169 (21%), Positives = 75/169 (44%), Gaps = 18/169 (10%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVA-GMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMR 70
            F   +++ Y + G+  I +  ++ +  G+  + +V+    + K  ++ PV      G+R
Sbjct: 1   MFEIHDYVRYGSFGLFQIVDKIQKTIKNGVVKDCYVLYGVQQVKTRIETPVDNP---GLR 57

Query: 71  KLSEAHFVERALKLVRGKARVKRTMW----SRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           K+     ++  +     K     T W     +R +E+   +  GD IA+  V++ ++   
Sbjct: 58  KVLSMEDIDSLI----TKMPDIETNWITDKKKREEEFRNALRCGDCIALVRVMKTIYAVK 113

Query: 127 SQPE-----KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            +        SY++  ++E A  +++ EIA    IS  EA + I   LS
Sbjct: 114 EEKARNRKQLSYTDHSIFEQAQQQLLEEIAFGAQISVEEADDYIRKKLS 162


>gi|254976584|ref|ZP_05273056.1| putative regulatory protein [Clostridium difficile QCD-66c26]
 gi|255093968|ref|ZP_05323446.1| putative regulatory protein [Clostridium difficile CIP 107932]
 gi|255315720|ref|ZP_05357303.1| putative regulatory protein [Clostridium difficile QCD-76w55]
 gi|255518381|ref|ZP_05386057.1| putative regulatory protein [Clostridium difficile QCD-97b34]
 gi|255651499|ref|ZP_05398401.1| putative regulatory protein [Clostridium difficile QCD-37x79]
 gi|306521319|ref|ZP_07407666.1| putative regulatory protein [Clostridium difficile QCD-32g58]
          Length = 165

 Score = 72.5 bits (177), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 30/166 (18%), Positives = 68/166 (40%), Gaps = 8/166 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIK-EQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMR 70
            F+  ++I+Y   GV  + +I  E+   G+K E++V++    +   +K+PV     + MR
Sbjct: 1   MFKIDDYIMYGMTGVCKVMDITNERFTNGIKKEYYVLSPIYSNNTVIKIPVDN-EKVPMR 59

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL-----HRT 125
           KL     V   +  +             R++++   +  G    + ++VR +     +  
Sbjct: 60  KLLSKINVLSLINDIPNMDTSWIDNEKLRSEQFKKILRGGKCEELIKLVRSIDNNREYVK 119

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
               +   ++  + + A   +  E A +  IS  E  + I  ++  
Sbjct: 120 SIGKKTHQADDNIMKEAERLLSEEFATILDISPNEVSSYISSHIPQ 165


>gi|225019308|ref|ZP_03708500.1| hypothetical protein CLOSTMETH_03261 [Clostridium methylpentosum
           DSM 5476]
 gi|224947939|gb|EEG29148.1| hypothetical protein CLOSTMETH_03261 [Clostridium methylpentosum
           DSM 5476]
          Length = 176

 Score = 72.5 bits (177), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 29/172 (16%), Positives = 72/172 (41%), Gaps = 7/172 (4%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGK 63
            +++ ++  F+  + ++Y   GV  I +I+ ++ +  +L ++++     +   +  PV  
Sbjct: 1   MRKEQVKAVFQINDTVMYGNTGVCRIVDIRPEKFSDRELVYYILQPVYSESETIYCPVDS 60

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
              I +RKL     V   ++L+             R ++Y   + +GD   + ++++ LH
Sbjct: 61  -DKIKIRKLLSLQEVHELIELMPDAQTEWIENDQLRKEKYTEILRNGDHRELVKLIKTLH 119

Query: 124 -----RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
                +     +   ++ ++   A   +  E A V  I   E +  I   L+
Sbjct: 120 IHREEKNREGKKFHLADEKISNEAEKILHGEFAHVLHIQPDEVVPFIMGQLN 171


>gi|325663159|ref|ZP_08151609.1| hypothetical protein HMPREF0490_02350 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325470613|gb|EGC73843.1| hypothetical protein HMPREF0490_02350 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 177

 Score = 71.7 bits (175), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 36/176 (20%), Positives = 69/176 (39%), Gaps = 9/176 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKE---QEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
            ++ G+ +V    G+  IT+I      +V   K  + ++    DKM + VPV       +
Sbjct: 1   MYQVGDCVVKENTGLCRITDIVHLDGMDVDRNKKYYLLVPHSDDKMKIYVPVDSIA-SNL 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ- 128
           RK  E +     ++ +     V      +R Q+Y   I S D      +++ ++    + 
Sbjct: 60  RKAIECNEAWSVIENITKIDAVHIENEKQREQKYKEAIKSCDPEQWISIIKTMYFRKQKR 119

Query: 129 ----PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKST 180
                + +  + + ++ A   +  E+A      E E   LI   +  K  K EKS 
Sbjct: 120 NIQGKKNAAMDERYFKLAEKYLYSELAYAIGKDESEMCQLIADTIKKKDMKAEKSA 175


>gi|126700655|ref|YP_001089552.1| putative regulatory protein [Clostridium difficile 630]
 gi|255102148|ref|ZP_05331125.1| putative regulatory protein [Clostridium difficile QCD-63q42]
 gi|255308017|ref|ZP_05352188.1| putative regulatory protein [Clostridium difficile ATCC 43255]
 gi|115252092|emb|CAJ69930.1| Transcriptional regulator, CarD family [Clostridium difficile]
          Length = 165

 Score = 71.7 bits (175), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 30/166 (18%), Positives = 68/166 (40%), Gaps = 8/166 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIK-EQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMR 70
            F+  ++I+Y   GV  + +I  E+   G+K E++V++    +   +K+PV     + MR
Sbjct: 1   MFKIDDYIMYGMTGVCKVMDITNERFTNGIKKEYYVLSPIYSNNTVIKIPVDN-EKVPMR 59

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL-----HRT 125
           KL     V   +  +             R++++   +  G    + ++VR +     +  
Sbjct: 60  KLLSKINVLSLINDIPNMDTSWIDNEKLRSEQFKKILRGGKCEELIKLVRSIDNNREYVK 119

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
               +   ++  + + A   +  E A +  IS  E  + I  ++  
Sbjct: 120 SIGKKTHQADDNIMKEAERLLNEEFATILDISPNEVSSYISSHIPQ 165


>gi|296452199|ref|ZP_06893907.1| CarD family transcriptional regulator [Clostridium difficile NAP08]
 gi|296877552|ref|ZP_06901584.1| CarD family transcriptional regulator [Clostridium difficile NAP07]
 gi|296258938|gb|EFH05825.1| CarD family transcriptional regulator [Clostridium difficile NAP08]
 gi|296431454|gb|EFH17269.1| CarD family transcriptional regulator [Clostridium difficile NAP07]
          Length = 169

 Score = 71.3 bits (174), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 30/165 (18%), Positives = 67/165 (40%), Gaps = 8/165 (4%)

Query: 14  FRTGEHIVYPAHGVGTITEIK-EQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           F+  ++I+Y   GV  + +I  E+   G+K E++V+     +   +K+PV     + MRK
Sbjct: 6   FKIDDYIMYGMTGVCKVMDITNERFTNGIKKEYYVLNPIYSNNTIIKIPVDN-EKVPMRK 64

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL-----HRTD 126
           L     V   +  +             R++++   +  G    + ++VR +     +   
Sbjct: 65  LLSKINVLSLINDIPNMDTSWIDNEKLRSEQFKKILRGGKCEELIKLVRSIDNNREYVKS 124

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
              +   ++  + + A   +  E A +  IS  E  + I  ++  
Sbjct: 125 IGKKTHQADDNIMKEAERLLNEEFATILDISPNEVSSYISSHIPQ 169


>gi|303242330|ref|ZP_07328815.1| CarD family transcriptional regulator [Acetivibrio cellulolyticus
           CD2]
 gi|302590093|gb|EFL59856.1| CarD family transcriptional regulator [Acetivibrio cellulolyticus
           CD2]
          Length = 175

 Score = 71.3 bits (174), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 30/170 (17%), Positives = 63/170 (37%), Gaps = 23/170 (13%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAG--MKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
            ++ G+ I+Y  HGV  +  I    V G      ++ I+       +  PV    ++ MR
Sbjct: 1   MYQIGDFIIYGNHGVYKVDGIGTPGVCGIDENKLYYTISAVYGNERIFTPVD--TNVFMR 58

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRR--------AQEYDAKINSGDLIAIAEVVRDL 122
           K+     V++ + L+     +K +++  R         QEY       D   + E+++ +
Sbjct: 59  KIITFDEVQQLISLI---PSIKESVYCNRNIKLVEDHYQEYLQAY---DCRDLVELIKSI 112

Query: 123 HRT-----DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
           +       +   +    + +    A   +  E+A    I +      IE 
Sbjct: 113 YTKKTIVAEQGKKLGQIDERFMRKAEELLYGELAVALKIPKESVKGYIEE 162


>gi|255656959|ref|ZP_05402368.1| putative regulatory protein [Clostridium difficile QCD-23m63]
          Length = 165

 Score = 71.3 bits (174), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 30/166 (18%), Positives = 67/166 (40%), Gaps = 8/166 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIK-EQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMR 70
            F+  ++I+Y   GV  + +I  E+   G+K E++V+     +   +K+PV     + MR
Sbjct: 1   MFKIDDYIMYGMTGVCKVMDITNERFTNGIKKEYYVLNPIYSNNTIIKIPVDN-EKVPMR 59

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL-----HRT 125
           KL     V   +  +             R++++   +  G    + ++VR +     +  
Sbjct: 60  KLLSKINVLSLINDIPNMDTSWIDNEKLRSEQFKKILRGGKCEELIKLVRSIDNNREYVK 119

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
               +   ++  + + A   +  E A +  IS  E  + I  ++  
Sbjct: 120 SIGKKTHQADDNIMKEAERLLNEEFATILDISPNEVSSYISSHIPQ 165


>gi|75762570|ref|ZP_00742424.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74489952|gb|EAO53314.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 61

 Score = 70.9 bits (173), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 27/59 (45%)

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSE 135
            ++  +   +     +   W +R +    KI +G++   AEVVRDL R   +   + S+
Sbjct: 3   ALKHIIHFFQHGESDRLLPWKQRHKVNTDKIKTGEIQEGAEVVRDLMRMKKEKALNTSD 61


>gi|240143904|ref|ZP_04742505.1| transcriptional regulator, CarD family [Roseburia intestinalis
           L1-82]
 gi|257204097|gb|EEV02382.1| transcriptional regulator, CarD family [Roseburia intestinalis
           L1-82]
          Length = 180

 Score = 70.5 bits (172), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 33/169 (19%), Positives = 69/169 (40%), Gaps = 11/169 (6%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVPVGKAIDI 67
           R+ F  GE++V  A GV  I +I   +++G   E  ++V+A        + VP      I
Sbjct: 14  RRMFEIGEYVVCGAKGVCQIRDITHIDMSGADKEKLYYVLAPVGDKNGTIYVPTDS-EKI 72

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
            MR+       ER +  +     +      +R + Y   + + D  A   +V+ L++   
Sbjct: 73  IMRRTISKEEAERLIDELPQIELLWVPDDKQREETYKEALRTCDYHAWVSIVKTLYQRKK 132

Query: 128 QPEKSYSER------QLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +   +  ++      +  ++A N +  E++    +   +  + I   LS
Sbjct: 133 ER-LAQGKKATAVDERYMKAAENGLYGELSLTLGVPREKMEDYIRERLS 180


>gi|291539572|emb|CBL12683.1| Transcriptional regulators, similar to M. xanthus CarD [Roseburia
           intestinalis XB6B4]
          Length = 175

 Score = 70.5 bits (172), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 33/169 (19%), Positives = 69/169 (40%), Gaps = 11/169 (6%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVPVGKAIDI 67
           R+ F  GE++V  A GV  I +I   +++G   E  ++V+A        + VP      I
Sbjct: 9   RRMFEIGEYVVCGAKGVCQIRDITHIDMSGADKEKLYYVLAPVGDKNGTIYVPTDS-EKI 67

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
            MR+       ER +  +     +      +R + Y   + + D  A   +V+ L++   
Sbjct: 68  IMRRTISKEEAERLIDELPQIELLWVPDDKQREETYKEALRTCDYHAWVSIVKTLYQRKK 127

Query: 128 QPEKSYSER------QLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
           +   +  ++      +  ++A N +  E++    +   +  + I   LS
Sbjct: 128 ER-LAQGKKATAVDERYMKAAENGLYGELSLTLGVPREKMEDYIRERLS 175


>gi|168210546|ref|ZP_02636171.1| transcriptional regulator, CarD family [Clostridium perfringens B
           str. ATCC 3626]
 gi|170711361|gb|EDT23543.1| transcriptional regulator, CarD family [Clostridium perfringens B
           str. ATCC 3626]
          Length = 168

 Score = 70.5 bits (172), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 28/170 (16%), Positives = 70/170 (41%), Gaps = 13/170 (7%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQE-VAGMKLEFFVI-----AFDKDKMCLKVPVGKAID 66
            F+  ++I+Y   GV  + +I ++  +  ++ E++V+      + K  + +K+PV     
Sbjct: 1   MFKINDYIMYGTVGVCQVIDITKETLMNNIEKEYYVLSPVYSKYPKKTV-IKIPVDN-KK 58

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
           I MR L     V   +  +     +      +R  E+   + SG    +  ++R ++   
Sbjct: 59  ISMRTLLSKEDVNSIINSIPETETLWIDNDRQRNDEFKTMLRSGICDDLIVLIRSIYLDK 118

Query: 127 SQPEKSY-----SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            + +         + ++ ++A   +  E A +  I   E  + I+ ++  
Sbjct: 119 KKRKLDGKKACKGDDEIMQTAEKLINEEFAVILDIRPEEVKSYIKSHIPQ 168


>gi|291535009|emb|CBL08121.1| Transcriptional regulators, similar to M. xanthus CarD [Roseburia
           intestinalis M50/1]
          Length = 165

 Score = 69.8 bits (170), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/167 (19%), Positives = 67/167 (40%), Gaps = 11/167 (6%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F  GE++V  A GV  I +I   +++G   E  ++V+A        + VP      I M
Sbjct: 1   MFEIGEYVVCGAKGVCQIRDITHIDMSGADKEKLYYVLAPVGDKNGTIYVPTDS-EKIIM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R+       ER +  +     +      +R + Y   + + D  A   +V+ L++   + 
Sbjct: 60  RRTISKEEAERLIDELPQIELLWVPDDKQREETYKEALRTCDYHAWVSIVKTLYQRKKER 119

Query: 130 EKSYSER------QLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             +  ++      +  ++A N +  E++    +   +  + I   LS
Sbjct: 120 -LAQGKKATAVDERYMKAAENGLYGELSLTLGVPREKMEDYIRERLS 165


>gi|225390248|ref|ZP_03759972.1| hypothetical protein CLOSTASPAR_03999 [Clostridium asparagiforme
           DSM 15981]
 gi|225043673|gb|EEG53919.1| hypothetical protein CLOSTASPAR_03999 [Clostridium asparagiforme
           DSM 15981]
          Length = 168

 Score = 68.6 bits (167), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 30/167 (17%), Positives = 61/167 (36%), Gaps = 7/167 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF-VIAFDKDKMCLKVPVGKAIDIGMRK 71
            F  G+ I+Y   GV  I EI   E       ++ ++   +    + VPV     + MR 
Sbjct: 1   MFEKGDLILYETAGVCRIEEISRLEFLKNDRVYYSLVPVFEKDSVIYVPVDN-EKVKMRP 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----RTD 126
           +      E  ++ +      +      +AQ Y   + SG+   +A +++ +      R  
Sbjct: 60  IMSREEAEAFIEQLPAIEGRRDIGEKEKAQVYKQILLSGNHRELAAMIKGIFEVGQVRKG 119

Query: 127 SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
                +  + +  + A   +  E+AA   +   +    I   L S +
Sbjct: 120 KGNRLAVRDEENMKRAQKLLYGELAAALGMHPDQMPAYIGKRLESPA 166


>gi|182417739|ref|ZP_02949057.1| transcriptional regulator, CarD family [Clostridium butyricum 5521]
 gi|237668939|ref|ZP_04528923.1| transcriptional regulator, CarD family [Clostridium butyricum E4
           str. BoNT E BL5262]
 gi|182378463|gb|EDT75994.1| transcriptional regulator, CarD family [Clostridium butyricum 5521]
 gi|237657287|gb|EEP54843.1| transcriptional regulator, CarD family [Clostridium butyricum E4
           str. BoNT E BL5262]
          Length = 166

 Score = 68.2 bits (166), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 27/164 (16%), Positives = 62/164 (37%), Gaps = 8/164 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEV--AGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
            F+  ++++Y  +GV  +T++   E+     + E++ +    +   +  PV     + MR
Sbjct: 1   MFKIDDYVIYGGNGVCKVTDVGVPEISRFDSEKEYYTLEPVYENGRIFAPVDN-EKVVMR 59

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-- 128
           K+      +  +  +             R  E+   I   D I   ++++ +     +  
Sbjct: 60  KVLTRQEADDLIGTIPSVEVNWIDNMKERDHEFKDIIQHYDCIGFVKIIKTIIEKKREYS 119

Query: 129 ---PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
               + S S+    + A   +  E+A   +I +    N IE  L
Sbjct: 120 SDGKKLSVSDANYLKRAQEYLSGELAIALNIPKDTVNNYIENRL 163


>gi|327440812|dbj|BAK17177.1| transcriptional regulator, similar to M. xanthus CarD [Solibacillus
           silvestris StLB046]
          Length = 167

 Score = 68.2 bits (166), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 25/164 (15%), Positives = 62/164 (37%), Gaps = 11/164 (6%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD-KMCLKVPVGKAIDIGMRK 71
            ++ G+   Y +HG+  I  I EQ   G  + ++V+       + L  PV    +  + K
Sbjct: 1   MYKIGDLTFYKSHGICQIEGIVEQNFTGEPMLYYVMQSKIRPGVTLYHPVES-KNSQLEK 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV-----RDLHRTD 126
           +       + +     +        + R + +   +++ + +  A+++     +DL    
Sbjct: 60  ILSYDEAVQIMDCFSNEPSEWNDRSTNRQRNHAEILSANNHLEAAQLMNTLLRKDLELQK 119

Query: 127 SQPEKSYSERQLYESALNRM--VREIAAVNSIS--EPEAINLIE 166
            + + +  + Q+ +     +  V EIA        E E    ++
Sbjct: 120 DEKKITSQDSQILQQLSTIILDVLEIALKKPKDTIEKEIYKRVQ 163


>gi|225570940|ref|ZP_03779963.1| hypothetical protein CLOHYLEM_07044 [Clostridium hylemonae DSM
           15053]
 gi|225160402|gb|EEG73021.1| hypothetical protein CLOHYLEM_07044 [Clostridium hylemonae DSM
           15053]
          Length = 169

 Score = 67.9 bits (165), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 24/161 (14%), Positives = 54/161 (33%), Gaps = 9/161 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE---FFVIAFDKDKMCLKVPVGKAIDIGM 69
            F  GE+IV   +GV  + E     + G   +   + ++          VPV     I M
Sbjct: 1   MFDVGEYIVCGRYGVCRVKETGPVHITGAPRKRLYYTLVPVYDSNSRAYVPVDS-EKIIM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ- 128
           R +         +  +     +      +R   +   +   D     ++++ ++R     
Sbjct: 60  RPVISGEQANELVDHINDIDALWIQDEKKREAAFKEALYKCDCREWIKIIKTIYRRRQDR 119

Query: 129 ----PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
                + +  + +    A +R+  E+A    + + E    I
Sbjct: 120 IAQGKKVTAGDERYLHMAQDRLYGELAVALGMKKEEVEAYI 160


>gi|226322661|ref|ZP_03798179.1| hypothetical protein COPCOM_00433 [Coprococcus comes ATCC 27758]
 gi|225208998|gb|EEG91352.1| hypothetical protein COPCOM_00433 [Coprococcus comes ATCC 27758]
          Length = 173

 Score = 67.5 bits (164), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 25/172 (14%), Positives = 65/172 (37%), Gaps = 9/172 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVPVGKAIDIGM 69
            +  G+ IVY   G+  +TEI   ++ G+  +  ++++    + +  +  PV     I M
Sbjct: 1   MYEVGDLIVYGRTGICEVTEITTLKMDGVPKDKLYYILRPVREKRGKVFTPVDN-EKIVM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----R 124
           R++      E  ++ +     +      +R ++Y   + S        +++ L+     R
Sbjct: 60  RRVISKEEAEELIREIPQIEGLWIGSEKQREEKYKECMKSCKCAEWVRIIKTLYQRKMSR 119

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKT 176
                + + ++ +    A   +  E++    I E    + I   ++      
Sbjct: 120 LKQGKKITATDERYLRMAEGNLYSELSIALGIPESGMEDYIMNQINETEEPV 171


>gi|325681467|ref|ZP_08160993.1| CarD-like protein [Ruminococcus albus 8]
 gi|324106957|gb|EGC01247.1| CarD-like protein [Ruminococcus albus 8]
          Length = 164

 Score = 67.1 bits (163), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 36/156 (23%), Positives = 61/156 (39%), Gaps = 5/156 (3%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAG-MKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
            F TGE IVY + GV  + EI    + G    +++ +          VPV     + MRK
Sbjct: 1   MFDTGEIIVYGSSGVYRVAEIGGIAIKGCEGRDYYTLEPVFGSGTSYVPVD--TGVFMRK 58

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRR-AQE-YDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +  A  V   +  +   +    +  S R  +E Y A + + D   +  +++ +       
Sbjct: 59  VMTADEVNDLIDRIPAISGDGFSSTSPRLVKEHYSASMKTHDTDKMIGMIKQIWEKGEHK 118

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           + S  E+Q  E A N +  E +    I   E    I
Sbjct: 119 KLSRIEQQYMEQAENLINSEFSVALGIPREEVAGYI 154


>gi|167768343|ref|ZP_02440396.1| hypothetical protein CLOSS21_02899 [Clostridium sp. SS2/1]
 gi|167709867|gb|EDS20446.1| hypothetical protein CLOSS21_02899 [Clostridium sp. SS2/1]
 gi|291560315|emb|CBL39115.1| Transcriptional regulators, similar to M. xanthus CarD
           [butyrate-producing bacterium SSC/2]
          Length = 166

 Score = 67.1 bits (163), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/161 (16%), Positives = 67/161 (41%), Gaps = 9/161 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAG--MKLEFFVIA-FDKDKMCLKVPVGKAIDIGM 69
            ++ G++++    G+  I ++   +++G     E++ +A  ++    + +PV       +
Sbjct: 1   MYKKGDYVIKIPEGICEIEDVGCLDMSGVNKDKEYYALAPINQKGSKIYIPVDNVHG-RI 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----R 124
           R +         +K +             R QEY A I SGD   IA +++ ++     R
Sbjct: 60  RNIISKEDAIAFIKSMPDIDEKDIQNEKMREQEYKAVILSGDNEKIASILKLIYSRKQER 119

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
            +   + S ++ + ++ A   +  E++ V ++        I
Sbjct: 120 AEQGKKLSSTDERYFKLAEYMLFSELSFVLNVPREHIEQYI 160


>gi|291544413|emb|CBL17522.1| Transcriptional regulators, similar to M. xanthus CarD
           [Ruminococcus sp. 18P13]
          Length = 173

 Score = 66.3 bits (161), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/171 (17%), Positives = 63/171 (36%), Gaps = 9/171 (5%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGM-KLEFFVIA--FDKDKMCLKVPVGKAIDIG 68
             F  G  ++Y A G+  I   +++   G+ + E++ +    +       +PV  A    
Sbjct: 1   MEFEIGSWVMYSATGICRILSREKKCFDGVHETEYYKLEPLREGTHSVYYIPVLTAA-SK 59

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS- 127
           +R L +A  V   ++ ++          + R + +   +   D   +  +V+ LH     
Sbjct: 60  LRPLMDAPQVHELIQHIQDLPCRWCADRNARKELFHHILRQDDPKQLLAMVKSLHTQQEA 119

Query: 128 ----QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                 + S S+     SA   +  E A    +   E   L++  L + S 
Sbjct: 120 QSRAGKKLSSSDEAALHSAEQILNEEFALALHMQPGEIPLLVQQALHTTSR 170


>gi|293374795|ref|ZP_06621100.1| CarD-like protein [Turicibacter sanguinis PC909]
 gi|325845328|ref|ZP_08168630.1| CarD-like protein [Turicibacter sp. HGF1]
 gi|292646591|gb|EFF64596.1| CarD-like protein [Turicibacter sanguinis PC909]
 gi|325488647|gb|EGC91054.1| CarD-like protein [Turicibacter sp. HGF1]
          Length = 164

 Score = 66.3 bits (161), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 29/165 (17%), Positives = 70/165 (42%), Gaps = 8/165 (4%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMK-LEFFVIA-FDKDKMCLKVPVGKAIDIGMR 70
            FR  ++IVY   GV  +  IKE+         F++++     +M +KV V    +  +R
Sbjct: 1   MFRIDDYIVYGLTGVCKVKGIKEECFLNYPAQSFYILSPISSPEMTIKVSVAHGNET-IR 59

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +     V + ++ +     +       R Q++   +  G+   +  +V+ ++   +  +
Sbjct: 60  MVHSKDEVNQLIQGIPDLELLWIKDDRERNQKFRCMVKQGNCSDLITIVKTIYSYRTLED 119

Query: 131 -----KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
                 + S+ +++E A   +  E+  +  ++  E  N IE  ++
Sbjct: 120 FKGTRLNKSDDEVFEIAEKLLNEELGFILDLNPEEIPNYIEQYIA 164


>gi|238924916|ref|YP_002938432.1| hypothetical protein EUBREC_2567 [Eubacterium rectale ATCC 33656]
 gi|238876591|gb|ACR76298.1| Hypothetical protein EUBREC_2567 [Eubacterium rectale ATCC 33656]
 gi|291525961|emb|CBK91548.1| Transcriptional regulators, similar to M. xanthus CarD [Eubacterium
           rectale DSM 17629]
          Length = 164

 Score = 65.5 bits (159), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 30/165 (18%), Positives = 69/165 (41%), Gaps = 9/165 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKL--EFFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F  G++++   +G+  I+EI E +++G K    +F++   +++   + +PV  A    +
Sbjct: 1   MFEIGDYVLNATNGICKISEIVELDMSGDKQLKSYFLLRPVEEENDRVYIPVDNADK-RI 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           RK+         L  V     +       R   Y   + S +  ++  +++ LH  + Q 
Sbjct: 60  RKVITQDEALAVLDRVPEIEALAVNNEKERETRYKEAVRSCEPDSVISLLKCLHIRNEQR 119

Query: 130 EKSYSERQLYES-----ALNRMVREIAAVNSISEPEAINLIEVNL 169
            ++  +    +      A + +  E+A V    + E  ++I   L
Sbjct: 120 AQAGKKSTAVDERYGKMAEHNLNAELAFVLEKDKQEIKDIIHDML 164


>gi|325662044|ref|ZP_08150663.1| hypothetical protein HMPREF0490_01401 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325471707|gb|EGC74926.1| hypothetical protein HMPREF0490_01401 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 164

 Score = 65.5 bits (159), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 21/147 (14%), Positives = 60/147 (40%), Gaps = 2/147 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC-LKVPVGKAIDIGMR 70
           + +  GE +V+   GV  + +I + E+  MK  ++ +   +  +  + +P+ K   + +R
Sbjct: 2   KTYHIGEKVVHCPEGVCEVEDICQIEMNKMKKYYYRLKPIQSNVKVVYIPIDKVE-MHVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            L     +E+   +   +  +      +R    +  +   D + + ++++   R   +  
Sbjct: 61  PLKTKQELEKIFCIEPEEQLICYRNPQKRMDIQNQAVREDDAVMLIQLIKMYRRKRQKNH 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSIS 157
            S  + +  + A   +  E++ V    
Sbjct: 121 ISLGDARWLKEAECYLFSEMSEVLECD 147


>gi|291527305|emb|CBK92891.1| Transcriptional regulators, similar to M. xanthus CarD [Eubacterium
           rectale M104/1]
          Length = 164

 Score = 65.5 bits (159), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 30/165 (18%), Positives = 68/165 (41%), Gaps = 9/165 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKL--EFFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F  G++++   +G+  I+EI E +++G K    +F++   +++   + +PV  A    +
Sbjct: 1   MFEIGDYVLNATNGICKISEIVELDMSGDKQLKSYFLLRPVEEENDRVYIPVDNADK-RI 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           RK+         L  V     +       R   Y   + S +  ++  +++ LH  + Q 
Sbjct: 60  RKVITQDEALAVLDRVPEIEALAVNNEKERETRYKEAVRSCEPDSVISLLKCLHIRNEQR 119

Query: 130 EKSYSERQLYES-----ALNRMVREIAAVNSISEPEAINLIEVNL 169
            ++  +    +      A + +  E+A V      E  ++I   L
Sbjct: 120 AQAGKKSTAVDERYGKMAEHNLNAELAFVLEKDRQEIKDIIHDML 164


>gi|331085895|ref|ZP_08334978.1| hypothetical protein HMPREF0987_01281 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330406818|gb|EGG86323.1| hypothetical protein HMPREF0987_01281 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 164

 Score = 65.2 bits (158), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 20/147 (13%), Positives = 60/147 (40%), Gaps = 2/147 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC-LKVPVGKAIDIGMR 70
           + +  GE +V+   GV  + +I + E+  +K  ++ +   +  +  + +P+ K   + +R
Sbjct: 2   KTYHIGEKVVHCPEGVCEVEDICQIEMNKIKKYYYRLKPIQSNVKVVYIPIDKIE-MHVR 60

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            L     +E+   +   +  +      +R    +  +   D + + ++++   R   +  
Sbjct: 61  PLKTKQELEKIFCIEPEEQLICYRNPQKRMDIQNQAVREDDAVMLIQLIKMYRRKRQKNH 120

Query: 131 KSYSERQLYESALNRMVREIAAVNSIS 157
            S  + +  + A   +  E++ V    
Sbjct: 121 ISLGDARWLKEAECYLFSEMSEVLECD 147


>gi|288870616|ref|ZP_06114718.2| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
 gi|288866520|gb|EFC98818.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
          Length = 187

 Score = 64.8 bits (157), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 23/167 (13%), Positives = 66/167 (39%), Gaps = 12/167 (7%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVPVGKA 64
               + F+  +H+VY  +G+  +  I   E+  +  +  ++ +     +K  +  PV K 
Sbjct: 16  SKEVKMFQVNDHVVYGNYGICVVKAIGSLEMDSVVKDRLYYTLEPLYSEKNTIYTPVDKE 75

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               MR         + +  ++ +  ++     R  Q Y   + + +    + +++ ++ 
Sbjct: 76  DS--MRCAITEQEAWKLIDGIQAQEMIQVADEKRAEQAYREIMRTNECSGWSRIIKTIYL 133

Query: 125 TDSQPEKSYSERQL------YESALNRMVREIAAVNSISEPEAINLI 165
            + +   +  +R           A + + RE+AA   + + +  ++I
Sbjct: 134 KNRKR-LAEGKRYTAKDDIYLRLAEDFLFRELAAALKVKKEDVESII 179


>gi|239627020|ref|ZP_04670051.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239517166|gb|EEQ57032.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
          Length = 166

 Score = 64.4 bits (156), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 57/163 (34%), Gaps = 9/163 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI--AFDKDKMCLKVPVGKAIDIGMR 70
            F  G+ I Y A GV  +  I + + +     ++ +   F+ ++  + +PV     + MR
Sbjct: 1   MFEKGDFIFYGAVGVCQVDGISKPDFSDNDKLYYRLIPKFEPNRS-ICIPVD-TTKVLMR 58

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +      +  +                R   Y     SG    +A +++++ + +   +
Sbjct: 59  CIMTRREAQNFILSWPNVQCKGYRNDKERPLIYKQIFQSGSCTELAAMIKEILQMEQSRK 118

Query: 131 -----KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
                 +  ER   ++A   +  E+AA   I        I   
Sbjct: 119 SKGNALNIRERDGVKTARKLLFGELAAALDIGPDMVPAYIHNV 161


>gi|308233919|ref|ZP_07664656.1| transcription-repair coupling factor [Atopobium vaginae DSM 15829]
 gi|328943400|ref|ZP_08240865.1| transcription-repair coupling factor [Atopobium vaginae DSM 15829]
 gi|327491369|gb|EGF23143.1| transcription-repair coupling factor [Atopobium vaginae DSM 15829]
          Length = 1198

 Score = 64.4 bits (156), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 30/124 (24%), Positives = 55/124 (44%), Gaps = 19/124 (15%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+  HG+    +I +QEVAG K ++F++ + +D   L VP  +   I  R + 
Sbjct: 499 FKPGDYVVHATHGIALFQKIVQQEVAGKKRDYFLLTYAQDD-KLYVPFEQVDKI-TRYIG 556

Query: 74  EAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 R         R+    WSR   RA++   K+       + ++     R  +   
Sbjct: 557 PDGSTPRL-------TRLNSADWSRACTRARKSAQKMA----FDLVDLY---TRRSTIKG 602

Query: 131 KSYS 134
            S+S
Sbjct: 603 FSFS 606


>gi|110801919|ref|YP_697579.1| CarD family transcriptional regulator [Clostridium perfringens
           SM101]
 gi|110682420|gb|ABG85790.1| transcriptional regulator, CarD family [Clostridium perfringens
           SM101]
          Length = 160

 Score = 64.0 bits (155), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 25/157 (15%), Positives = 64/157 (40%), Gaps = 13/157 (8%)

Query: 26  GVGTITEIKEQE-VAGMKLEFFVI-----AFDKDKMCLKVPVGKAIDIGMRKLSEAHFVE 79
           GV  + +I ++  +  ++ E++V+      + K  + +K+PV     I MR L     V 
Sbjct: 6   GVCQVIDITKETLMNNIEKEYYVLSPVYSKYPKKTV-IKIPVDN-KKISMRTLLSKEDVN 63

Query: 80  RALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY-----S 134
             +  +     +      +R  E+   + SG+   +  ++R ++    + +         
Sbjct: 64  SIINSIPETETLWIDNDRQRNDEFKTILRSGNCDDLIVLIRSIYLDKKKRKLDGKKACKG 123

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           + ++ ++A   +  E A +  I   E  + I+ ++  
Sbjct: 124 DDEIMQTAEKLIDEEFAVILDIRPEEVKSYIKSHIPQ 160


>gi|302385129|ref|YP_003820951.1| transcriptional regulator, CarD family [Clostridium saccharolyticum
           WM1]
 gi|302195757|gb|ADL03328.1| transcriptional regulator, CarD family [Clostridium saccharolyticum
           WM1]
          Length = 170

 Score = 64.0 bits (155), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 22/162 (13%), Positives = 60/162 (37%), Gaps = 11/162 (6%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMK--LEFFVIA--FDKDKMCLKVPVGKAIDIG 68
            ++ G++IV+ + G+  +  +   E+A M     ++ +   F K       PV     + 
Sbjct: 1   MYQVGDNIVFGSKGICRVEHVGVLEIADMPRNKMYYTLNPYFIKGS-KFYTPVDN-DKVI 58

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH----- 123
           MR +       + +  ++    +      RR  EY   +   D   + ++++ ++     
Sbjct: 59  MRPVIPKDEAMKLIDDIKNIDSLWVADEKRRESEYKEAMKRCDCRELVKIIKTIYFRKQS 118

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           R     + +  + + ++ A      E+A   ++        +
Sbjct: 119 RLKDGKKLTTIDTKYFKLAEENFYGELAISLNMDVKAVKEFV 160


>gi|218134019|ref|ZP_03462823.1| hypothetical protein BACPEC_01909 [Bacteroides pectinophilus ATCC
           43243]
 gi|217991394|gb|EEC57400.1| hypothetical protein BACPEC_01909 [Bacteroides pectinophilus ATCC
           43243]
          Length = 191

 Score = 64.0 bits (155), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 29/172 (16%), Positives = 66/172 (38%), Gaps = 9/172 (5%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAI 65
           R+  R  F  G+ +V   +GV  I +I + +    ++ ++++    +    + +PV    
Sbjct: 17  REMERHMFEKGDMVVCGNNGVCRIEKISKLDSIDSEVLYYIMQPVYEKSSTVYIPVEG-H 75

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
              +R +         +K +   + ++      R  +Y A +          ++R L+R 
Sbjct: 76  STPIRNIMTKDEAMDFIKKIPTISEIELAGDRERESQYKACMEPAQAEGWVRIIRTLYRR 135

Query: 126 DSQPE------KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           + +         +  ER + + A N +  E+A    + + E    IE  L  
Sbjct: 136 NEERAAAGKKTINMDERYM-KMAKNCLYGELAVSLGMKKDEVEAFIESILDK 186


>gi|255280659|ref|ZP_05345214.1| transcriptional regulator, CarD family [Bryantella formatexigens
           DSM 14469]
 gi|255268596|gb|EET61801.1| transcriptional regulator, CarD family [Bryantella formatexigens
           DSM 14469]
          Length = 222

 Score = 64.0 bits (155), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/182 (11%), Positives = 66/182 (36%), Gaps = 9/182 (4%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEI---KEQEVAGMKLEFFVIAFDKDKMCLK 58
             ++        F    ++V    GV  + ++   ++ +    K+ + +I   +    + 
Sbjct: 40  VSERNWQQEGTMFEVNNYVVKYNSGVCKVEDVLDGQKADFKDNKMYYLLIPLAEKSARIY 99

Query: 59  VPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEV 118
           +P+ +   + +R++         +  +             R  EY   + S D   + ++
Sbjct: 100 IPLERGEKV-LRRVLTYEEATELISRIPSIGMEFSQNDKLRELEYKEALQSLDCERMVQI 158

Query: 119 VRDLHRTDSQPEK-----SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           ++D++    + E      + ++ + +  A + +  E+A      E +   LI   + +  
Sbjct: 159 IKDIYGRKKRREIRGKKTTATDEKYFRQAEHALYMELAFSLGCREEDIPGLITEKIKTGD 218

Query: 174 SK 175
            +
Sbjct: 219 KR 220


>gi|302876047|ref|YP_003844680.1| transcription factor CarD [Clostridium cellulovorans 743B]
 gi|307686765|ref|ZP_07629211.1| transcription factor CarD [Clostridium cellulovorans 743B]
 gi|302578904|gb|ADL52916.1| transcription factor CarD [Clostridium cellulovorans 743B]
          Length = 174

 Score = 64.0 bits (155), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 24/171 (14%), Positives = 63/171 (36%), Gaps = 15/171 (8%)

Query: 13  GFRTGEHIVYPAHGVGTI--TEIKEQEVAGMKLEFFVI-AFDKDKMCLKVPVGKAIDIGM 69
            F+  ++I+Y  +GV  +    I    +   K +++ +    K+   +  PV     + M
Sbjct: 1   MFKINDYIIYGGNGVCRVLDIGIPAINIGDSKRKYYTLQQVYKNGSVIYTPVDNDRVV-M 59

Query: 70  RKLSEAHFVERALKLVRGKA---RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH--- 123
           RKL      +   + +            M   R +E   K    D   + ++++  +   
Sbjct: 60  RKLISKEEAKELTRNLDSIEILLIDDDKMLEERYKEVMNKY---DCTEMIKIIKTSYSRT 116

Query: 124 --RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
             R +   + +  + +  + A   +  E+A   + ++ +  + I+  +   
Sbjct: 117 KERLEQGKKNTMIDDKYLKIAEENLFGELAITLNRTKEQIKDFIDQQVRKP 167


>gi|110798653|ref|YP_694714.1| CarD family transcriptional regulator [Clostridium perfringens ATCC
           13124]
 gi|110673300|gb|ABG82287.1| transcriptional regulator, CarD family [Clostridium perfringens
           ATCC 13124]
          Length = 160

 Score = 63.2 bits (153), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 25/157 (15%), Positives = 64/157 (40%), Gaps = 13/157 (8%)

Query: 26  GVGTITEIKEQE-VAGMKLEFFVI-----AFDKDKMCLKVPVGKAIDIGMRKLSEAHFVE 79
           GV  + +I ++  +  ++ E++V+      + K  + +K+PV     I MR L     V 
Sbjct: 6   GVCQVIDITKETLMNNIEKEYYVLSPVYSKYPKKTV-IKIPVDN-KKISMRTLLSKEDVN 63

Query: 80  RALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY-----S 134
             +  +     +      +R  E+   + SG+   +  ++R ++    + +         
Sbjct: 64  SIINSIPETETLWIDNDRQRNDEFKTMLRSGNCDDLIVLIRSIYLDKKKRKLDGKKACKG 123

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           + ++ ++A   +  E A +  I   E  + I+ ++  
Sbjct: 124 DDEIMQTAEKLINEEFAVILDIRPEEVKSYIKSHIPQ 160


>gi|197303581|ref|ZP_03168619.1| hypothetical protein RUMLAC_02307 [Ruminococcus lactaris ATCC
           29176]
 gi|197297315|gb|EDY31877.1| hypothetical protein RUMLAC_02307 [Ruminococcus lactaris ATCC
           29176]
          Length = 162

 Score = 62.5 bits (151), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 34/162 (20%), Positives = 60/162 (37%), Gaps = 12/162 (7%)

Query: 17  GEHIVYPAHGVGTITEIKEQEV--AGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKLS 73
           G+ +VY   G+  + EI   +   A  K +++ +   +  K    VP     +  +R+  
Sbjct: 5   GDAVVYKCRGMYKVEEIGTLDFSFADSKKKYYTLQSIEDAKDKAYVPTD--DEKNIRRPV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  V     +       R QEY   I+         V+R L+    +     
Sbjct: 63  SFEEAKHLLDCVDKIEVLSVKNEKFREQEYKDCISDFKPENWVRVLRTLYTRTKRRGSMT 122

Query: 134 S-ERQ---LYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
           S +++   L E A   +  E+  V  IS  E   L+  NL+ 
Sbjct: 123 SMDKKYQMLLEHA---LYSEMQYVLGISAAELSRLLTSNLAK 161


>gi|269216663|ref|ZP_06160517.1| conserved hypothetical protein [Slackia exigua ATCC 700122]
 gi|269129897|gb|EEZ60980.1| conserved hypothetical protein [Slackia exigua ATCC 700122]
          Length = 205

 Score = 62.1 bits (150), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 24/164 (14%), Positives = 59/164 (35%), Gaps = 11/164 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEI-KEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
           +   + +VY  +GV  +T+  +     G    ++V+    K    + VP+       +R 
Sbjct: 35  YSVNDRVVYANYGVCIVTKTNEPLSFGGADRRYYVLEATRKRGGTVYVPMDHEDF--LRP 92

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQE--YDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +   + V   +              +    E  +   +   D +    V + +    ++ 
Sbjct: 93  ILSRNAVLDLVDRFPLIETDDFKDSNSHTVEDHFKQMLRENDCLQAMRVAKTMRERIAEQ 152

Query: 130 EK-----SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           E      S    +LY+ A+  ++ E +A   + E E + ++  +
Sbjct: 153 ESKRHIPSSMYTRLYDQAVGLVLSEFSAALDMPEDEVMRIMHES 196


>gi|325845329|ref|ZP_08168631.1| CarD-like protein [Turicibacter sp. HGF1]
 gi|325488648|gb|EGC91055.1| CarD-like protein [Turicibacter sp. HGF1]
          Length = 164

 Score = 62.1 bits (150), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 26/168 (15%), Positives = 65/168 (38%), Gaps = 16/168 (9%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE-FFVIA-FDKDKMCLKVPVGKAIDIGMR 70
            FR  ++I+Y   GV  +  I+E++      + F+V+      +M +K+PV   I   +R
Sbjct: 1   MFRMNDYIMYGLTGVCKVIGIEEEKFLDYPQQSFYVLEPVFSPQMTIKIPVLNTIK-NIR 59

Query: 71  KLSEAHFVERALKLVRGKARVKRTMW--SRRAQEYD--AKINSGDLIAIAEVVRDLHRTD 126
            +     V+  ++    K      +W    R +       + + +      V++ ++   
Sbjct: 60  PIHSTDEVKELIQ----KIPDLELLWIFDERERNNLFRQMLRNANCDEWIIVIKTIYSYK 115

Query: 127 -----SQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
                     + ++ ++++ A   +  E   V +I+  +    I   +
Sbjct: 116 YLDNYKGKRLNKNDDEIFKIAEKLLNEEFGFVLNINPDDVPTYIGECI 163


>gi|319956027|ref|YP_004167290.1| transcription-repair coupling factor [Nitratifractor salsuginis DSM
           16511]
 gi|319418431|gb|ADV45541.1| transcription-repair coupling factor [Nitratifractor salsuginis DSM
           16511]
          Length = 998

 Score = 60.9 bits (147), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 9/85 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R GE++V+  HGVG    I+++EV G   EF V+ +  +   L VPV     I  R +++
Sbjct: 360 RPGEYVVHETHGVGIFKGIEKREVLGATREFVVVQYQGED-TLLVPVENLEVID-RYIAD 417

Query: 75  AHFVERA-------LKLVRGKARVK 92
           +  +           K ++GK R K
Sbjct: 418 SGTLPALDRLGKASFKRLKGKVREK 442


>gi|289450323|ref|YP_003474448.1| CarD-like protein [Clostridiales genomosp. BVAB3 str. UPII9-5]
 gi|289184870|gb|ADC91295.1| CarD-like protein [Clostridiales genomosp. BVAB3 str. UPII9-5]
          Length = 210

 Score = 60.9 bits (147), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 29/162 (17%), Positives = 66/162 (40%), Gaps = 11/162 (6%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGM--KLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
            +  G++I+Y   GV  +  I +  + G+  + +++ +    D + + VP+    ++ MR
Sbjct: 1   MYNIGDYIIYGNSGVCKVITISKAPIEGLNPERDYYTLQPIFDSVMIYVPID--TEVFMR 58

Query: 71  KLSEAHFVERALKLVRG-KARVKRTMWSRR-AQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            L     VE  L+ +   K  +  T  S   A EY   INS     +  +++ + + + +
Sbjct: 59  PLMTVLEVEDLLRKIPDIKVSIISTNNSTELAGEYRKLINSHKSKDLVRLIKSIKKKNVK 118

Query: 129 PE-----KSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
            E        ++ +  + A      E++ +  I        +
Sbjct: 119 AEKEGRRIGLTDMRFLKQAEELFFGELSIILDIPIENVSEYV 160


>gi|83952971|ref|ZP_00961698.1| transcriptional regulator, CarD family protein [Roseovarius
          nubinhibens ISM]
 gi|83835633|gb|EAP74935.1| transcriptional regulator, CarD family protein [Roseovarius
          nubinhibens ISM]
          Length = 41

 Score = 60.9 bits (147), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 20/38 (52%), Positives = 29/38 (76%)

Query: 9  AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF 46
          + +  FR  +++VYPAHGVG I  I+EQE+AG++LE F
Sbjct: 4  SKKSEFRPNDYVVYPAHGVGQIVSIEEQEIAGIELELF 41


>gi|332652511|ref|ZP_08418256.1| putative transcriptional regulator, CarD family [Ruminococcaceae
           bacterium D16]
 gi|332517657|gb|EGJ47260.1| putative transcriptional regulator, CarD family [Ruminococcaceae
           bacterium D16]
          Length = 171

 Score = 60.1 bits (145), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/171 (14%), Positives = 61/171 (35%), Gaps = 16/171 (9%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVA-GMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
             F  G  IVY   GV  +  +       G K+E++ +   +    + VPV     + MR
Sbjct: 1   MMFSIGSLIVYSGTGVCRVEAVGPPPFDPGSKVEYYTLIPLQSTGTIYVPVD--TKVFMR 58

Query: 71  KLSEAHFVERAL----KLVRGK-ARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            +      +  +    ++ + +   +   M ++R + +     S     + ++++  +  
Sbjct: 59  PILSREAAQELIRRIPEIQQAQLEHLDYRMLAQRYRSFLD---SHSCEDLVQLIKTAYTK 115

Query: 126 DSQPEKSYS-----ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
                +S       ++   + A   +  E++A   I   E  + I   +  
Sbjct: 116 SRANTRSGKKPSKVDQDFQKRAEFLLHDELSAALDIPFDEVGDYITQQVEQ 166


>gi|153854148|ref|ZP_01995456.1| hypothetical protein DORLON_01447 [Dorea longicatena DSM 13814]
 gi|149753197|gb|EDM63128.1| hypothetical protein DORLON_01447 [Dorea longicatena DSM 13814]
          Length = 177

 Score = 59.8 bits (144), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/171 (15%), Positives = 63/171 (36%), Gaps = 9/171 (5%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD-KMCLKVPVGKAID 66
           +   + F+ G+++ +   GV  +  I + ++     E++ +    D    +  PV    D
Sbjct: 6   EQEAEMFKIGDYVAHYKEGVCEVVNIGKIDMGSSDKEYYTLKPVYDAGGTVYTPVDNKRD 65

Query: 67  IGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
             +RKL      E  +K +     +  T   +R   Y   +          +++  +  +
Sbjct: 66  Q-IRKLITKEEAENLIKEMPKIDIIGVTNEKQREGMYKNALLHNQCREWISLIKTSYGRN 124

Query: 127 SQPEK------SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
            +         +  ER +  SA   +  E+A V  I   +    ++ +L +
Sbjct: 125 KKRLLAGKKTINVDERYM-SSAEKFLYGELAVVMEIPRDKVSGYVKEHLDA 174


>gi|78777763|ref|YP_394078.1| transcription-repair coupling factor [Sulfurimonas denitrificans
           DSM 1251]
 gi|78498303|gb|ABB44843.1| Transcription-repair coupling factor [Sulfurimonas denitrificans
           DSM 1251]
          Length = 990

 Score = 59.0 bits (142), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 29/160 (18%), Positives = 54/160 (33%), Gaps = 44/160 (27%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K   +    + G+++V+  +GVG    I++ E+ G   +F VI +  D   + +PV   
Sbjct: 348 RKSSILLDDLKVGDYVVHEDYGVGIFEGIEQTEILGGVKDFIVIKYIGDD-KILLPVENL 406

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             I  R ++    V                           K+  G    + E V+    
Sbjct: 407 DAID-RYIASGGSVP-----------------------VLDKLGKGSFGKLKESVK---- 438

Query: 125 TDSQPEKSYSERQLYESALNRM----VREIAAVNSISEPE 160
                      ++L E A   +     RE+     I+  E
Sbjct: 439 -----------KRLLEIAGQIVNTAAARELITAPKINVDE 467


>gi|312194532|ref|YP_004014593.1| transcription-repair coupling factor [Frankia sp. EuI1c]
 gi|311225868|gb|ADP78723.1| transcription-repair coupling factor [Frankia sp. EuI1c]
          Length = 1215

 Score = 59.0 bits (142), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++++         G+ +V+ AHGVG   E+  + VAG K E+ V+ + K    L VP
Sbjct: 521 MPSRRRKGIDPLALAVGDLVVHEAHGVGRYIEMVTRTVAGAKREYLVLEYAKGD-RLYVP 579

Query: 61  VGKAIDI 67
                 +
Sbjct: 580 TDALEQV 586


>gi|291551083|emb|CBL27345.1| CarD-like/TRCF domain [Ruminococcus torques L2-14]
          Length = 159

 Score = 57.8 bits (139), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 31/159 (19%), Positives = 62/159 (38%), Gaps = 12/159 (7%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVA--GMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKLS 73
           G+ +VY   GV  + E+ + + +    K +++ +   D  +    VP+    D  +R+  
Sbjct: 5   GDAVVYKCRGVYKVEEVGKLDFSFVDGKKDYYTLQSIDNQRDKAYVPID--DDKNIRRPV 62

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  +     +       R QEY   I+S       +V++ L+    +     
Sbjct: 63  SEQKAKELLDNLAEVGILNVKNEKYREQEYKDCISSFCPENWVKVLKTLYSRTKRRGSMT 122

Query: 134 S-ERQ---LYESALNRMVREIAAVNSISEPEAINLIEVN 168
           S +++   L E A   +  E+  V  I   E   LI+ +
Sbjct: 123 SMDKKYQMLLEHA---LSSEMNYVLGIPAGEMTELIKKS 158


>gi|225389995|ref|ZP_03759719.1| hypothetical protein CLOSTASPAR_03745 [Clostridium asparagiforme
           DSM 15981]
 gi|225043952|gb|EEG54198.1| hypothetical protein CLOSTASPAR_03745 [Clostridium asparagiforme
           DSM 15981]
          Length = 145

 Score = 57.8 bits (139), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 21/138 (15%), Positives = 56/138 (40%), Gaps = 9/138 (6%)

Query: 37  EVAGMKLEFFVI--AFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRT 94
           + +G    ++ +  +F+ +   + +PV     + MR++      ER +      A     
Sbjct: 2   DFSGSDRLYYSLTPSFE-NDTTIYIPVDS-DKVLMREIMTKQEAERFVLSWPDIACEPHA 59

Query: 95  MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD-----SQPEKSYSERQLYESALNRMVRE 149
            +  +A+ +   + SG+ + +  +++++ R       S    S ++R + + A   +  E
Sbjct: 60  NYKEQAKAHQQILKSGNCLELGSMIKEITRQSISGKRSGKAMSGNQRDVIKIAQKLLYGE 119

Query: 150 IAAVNSISEPEAINLIEV 167
           ++    I   +    IE 
Sbjct: 120 LSVALDIEPAKIPEYIEK 137


>gi|325265224|ref|ZP_08131950.1| hypothetical protein HMPREF0240_04239 [Clostridium sp. D5]
 gi|324029628|gb|EGB90917.1| hypothetical protein HMPREF0240_04239 [Clostridium sp. D5]
          Length = 168

 Score = 57.8 bits (139), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/160 (14%), Positives = 54/160 (33%), Gaps = 12/160 (7%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA--GMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
             GE +VY   G+  + ++          + +++ +   +  +    VP     +  +RK
Sbjct: 2   NPGEVVVYKCKGMYKVEDVGTLNFGFVDRRKKYYTLQSMEDSRERAYVPTEDKEN--IRK 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                     +  +     +       R +EY   I+         V++ LH+       
Sbjct: 60  PVSRDEAIELIHELDEIEVLWIQNEKLREREYKDCISGYSPKDWVRVLKTLHKRTISRGS 119

Query: 132 --SYSER--QLYESALNRMVREIAAVNSISEPEAINLIEV 167
             S  ++  Q+ E A   +  E+     I + +  + I+ 
Sbjct: 120 ITSMDKKYQQMIEHA---LYSELGYALGIPQNKVEHFIQE 156


>gi|223984021|ref|ZP_03634178.1| hypothetical protein HOLDEFILI_01468 [Holdemania filiformis DSM
           12042]
 gi|223964006|gb|EEF68361.1| hypothetical protein HOLDEFILI_01468 [Holdemania filiformis DSM
           12042]
          Length = 196

 Score = 57.8 bits (139), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 26/177 (14%), Positives = 73/177 (41%), Gaps = 18/177 (10%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG-MKLEFFVIAFDKDKMCLKV-PVGKA 64
           +      F+  +++ Y + G+  + +I ++E+        +V++         V P    
Sbjct: 27  KGGTSFMFKEKDYVRYGSRGIFQVEQIIKKELKPRHPETCYVLSSVYGIHTQIVTPASNP 86

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMW--SRRAQE--YDAKINSGDLIAIAEVVR 120
               +R++     ++R +     +  +  + W   +R +E  Y + +  GD   +A+++ 
Sbjct: 87  Q---LRRVMNREEIDRMID----EMPLLESDWIDDKRKREETYRSILEEGDGHKLAQLII 139

Query: 121 DLH-----RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            ++     +   +   S ++ ++ E A + +  EI+    I + E  + +   L +K
Sbjct: 140 SIYSQKQDKLKDRKSLSRTDAEMLERAEDLLHEEISLSFKIKKEEVADYLLSRLKNK 196


>gi|291548411|emb|CBL21519.1| Transcriptional regulators, similar to M. xanthus CarD
           [Ruminococcus sp. SR1/5]
          Length = 183

 Score = 57.5 bits (138), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 25/171 (14%), Positives = 61/171 (35%), Gaps = 13/171 (7%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGM--KLEFFVIAFDKD--KMCLKVPVG 62
                + F TGE++VY   G+  +T +    V G   +  ++V+          +  PV 
Sbjct: 1   MKGSGKMFETGEYVVYGRTGICQVTGVTTMRVDGSSGEKLYYVLR-PGGETDGKIFTPVE 59

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
               + +R +      ER +  +     +       R   Y   I + +   +  +++ +
Sbjct: 60  GGKQV-LRGIITREEAERLIDEIPSIETLSIENEKFREDSYKKCIRTCECRDLLRIIKTI 118

Query: 123 HRTDSQPEKSYSER------QLYESALNRMVREIAAVNSISEPEAINLIEV 167
           +        S+ ++      +  + A + +  E + +  I +    + IE 
Sbjct: 119 YVRKQAR-LSHGKKTTATDERYLKLAEDHLYSEFSMLLDIPKEHMADYIEQ 168


>gi|160937901|ref|ZP_02085259.1| hypothetical protein CLOBOL_02795 [Clostridium bolteae ATCC
           BAA-613]
 gi|158439127|gb|EDP16881.1| hypothetical protein CLOBOL_02795 [Clostridium bolteae ATCC
           BAA-613]
          Length = 205

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/173 (13%), Positives = 66/173 (38%), Gaps = 10/173 (5%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKE--QEVAGMKLEFFVIA-FDKDKMCLKVPVGKAI 65
             +  ++ G++I+Y   GV  + +I    +        ++V+  + +    +  PV    
Sbjct: 34  GGKIMYQKGQYIIYGIRGVCEVMDIITIDRPDGPKDRLYYVLRPYYQQDSKIVTPVDSEK 93

Query: 66  DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
            I  R L         +  +     ++ T   +R + Y   + + D      +++ L+  
Sbjct: 94  TI-TRPLLSKEEALELIDKISDVKEMEVTNDKQREERYKEALKTCDCRVWISMIKALYLR 152

Query: 126 DSQ-----PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI-EVNLSSK 172
                    + +  + + +++A + +  E+A    + + E ++ I E  L+  
Sbjct: 153 RKDRLEQGKKMTDLDERYFKTAEDNLYSELALSLGMKKDEMVSYITERVLAEA 205


>gi|320528182|ref|ZP_08029347.1| hypothetical protein HMPREF9430_01471 [Solobacterium moorei F0204]
 gi|320131530|gb|EFW24095.1| hypothetical protein HMPREF9430_01471 [Solobacterium moorei F0204]
          Length = 169

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/178 (14%), Positives = 63/178 (35%), Gaps = 21/178 (11%)

Query: 10  MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIG 68
           M   ++  + +VY    V  IT  K  +  G +       F     + ++VPV       
Sbjct: 1   MISLYKVKDIVVY-RRDVCRITGKKRSDFTGEQCYILEPYFPTSGSVSIQVPVSN-KAGH 58

Query: 69  MRKLSEAHFVERA------LKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV--- 119
           +R L     + +       L+ +  K    ++        Y + +   D+  +  ++   
Sbjct: 59  IRDLITKEEINQLIIDTPDLETLESKPANMKSQ-------YASLLKGNDISELVRIIKTS 111

Query: 120 --RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSK 175
             R+  R +   + +  + +  + A   +  E++ V  +S  +     E  ++  S +
Sbjct: 112 YGRNQERLEQHKKLASIDDEYLQIAEKYLYEELSVVLDLSIEDTKEYFEKEVAKLSLE 169


>gi|289642495|ref|ZP_06474639.1| transcription-repair coupling factor [Frankia symbiont of Datisca
           glomerata]
 gi|289507669|gb|EFD28624.1| transcription-repair coupling factor [Frankia symbiont of Datisca
           glomerata]
          Length = 1238

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++++       R G+ +V+ AHGVG   E+  + VAG   E+ V+ + K    L VP
Sbjct: 547 MPHRRRKGIDPLALRAGDLVVHDAHGVGRYIEMVTRTVAGATREYLVLEYAKGD-RLYVP 605

Query: 61  VGKAIDI 67
             +   +
Sbjct: 606 TDQLEQV 612


>gi|323483615|ref|ZP_08088999.1| hypothetical protein HMPREF9474_00748 [Clostridium symbiosum
           WAL-14163]
 gi|323692577|ref|ZP_08106810.1| hypothetical protein HMPREF9475_01673 [Clostridium symbiosum
           WAL-14673]
 gi|323403042|gb|EGA95356.1| hypothetical protein HMPREF9474_00748 [Clostridium symbiosum
           WAL-14163]
 gi|323503443|gb|EGB19272.1| hypothetical protein HMPREF9475_01673 [Clostridium symbiosum
           WAL-14673]
          Length = 163

 Score = 56.7 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/156 (17%), Positives = 62/156 (39%), Gaps = 7/156 (4%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-CLKVPVGKAIDIGMRKLSEA 75
           G+++V+ +  V  + ++ E  + G K  +F++   +DK   + VP+ K     +R +   
Sbjct: 4   GDYMVHWSGKVCMVEDMAEMNLTGTKRMYFILTPVRDKAEKIYVPIEKTEGT-LRPVLSR 62

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE----- 130
                    +R    ++     +RAQEY     S D + +  + ++L++           
Sbjct: 63  KEAVSLAGRIRDIEPLQIKDEKQRAQEYKTAYYSQDYLNLVRIAKELYQRKESRGREGKK 122

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
               + Q+          E+A    +   E  N++E
Sbjct: 123 LPSKDAQMMLLVEKTFEEEMAVALGVETSEVKNMLE 158


>gi|139438721|ref|ZP_01772205.1| Hypothetical protein COLAER_01207 [Collinsella aerofaciens ATCC
           25986]
 gi|133775801|gb|EBA39621.1| Hypothetical protein COLAER_01207 [Collinsella aerofaciens ATCC
           25986]
          Length = 1210

 Score = 56.3 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 45/98 (45%), Gaps = 12/98 (12%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+  HG+   +EI  QEV G + ++F++ +      L VP+ +   I  R + 
Sbjct: 532 FKPGDYVVHATHGIALFSEIARQEVGGKERDYFLLEYADGD-KLYVPLEQVDRI-TRYVG 589

Query: 74  EAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKIN 108
                 R         R+    W+R   +A++   K+ 
Sbjct: 590 PDGDKPRL-------TRLNTADWTRATNKARKNAKKLA 620


>gi|229816037|ref|ZP_04446358.1| hypothetical protein COLINT_03090 [Collinsella intestinalis DSM
           13280]
 gi|229808351|gb|EEP44132.1| hypothetical protein COLINT_03090 [Collinsella intestinalis DSM
           13280]
          Length = 1192

 Score = 56.3 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 39/85 (45%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+  HG+   +EI  QEV G + ++F++ +      L VP+ +   I  R + 
Sbjct: 510 FKPGDYVVHATHGIALFSEIVRQEVGGKERDYFMLEYAGGD-KLYVPLEQVDRI-TRYVG 567

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+    WSR
Sbjct: 568 PDGDNPRL-------TRLNTADWSR 585


>gi|257783934|ref|YP_003179151.1| transcription-repair coupling factor [Atopobium parvulum DSM 20469]
 gi|257472441|gb|ACV50560.1| transcription-repair coupling factor [Atopobium parvulum DSM 20469]
          Length = 1147

 Score = 56.3 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+  HG+   T I  QEVAG + ++F++ +  D   L VP+ +   I  R + 
Sbjct: 484 FKPGDYVVHATHGIAHFTAIVRQEVAGRERDYFLLEYANDD-KLYVPLEQVDRI-TRYVG 541

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+    WSR
Sbjct: 542 PDGNNPRL-------TRLNTADWSR 559


>gi|295103998|emb|CBL01542.1| CarD-like/TRCF domain. [Faecalibacterium prausnitzii SL3/3]
          Length = 167

 Score = 56.3 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/165 (16%), Positives = 63/165 (38%), Gaps = 11/165 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMK-LEFFVIA--FDKDKMCLKVPVGKAIDIGMR 70
           F+ G  +VY   GV  +  +  +        E++ +   F        +P  K  +  +R
Sbjct: 4   FQAGALVVYGNLGVHEVEGVGLRRFCDESAREYYTLRPYFSDSHDRSYIPTEK--EAALR 61

Query: 71  KLSEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ- 128
            ++ A   E  L  ++  K  +   + +  A+ Y A +++ D      + ++L +  +Q 
Sbjct: 62  PVTPAQQAEADLARIKAEKLPIPAGVQTALAEHYQALLHTNDFYQYLTLFKELGQKQTQQ 121

Query: 129 ----PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
                + +  +   Y+     +  E+A     S+ EA   +   L
Sbjct: 122 QSRGRKINAMDTYFYQMVERVLREELAVAFGESQQEAGRRLLEVL 166


>gi|225570402|ref|ZP_03779427.1| hypothetical protein CLOHYLEM_06502 [Clostridium hylemonae DSM
           15053]
 gi|225160773|gb|EEG73392.1| hypothetical protein CLOHYLEM_06502 [Clostridium hylemonae DSM
           15053]
          Length = 168

 Score = 56.3 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/164 (11%), Positives = 57/164 (34%), Gaps = 6/164 (3%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            ++  + +VY    V  I +I   +       ++ +          + V    +  MR +
Sbjct: 1   MYKVNDVVVYGCSKVCFIKKIGTPDFMSKPQNYYWLQ-PVGDTTTMLYVKTEHEDKMRSI 59

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEV-----VRDLHRTDS 127
                 +  ++ +     +  +    R +EY   + S D     ++     V  + +   
Sbjct: 60  LTKGQADELMRELPEMEEMYDSSNKVRDREYIQVMKSRDCGEWLKMWKGITVEKMRKEQD 119

Query: 128 QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSS 171
               + S+    +   + +  E +AV   ++ + ++ +  +L +
Sbjct: 120 GKSLNASDESNLKRVQDCISSEFSAVFQTTKDKIVSRMRHSLGA 163


>gi|328956088|ref|YP_004373421.1| transcription-repair coupling factor [Coriobacterium glomerans PW2]
 gi|328456412|gb|AEB07606.1| transcription-repair coupling factor [Coriobacterium glomerans PW2]
          Length = 1187

 Score = 56.3 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 44/98 (44%), Gaps = 12/98 (12%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+++V+  HG+G    I  QEV G++ ++F++ +      L VP+ +   I  R + 
Sbjct: 508 YQPGDYVVHATHGIGRFASIVRQEVGGLERDYFLLEYADGD-KLYVPLEQVDRI-TRYVG 565

Query: 74  EAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKIN 108
                 R         R+    WSR   RA+    ++ 
Sbjct: 566 PDGSSPRL-------TRLNTADWSRATVRARNSAKRLA 596


>gi|210632030|ref|ZP_03297170.1| hypothetical protein COLSTE_01063 [Collinsella stercoris DSM 13279]
 gi|210159746|gb|EEA90717.1| hypothetical protein COLSTE_01063 [Collinsella stercoris DSM 13279]
          Length = 1195

 Score = 55.9 bits (134), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           F+ G+++V+  HGV    EI  QEV G + ++F++ +      L VP+ +   I
Sbjct: 512 FKPGDYVVHSTHGVALFAEIVRQEVGGKERDYFLLEYAGGD-KLYVPLEQVDRI 564


>gi|227874315|ref|ZP_03992500.1| CarD family transcriptional regulator [Oribacterium sinus F0268]
 gi|227839803|gb|EEJ50248.1| CarD family transcriptional regulator [Oribacterium sinus F0268]
          Length = 169

 Score = 55.9 bits (134), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 31/170 (18%), Positives = 61/170 (35%), Gaps = 9/170 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAG--MKLEFFVIA-FDKDKMCLKVPVGKAIDIGM 69
            +++G ++VY   GV  I       + G     E++++    K    +  PV  A    M
Sbjct: 1   MYQSGTYVVYGCKGVHKIIGTTHLNLEGIPKDKEYYILQAVKKPDGAVYAPVE-AGKTNM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----R 124
           R +      E  +  V     ++     +R +     I S    A+ +V++ L      R
Sbjct: 60  RSVMTREQAESFMLGVENIHALQCKTPKQREENCRDSIKSCAPDALLQVIKTLMERRVER 119

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                + +  +    E A + +  E++   SI   E    I  +   K+ 
Sbjct: 120 ARQGKKLTLLDLHFMEQAEDILYEELSISLSIPRVEVEERIHAHSPKKAG 169


>gi|229828411|ref|ZP_04454480.1| hypothetical protein GCWU000342_00472 [Shuttleworthia satelles DSM
           14600]
 gi|229793005|gb|EEP29119.1| hypothetical protein GCWU000342_00472 [Shuttleworthia satelles DSM
           14600]
          Length = 224

 Score = 55.9 bits (134), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/185 (15%), Positives = 73/185 (39%), Gaps = 12/185 (6%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA--GMKLEFFVIA-FDKDKMCLK 58
              +K   M++ +   + +V+ A GV  +  I  Q++   G + E++ +    +++  + 
Sbjct: 31  APARKPVKMKR-YCVDDFLVHEASGVCQVKAIIRQDLMGTGTEREYYDLNPVFENRSHVI 89

Query: 59  VPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEV 118
            PV       +R +S    ++     +     ++     +RA+ Y   + + D + +A +
Sbjct: 90  TPVESNRQ-RVRSVSSQRTMKEIFSRLADLELIEIKGDRQRAEYYRQILLNQDPMEMARL 148

Query: 119 VRDLHRTDS------QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK 172
           ++ ++  +       +   S  ER +  +A  ++  E+A +   S+          L   
Sbjct: 149 IKTIYYRNHMRIAQGKKTMSQDERTM-SAAKKKLFDEMAFILKDSQEALEIKFCEILDRD 207

Query: 173 SSKTE 177
               E
Sbjct: 208 DPSRE 212


>gi|152993618|ref|YP_001359339.1| transcription-repair coupling factor [Sulfurovum sp. NBC37-1]
 gi|151425479|dbj|BAF72982.1| transcription-repair coupling factor [Sulfurovum sp. NBC37-1]
          Length = 994

 Score = 55.5 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/85 (29%), Positives = 43/85 (50%), Gaps = 9/85 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HGVG    I++++V G   EF VI F +++  L +PV     I  R ++E
Sbjct: 357 KPGDYVVHENHGVGIFKGIEKRDVLGATSEFVVI-FYQNEDSLLIPVSSLEVID-RYVAE 414

Query: 75  AHFVERA-------LKLVRGKARVK 92
              +           K ++GK R K
Sbjct: 415 GGALPVLDRLGKASFKKLKGKVREK 439


>gi|260437232|ref|ZP_05791048.1| transcriptional regulator, CarD family [Butyrivibrio crossotus DSM
           2876]
 gi|292810545|gb|EFF69750.1| transcriptional regulator, CarD family [Butyrivibrio crossotus DSM
           2876]
          Length = 162

 Score = 55.5 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/163 (12%), Positives = 59/163 (36%), Gaps = 11/163 (6%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC-LKVPVGKAIDIGMRK 71
            F+  + +VY  +GV ++  I    +      ++ +    +K   +  PV     + MR+
Sbjct: 1   MFQINDLVVYGKNGVCSVKGIGTLSLINNDRIYYTLVPVYNKEEIIYAPVENGRIV-MRE 59

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAK--INSGDLIAIAEVVRDLH-----R 124
           +      +  + +              R +E   K  +   +   +A +++ ++     R
Sbjct: 60  VISREDAKELIDIFPDLEETVVAD--ERDRENCYKQTLLGCNCEKLASMIKTIYNRKCKR 117

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
                + +  + + +  A  ++  E+A    + + +   +I  
Sbjct: 118 ISEGKKVTVVDEKYFRQAEEQLFGELAFALDVDKTKISEMISE 160


>gi|303232983|ref|ZP_07319663.1| transcription-repair coupling factor [Atopobium vaginae PB189-T1-4]
 gi|302480910|gb|EFL43990.1| transcription-repair coupling factor [Atopobium vaginae PB189-T1-4]
          Length = 1138

 Score = 55.5 bits (133), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 12/98 (12%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+  HG+    +I  Q+V G   ++F++ +  D   L VP  +   +  R + 
Sbjct: 480 FKPGDYVVHATHGIALFKQIVRQDVGGKPRDYFLLIYANDD-KLYVPFEQVDRL-TRYIG 537

Query: 74  EAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKIN 108
                 R         R+    WSR   RA+    K+ 
Sbjct: 538 PDASHPRL-------TRLNCADWSRACSRARASAKKLA 568


>gi|271969774|ref|YP_003343970.1| transcription-repair coupling factor [Streptosporangium roseum DSM
           43021]
 gi|270512949|gb|ACZ91227.1| transcription-repair coupling factor [Streptosporangium roseum DSM
           43021]
          Length = 1204

 Score = 55.5 bits (133), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+H+V+  HGVG   E+ ++ V G   E+ VI + K    L VP  +  ++
Sbjct: 529 KVGDHVVHEQHGVGRYVEMVQRTVQGATREYLVIEYAKGD-RLYVPTDQLDEV 580


>gi|302336465|ref|YP_003801672.1| transcription-repair coupling factor [Olsenella uli DSM 7084]
 gi|301320305|gb|ADK68792.1| transcription-repair coupling factor [Olsenella uli DSM 7084]
          Length = 1171

 Score = 55.1 bits (132), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+  HG+   ++I  QEVAG + ++F++ +      L VP+ +   I  R + 
Sbjct: 507 FKPGDYVVHATHGIALFSDIVRQEVAGRERDYFLLEYAGGD-KLFVPLEQVDRI-TRYVG 564

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+    WSR
Sbjct: 565 PDGSSPRL-------TRLNTADWSR 582


>gi|239625522|ref|ZP_04668553.1| transcriptional regulator [Clostridiales bacterium 1_7_47_FAA]
 gi|239519752|gb|EEQ59618.1| transcriptional regulator [Clostridiales bacterium 1_7_47FAA]
          Length = 171

 Score = 55.1 bits (132), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/163 (14%), Positives = 62/163 (38%), Gaps = 9/163 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAG--MKLEFFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F  G++I+Y   GV  I +IK  +  G      ++ +  +      +  PV     + +
Sbjct: 1   MFEKGQYIIYGIRGVCEIMDIKTIDRPGGPKGKLYYELRPYYHQDCKIVTPVDSDKTV-I 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ- 128
           R L         +  ++    ++ T   +R + Y   + + D      +++ L+      
Sbjct: 60  RPLLTRDEALCLIDRIQDVKEMEVTEDKQREERYKEALKTCDCHVWVSMIKALYLRRQDR 119

Query: 129 ----PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
                + +  + + +++A   +  E+A    +   + ++ I+ 
Sbjct: 120 TRQGKKMTDLDERYFKTAEENLYSELALSLEMPREKVVDYIKS 162


>gi|57239455|ref|YP_180591.1| transcription-repair coupling factor [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58579431|ref|YP_197643.1| transcription-repair coupling factor [Ehrlichia ruminantium str.
           Welgevonden]
 gi|57161534|emb|CAH58461.1| transcription-repair coupling factor [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58418057|emb|CAI27261.1| Transcription-repair coupling factor [Ehrlichia ruminantium str.
           Welgevonden]
          Length = 1122

 Score = 54.8 bits (131), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 29/159 (18%), Positives = 62/159 (38%), Gaps = 18/159 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +++  +G+G I +++  +V     +F  I +  +   L +PV          L  
Sbjct: 466 NIGDIVIHKDYGIGKIAKLETIKVLDNYHDFLKIEYYNND-KLFLPVENIN------LIT 518

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
            +  + +   +    R+  T W +R      K+ +  +  IA   ++L R ++  +    
Sbjct: 519 RYSNQDSNITL---DRLGSTSWQQR----QTKLKN-HIQKIA---KELIRIEAARQLMQG 567

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
              L  +       E A   +  + +AI  IE +LS   
Sbjct: 568 TPFLPNNTYKNFCDEFAYTETTDQLQAIQDIENDLSGGK 606


>gi|226309690|ref|YP_002769584.1| transcription-repair coupling factor [Brevibacillus brevis NBRC
           100599]
 gi|226092638|dbj|BAH41080.1| transcription-repair coupling factor [Brevibacillus brevis NBRC
           100599]
          Length = 1182

 Score = 54.8 bits (131), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    I+ +E+ G+  ++  I +      L VP+ +   +  + ++ 
Sbjct: 503 KPGDFVVHVNHGIGKYLGIETKEILGIHKDYLHIQYAAGDS-LFVPIDQIDHVQ-KYVAS 560

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +   L         + W R       K+ S  +  IAE   DL +  +  E +  
Sbjct: 561 EEAQPKIYSL-------GGSEWKR----VKNKVQS-SVKDIAE---DLIKLYAARESAVG 605


>gi|58617486|ref|YP_196685.1| transcription-repair coupling factor [Ehrlichia ruminantium str.
           Gardel]
 gi|58417098|emb|CAI28211.1| Transcription-repair coupling factor [Ehrlichia ruminantium str.
           Gardel]
          Length = 1123

 Score = 54.8 bits (131), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 29/159 (18%), Positives = 63/159 (39%), Gaps = 18/159 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +++  +G+G I +++  +V     +F  I +  +   L +PV          L  
Sbjct: 467 NIGDIVIHKDYGIGKIAKLETIKVLDNYHDFLKIEYYNND-KLFLPVENIN------LIT 519

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
            +  + +   +    R+  T W +R      K+ +  +  IA   ++L + ++  +    
Sbjct: 520 RYSNQDSNITL---DRLGSTSWQQR----QTKLKN-HIQKIA---KELIKIEAARQLMQG 568

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
              L  +       E A   +  + +AI  IE +LSS  
Sbjct: 569 TPFLPNNIYKNFCDEFAYTETTDQLQAIQDIENDLSSGK 607


>gi|319654942|ref|ZP_08009016.1| transcription-repair coupling factor [Bacillus sp. 2_A_57_CT2]
 gi|317393367|gb|EFV74131.1| transcription-repair coupling factor [Bacillus sp. 2_A_57_CT2]
          Length = 1179

 Score = 54.8 bits (131), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +  + +  
Sbjct: 500 KVGDYVVHVNHGIGKYLGIETLEINGVHKDYLHIRYQGSD-KLYVPVEQIELVQ-KYVGS 557

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +  KL           W R       K+ S  +  IA+   DL +  ++ E S  
Sbjct: 558 EAKEPKIYKL-------GGNDWKR----VKKKVQS-SVQDIAD---DLIKLYAEREASKG 602


>gi|253580271|ref|ZP_04857537.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251848364|gb|EES76328.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 171

 Score = 54.8 bits (131), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 23/163 (14%), Positives = 56/163 (34%), Gaps = 11/163 (6%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMK--LEFFVIA-FDKDKMCLKVPVGKAIDIG 68
             +  G+ +  P  G+  I  I        K    ++++   + +K  + VPV    D  
Sbjct: 1   MKYEIGDFVSKPVTGICKIENILYLNPQDEKNDKLYYLMKPVEDEKEKIYVPVSN-SDSR 59

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           +R           +K +             R Q Y   + + +  A+  +++ +++   Q
Sbjct: 60  LRLCLTKEEAWNLIKRIPDIPTAWTNNEKMREQNYKEAVRANNPEALVAIIKMIYQR-KQ 118

Query: 129 PEKSYSER------QLYESALNRMVREIAAVNSISEPEAINLI 165
              +  ++      + ++ A N +  E+       + E    I
Sbjct: 119 KRLAQGKKCTATDARYFQIAENLLYMELGVALEKPKQEICKTI 161


>gi|167772369|ref|ZP_02444422.1| hypothetical protein ANACOL_03746 [Anaerotruncus colihominis DSM
           17241]
 gi|167665472|gb|EDS09602.1| hypothetical protein ANACOL_03746 [Anaerotruncus colihominis DSM
           17241]
          Length = 1157

 Score = 54.0 bits (129), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 5/60 (8%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI----GMRK 71
            G+++V+ AHG+G    I ++++ G+  ++  I +      L VPV +   +    GMR 
Sbjct: 493 PGDYVVHTAHGIGVFEGIVKRDIQGVVKDYIKIRYAGTD-TLFVPVTQLDLVSKYIGMRD 551


>gi|85707555|ref|ZP_01038627.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           217]
 gi|85667927|gb|EAQ22816.1| transcriptional regulator, CarD family protein [Roseovarius sp.
           217]
          Length = 51

 Score = 54.0 bits (129), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/51 (49%), Positives = 36/51 (70%)

Query: 124 RTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           R+D Q E+SYSERQLYE+AL R+ RE+AAV+   E  A   ++  L S+++
Sbjct: 1   RSDDQREQSYSERQLYEAALERLTREVAAVSGGDEVLAARQVDEVLVSRAA 51


>gi|269215535|ref|ZP_06159389.1| transcription-repair coupling factor [Slackia exigua ATCC 700122]
 gi|269131022|gb|EEZ62097.1| transcription-repair coupling factor [Slackia exigua ATCC 700122]
          Length = 1150

 Score = 54.0 bits (129), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+ AHGV     +  Q+V G   ++  + + ++   L VPV +   I  R + 
Sbjct: 485 FKPGDYVVHAAHGVAFFRGLVRQDVGGTMRDYLQLEYAEND-KLFVPVEQLDRI-TRYVG 542

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+  + WSR
Sbjct: 543 PEGSSPRL-------TRLNTSDWSR 560


>gi|111225581|ref|YP_716375.1| transcription-repair coupling factor [Frankia alni ACN14a]
 gi|111153113|emb|CAJ64860.1| Transcription-repair coupling factor (TRCF) [Frankia alni ACN14a]
          Length = 1246

 Score = 54.0 bits (129), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++++         G+ +V+ AHGVG   E+  + VAG K E+ ++ + +    L VP
Sbjct: 558 MPSRRRKGIDPLALVPGDMVVHDAHGVGRYVEMVTRTVAGAKREYLLLEYARGD-RLYVP 616

Query: 61  VGKAIDI 67
             +   I
Sbjct: 617 TDQLEQI 623


>gi|56961865|ref|YP_173587.1| transcription-repair coupling factor [Bacillus clausii KSM-K16]
 gi|56908099|dbj|BAD62626.1| transcription-repair coupling factor [Bacillus clausii KSM-K16]
          Length = 1180

 Score = 54.0 bits (129), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 48/121 (39%), Gaps = 17/121 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    ++  E+ G+  ++  + +  +   L VPV +   +  + +   
Sbjct: 503 VGDLVVHTNHGVGKYLGVETLEINGVHKDYLNLRYAGND-KLYVPVEQIDQVQ-KYVGTE 560

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSE 135
               +   L         + W +       K+ +  +  IA+   DL +  ++ E S   
Sbjct: 561 EKDPKIYAL-------GGSDWKK----VKKKVQT-SVEDIAD---DLIKLYAEREASVGH 605

Query: 136 R 136
           R
Sbjct: 606 R 606


>gi|313681651|ref|YP_004059389.1| transcription-repair coupling factor [Sulfuricurvum kujiense DSM
           16994]
 gi|313154511|gb|ADR33189.1| transcription-repair coupling factor [Sulfuricurvum kujiense DSM
           16994]
          Length = 995

 Score = 54.0 bits (129), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  +GVG    I++ E+ G   +  VI +  D   L +PV     I  R ++ 
Sbjct: 358 KVGDYVVHEEYGVGIFVGIEQAEILGGVKDLVVIKYMGDD-KLLLPVENLDTID-RYIAS 415


>gi|86742605|ref|YP_483005.1| transcription-repair coupling factor [Frankia sp. CcI3]
 gi|86569467|gb|ABD13276.1| transcription-repair coupling factor [Frankia sp. CcI3]
          Length = 1208

 Score = 54.0 bits (129), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++++         G+ +V+ AHGVG   E+  + VAG K E+ ++ + +    L VP
Sbjct: 519 MPSRRRKGIDPLALLPGDMVVHDAHGVGRYVEMVTRTVAGAKREYLLLEYARGD-RLYVP 577

Query: 61  VGKAIDI 67
             +   I
Sbjct: 578 TDQLEQI 584


>gi|291520415|emb|CBK75636.1| CarD-like/TRCF domain [Butyrivibrio fibrisolvens 16/4]
          Length = 177

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/168 (16%), Positives = 59/168 (35%), Gaps = 17/168 (10%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEV--AGMKLEFFVIA-FDKDKMCLKVPVGKAIDIG 68
             +R G+ +V+   GV  I +I + E+   G K  ++ +A   K    +  PV     + 
Sbjct: 1   MDYRVGDFLVHEGSGVCKIEDIDDMELMGKGSKKTYYCMAPVFKAGAKVFTPVIG-STVR 59

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSG----DLIAIAEVVRDLHR 124
           +R ++        L+ +     +         +    K           ++A VV+ +  
Sbjct: 60  LRPVAAEATFNEILENIDDIECINEPN----DRMLQEKFKEVMAEFTPESLARVVKTVLI 115

Query: 125 TDSQPEKSYS-----ERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              Q  +S       + ++   A  ++  E+A         A +L E 
Sbjct: 116 RKWQRLESGKKVMAIDEKILSVAGRKLYEEMAFSMGKDISYAQHLFED 163


>gi|302671192|ref|YP_003831152.1| CarD family transcriptional regulator [Butyrivibrio proteoclasticus
           B316]
 gi|302395665|gb|ADL34570.1| transcriptional regulator CarD family [Butyrivibrio proteoclasticus
           B316]
          Length = 172

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/172 (17%), Positives = 64/172 (37%), Gaps = 11/172 (6%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA--GMKLEFFVIAFDKD-KMCLKVPVGKAIDIGMRK 71
             GE ++Y +HG+  + EI        G + +++++    D    L VPV  A D  +R+
Sbjct: 3   NIGECVIYGSHGLCQVREILVPSFLERGKEKQYYMMISAVDAGSVLYVPVEGAED-KIRE 61

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++ A   E  ++ +     +      +        I   D+  +  +V+ L +  +  E 
Sbjct: 62  VTGADNAEDLIEDIEEVDEILLPEGKKAEPAMLEIIKRNDVEEMMGLVKSLRKIKATRE- 120

Query: 132 SYSER------QLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTE 177
           +  +R      +    A   +  E+A      +      +   LS    +T 
Sbjct: 121 AQGKRFATLNERYLNLAEKLLYTELAYSLETEKETIKRRVLEMLSELPLETA 172


>gi|159899175|ref|YP_001545422.1| transcription-repair coupling factor [Herpetosiphon aurantiacus
           ATCC 23779]
 gi|159892214|gb|ABX05294.1| transcription-repair coupling factor [Herpetosiphon aurantiacus
           ATCC 23779]
          Length = 1207

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 1/66 (1%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
             +  R A  Q  + G+++V+  HG+     +   E +G + EF V+ +      L VPV
Sbjct: 494 RTESDRTAFLQSLKVGDYVVHIEHGIAQYEGLSRIEASGAEREFLVLRYASGD-KLYVPV 552

Query: 62  GKAIDI 67
            +   +
Sbjct: 553 DQVDRV 558


>gi|317124068|ref|YP_004098180.1| transcription-repair coupling factor [Intrasporangium calvum DSM
           43043]
 gi|315588156|gb|ADU47453.1| transcription-repair coupling factor [Intrasporangium calvum DSM
           43043]
          Length = 1208

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 32/141 (22%), Positives = 56/141 (39%), Gaps = 23/141 (16%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  +++        R G+H+V+  HGVG   E+ ++ VAG   E+ VI +          
Sbjct: 506 MPSRRRNQVDPLQLRPGDHVVHEQHGVGRFVEMMQRTVAGATREYLVIEYAAS------- 558

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTM----WSR---RAQEYDAKINSGDLI 113
             K    G R       +++  K V G+      M    W+R   RA+ Y  +I      
Sbjct: 559 --KRGQPGDRLYVPTDQLDQVTKYVGGEEPTLNKMGGSDWTRTKSRAKRYVKQIA----- 611

Query: 114 AIAEVVRDLHRTDSQPEKSYS 134
             A+++R      +    ++S
Sbjct: 612 --ADLIRLYSARQATKGHAFS 630


>gi|51894370|ref|YP_077061.1| transcription-repair coupling factor [Symbiobacterium thermophilum
           IAM 14863]
 gi|51858059|dbj|BAD42217.1| transcription-repair coupling factor [Symbiobacterium thermophilum
           IAM 14863]
          Length = 1243

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 33/64 (51%), Gaps = 1/64 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           Q  R A  Q  + G+++V+  HG+G    ++ + + G+  ++ VI ++     LK+P  +
Sbjct: 555 QGARIASYQDLQVGDYVVHATHGIGRYLGVRSETILGVTRDYLVIQYEGSD-RLKIPTEQ 613

Query: 64  AIDI 67
              I
Sbjct: 614 VDQI 617


>gi|296271090|ref|YP_003653722.1| transcription-repair coupling factor [Thermobispora bispora DSM
           43833]
 gi|296093877|gb|ADG89829.1| transcription-repair coupling factor [Thermobispora bispora DSM
           43833]
          Length = 1164

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HGVG   E+ ++ V G   E+ VI + K    L VP  +  ++
Sbjct: 490 KPGDYVVHEQHGVGRYVEMVQRTVQGATREYLVIEYAKGD-RLYVPTDQLDEV 541


>gi|15612632|ref|NP_240935.1| transcription-repair coupling factor (TRCF) [Bacillus halodurans
           C-125]
 gi|10172681|dbj|BAB03788.1| transcription-repair coupling factor (TRCF) [Bacillus halodurans
           C-125]
          Length = 1181

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    I+  E+ G+  ++  I +  +   L VPV +   +
Sbjct: 502 KVGDLVVHTNHGIGKYLGIETLEINGVHKDYLHIRYAGND-KLYVPVEQIDQV 553


>gi|288917959|ref|ZP_06412318.1| transcription-repair coupling factor [Frankia sp. EUN1f]
 gi|288350614|gb|EFC84832.1| transcription-repair coupling factor [Frankia sp. EUN1f]
          Length = 1189

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++++         G+ +V+ AHGVG   E+  + VAG K E+ ++ + +    L VP
Sbjct: 502 MPSRRRKGIDPLALTAGDLVVHDAHGVGRYVEMVTRTVAGAKREYLLLEYARGD-RLYVP 560

Query: 61  VGKAIDI 67
             +   +
Sbjct: 561 TDQLEQV 567


>gi|313680042|ref|YP_004057781.1| transcription factor card [Oceanithermus profundus DSM 14977]
 gi|313152757|gb|ADR36608.1| transcription factor CarD [Oceanithermus profundus DSM 14977]
          Length = 986

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/96 (21%), Positives = 41/96 (42%), Gaps = 12/96 (12%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+P HG+G    ++ +EV G   ++ V+ +  +   L VPV +   +  R    + 
Sbjct: 332 GDYLVHPEHGIGRFEGLESREVLGAVRDYLVLRYAGEG-QLYVPVEQLPLLR-RHPGTSD 389

Query: 77  FVERALKLVRGKARVKRTMWSR---RAQEYDAKINS 109
              R        + + +  W R   RAQ     +  
Sbjct: 390 EPPRL-------SSLGKKDWQRAKARAQADAEALAQ 418


>gi|56418583|ref|YP_145901.1| transcription-repair coupling factor [Geobacillus kaustophilus
           HTA426]
 gi|56378425|dbj|BAD74333.1| transcription-repair coupling factor [Geobacillus kaustophilus
           HTA426]
          Length = 1177

 Score = 53.6 bits (128), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 49/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +  + +  
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGGD-TLYVPVDQIDQVQ-KYVGS 558

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +  KL         + W +       K+ S  +  IAE   DL +  ++ E S  
Sbjct: 559 EGKEPKIYKL-------GGSEWKK----VKRKVES-SVQDIAE---DLIKLYAEREASKG 603


>gi|194018017|ref|ZP_03056624.1| transcription-repair coupling factor [Bacillus pumilus ATCC 7061]
 gi|194010354|gb|EDW19929.1| transcription-repair coupling factor [Bacillus pumilus ATCC 7061]
          Length = 1177

 Score = 53.2 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 49/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +  +K   
Sbjct: 501 QVGDYVVHINHGIGKYLGIETLEIGGIHKDYLNIHYQGSD-KLYVPVEQIDQV--QKYVG 557

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +   E  L  + G      + W R       K     +  IA+   DL +  ++ E S  
Sbjct: 558 SEGKEPKLYKLGG------SDWKR-----VKKKVESSVQDIAD---DLIKLYAEREASKG 603


>gi|167757261|ref|ZP_02429388.1| hypothetical protein CLORAM_02811 [Clostridium ramosum DSM 1402]
 gi|237735655|ref|ZP_04566136.1| transcriptional regulator [Mollicutes bacterium D7]
 gi|167703436|gb|EDS18015.1| hypothetical protein CLORAM_02811 [Clostridium ramosum DSM 1402]
 gi|229381400|gb|EEO31491.1| transcriptional regulator [Coprobacillus sp. D7]
          Length = 186

 Score = 53.2 bits (127), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 29/175 (16%), Positives = 62/175 (35%), Gaps = 15/175 (8%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMK--LEFFVIAFDKDKMCLKVPVGK 63
            R      +  G+ I+Y    V  I  I    +       +++ +          VP+  
Sbjct: 12  NRKLGGYVYEKGDLIIYGNQSVCRIENIGVISIGKQPNSRKYYTLNPIFMDGKTYVPID- 70

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQE----YDAKINSGDLIAIAEVV 119
              + MR L     +ER L   R     K  + ++  ++    Y   I+      + +++
Sbjct: 71  -TQVYMRHLISIEELERLLT--RHPKVQKEIIENQNLRQLTDYYKETISQYTCDGLIQLI 127

Query: 120 RDLHRTDS-----QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
            +L              S ++ +  + A + + +E AAV +I +   +  IE  +
Sbjct: 128 CNLQAKQKNLLLQNKRLSQTDERYKKEAEDLLHQEFAAVLNIPKEAVMAYIENKI 182


>gi|157690837|ref|YP_001485299.1| transcription-repair coupling factor [Bacillus pumilus SAFR-032]
 gi|157679595|gb|ABV60739.1| transcription-repair coupling factor [Bacillus pumilus SAFR-032]
          Length = 1177

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 49/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +  +K   
Sbjct: 501 QVGDYVVHINHGIGKYLGIETLEIGGIHKDYLNIHYQGSD-KLYVPVEQIDQV--QKYVG 557

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +   E  L  + G      + W R       K     +  IA+   DL +  ++ E S  
Sbjct: 558 SEGKEPKLYKLGG------SDWKR-----VKKKVESSVQDIAD---DLIKLYAEREASKG 603


>gi|261417548|ref|YP_003251230.1| transcription-repair coupling factor [Geobacillus sp. Y412MC61]
 gi|319765205|ref|YP_004130706.1| transcription-repair coupling factor [Geobacillus sp. Y412MC52]
 gi|261374005|gb|ACX76748.1| transcription-repair coupling factor [Geobacillus sp. Y412MC61]
 gi|317110071|gb|ADU92563.1| transcription-repair coupling factor [Geobacillus sp. Y412MC52]
          Length = 1177

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGGD-TLYVPVDQIDQV 552


>gi|309790907|ref|ZP_07685449.1| transcription-repair coupling factor [Oscillochloris trichoides
           DG6]
 gi|308227021|gb|EFO80707.1| transcription-repair coupling factor [Oscillochloris trichoides
           DG6]
          Length = 1171

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           R A  +G + G+++V+  HG+     +  + V  ++ E+ V+ +      + VPV +   
Sbjct: 482 RAAFLRGLKVGDYVVHIEHGIAIYDGLIRRTVGEIEREYLVLRYAAGD-KIYVPVDQIDR 540

Query: 67  I 67
           +
Sbjct: 541 V 541


>gi|297528423|ref|YP_003669698.1| transcription-repair coupling factor [Geobacillus sp. C56-T3]
 gi|297251675|gb|ADI25121.1| transcription-repair coupling factor [Geobacillus sp. C56-T3]
          Length = 1177

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGGD-TLYVPVDQIDQV 552


>gi|118475824|ref|YP_892975.1| transcription-repair coupling factor [Bacillus thuringiensis str.
           Al Hakam]
 gi|118415049|gb|ABK83468.1| transcription-repair coupling factor [Bacillus thuringiensis str.
           Al Hakam]
          Length = 1207

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 532 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 583


>gi|89100521|ref|ZP_01173382.1| transcription-repair coupling factor [Bacillus sp. NRRL B-14911]
 gi|89084787|gb|EAR63927.1| transcription-repair coupling factor [Bacillus sp. NRRL B-14911]
          Length = 1179

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 46/120 (38%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +  + +  
Sbjct: 502 KIGDYVVHVNHGIGKYLGIETLEINGLHKDYLNIRYSGSD-QLYVPVDQIDLVQ-KYVGS 559

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +  KL           W R       K     +  IA+   DL +  ++ E S  
Sbjct: 560 EGKEPKIYKL-------GGNDWKR-----VKKKVESSVQDIAD---DLIKLYAEREASKG 604


>gi|295397825|ref|ZP_06807889.1| transcription-repair coupling factor [Aerococcus viridans ATCC
           11563]
 gi|294973922|gb|EFG49685.1| transcription-repair coupling factor [Aerococcus viridans ATCC
           11563]
          Length = 1233

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +    +R    Q    G+++V+  HG+G  T I+  E AG   ++  I F  D+  + VP
Sbjct: 487 LISNAERIKNYQQLEVGDYVVHVNHGIGRYTGIETIEFAGTHQDYLTIVFA-DQAAIHVP 545

Query: 61  VGKAIDI 67
           + +   +
Sbjct: 546 IDQIDLV 552


>gi|73667378|ref|YP_303394.1| transcription-repair coupling factor [Ehrlichia canis str. Jake]
 gi|72394519|gb|AAZ68796.1| transcription-repair coupling factor [Ehrlichia canis str. Jake]
          Length = 1128

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 64/160 (40%), Gaps = 22/160 (13%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +++  +G+G I E++  +V     +F  I +  +   L +PV          L   
Sbjct: 471 IGDIVIHKDYGIGKIVELETTKVLDSYHDFIKIEYYNND-KLFLPVENIN------LISK 523

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSE 135
           +  +     +    ++  T W +R      KI +  +  IA   R+L   ++  + S   
Sbjct: 524 YGQQNPNVTL---DKLGSTSWQQR----KTKIKN-HIKKIA---RELLAIEAARKLSTG- 571

Query: 136 RQLY--ESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
            Q++  +        E +   +  + +AI  +E +LSS  
Sbjct: 572 -QIFCKDENYQHFCNEFSYTETEDQLQAIKDMEHDLSSGK 610


>gi|73663562|ref|YP_302343.1| transcription-repair coupling factor [Staphylococcus saprophyticus
           subsp. saprophyticus ATCC 15305]
 gi|123761497|sp|Q49V12|MFD_STAS1 RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|72496077|dbj|BAE19398.1| transcription-repair coupling factor [Staphylococcus saprophyticus
           subsp. saprophyticus ATCC 15305]
          Length = 1170

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q  + G+++V+  HGVG    ++  EV G+  ++  + +      L VPV +   +
Sbjct: 495 QDLKVGDYVVHVHHGVGRYLGVETLEVGGVHKDYIKLQYKGTD-QLFVPVDQMDQV 549


>gi|158312659|ref|YP_001505167.1| transcription-repair coupling factor [Frankia sp. EAN1pec]
 gi|158108064|gb|ABW10261.1| transcription-repair coupling factor [Frankia sp. EAN1pec]
          Length = 1188

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  ++++         G+ +V+ AHGVG   E+  + VAG K E+ ++ + +    L VP
Sbjct: 501 MPSRRRKGIDPLALSAGDLVVHDAHGVGRYVEMVTRTVAGAKREYLLLEYARGD-RLYVP 559

Query: 61  VGKAIDI 67
             +   I
Sbjct: 560 TDQLEQI 566


>gi|228963154|ref|ZP_04124324.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar sotto str. T04001]
 gi|228796539|gb|EEM43977.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar sotto str. T04001]
          Length = 1067

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 392 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 443


>gi|228898807|ref|ZP_04063090.1| Transcription-repair-coupling factor [Bacillus thuringiensis IBL
           4222]
 gi|228860832|gb|EEN05209.1| Transcription-repair-coupling factor [Bacillus thuringiensis IBL
           4222]
          Length = 1176

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|75759615|ref|ZP_00739701.1| Transcription-repair coupling factor [Bacillus thuringiensis
           serovar israelensis ATCC 35646]
 gi|74492906|gb|EAO56036.1| Transcription-repair coupling factor [Bacillus thuringiensis
           serovar israelensis ATCC 35646]
          Length = 1186

 Score = 53.2 bits (127), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 511 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 562


>gi|228970242|ref|ZP_04130902.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar thuringiensis str. T01001]
 gi|228789477|gb|EEM37396.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar thuringiensis str. T01001]
 gi|326937845|gb|AEA13741.1| transcription-repair coupling factor [Bacillus thuringiensis
           serovar chinensis CT-43]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|218895189|ref|YP_002443600.1| transcription-repair coupling factor [Bacillus cereus G9842]
 gi|218545395|gb|ACK97789.1| transcription-repair coupling factor [Bacillus cereus G9842]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|218231044|ref|YP_002364903.1| transcription-repair coupling factor [Bacillus cereus B4264]
 gi|218159001|gb|ACK58993.1| transcription-repair coupling factor [Bacillus cereus B4264]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229039959|ref|ZP_04189723.1| Transcription-repair-coupling factor [Bacillus cereus AH676]
 gi|229107740|ref|ZP_04237377.1| Transcription-repair-coupling factor [Bacillus cereus Rock1-15]
 gi|296500886|ref|YP_003662586.1| transcription-repair coupling factor [Bacillus thuringiensis
           BMB171]
 gi|228675713|gb|EEL30920.1| Transcription-repair-coupling factor [Bacillus cereus Rock1-15]
 gi|228727367|gb|EEL78560.1| Transcription-repair-coupling factor [Bacillus cereus AH676]
 gi|296321938|gb|ADH04866.1| transcription-repair coupling factor [Bacillus thuringiensis
           BMB171]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229142859|ref|ZP_04271302.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-ST24]
 gi|228640622|gb|EEK97009.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-ST24]
          Length = 1183

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 508 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 559


>gi|229148463|ref|ZP_04276720.1| Transcription-repair-coupling factor [Bacillus cereus m1550]
 gi|228635005|gb|EEK91577.1| Transcription-repair-coupling factor [Bacillus cereus m1550]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|30018324|ref|NP_829955.1| transcription-repair coupling factor [Bacillus cereus ATCC 14579]
 gi|229125571|ref|ZP_04254604.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-Cer4]
 gi|29893864|gb|AAP07156.1| Transcription-repair coupling factor [Bacillus cereus ATCC 14579]
 gi|228657888|gb|EEL13693.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-Cer4]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|254724194|ref|ZP_05185979.1| transcription-repair coupling factor [Bacillus anthracis str.
           A1055]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|228919004|ref|ZP_04082384.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
 gi|228840653|gb|EEM85914.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|228956495|ref|ZP_04118292.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar pakistani str. T13001]
 gi|228803185|gb|EEM50006.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar pakistani str. T13001]
          Length = 1183

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 508 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 559


>gi|228937356|ref|ZP_04100003.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar berliner ATCC 10792]
 gi|228976812|ref|ZP_04137225.1| Transcription-repair-coupling factor [Bacillus thuringiensis Bt407]
 gi|228782908|gb|EEM31073.1| Transcription-repair-coupling factor [Bacillus thuringiensis Bt407]
 gi|228822314|gb|EEM68295.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar berliner ATCC 10792]
          Length = 1183

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 508 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 559


>gi|229067818|ref|ZP_04201136.1| Transcription-repair-coupling factor [Bacillus cereus F65185]
 gi|228715302|gb|EEL67160.1| Transcription-repair-coupling factor [Bacillus cereus F65185]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|206972595|ref|ZP_03233538.1| transcription-repair coupling factor [Bacillus cereus AH1134]
 gi|228950602|ref|ZP_04112737.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar kurstaki str. T03a001]
 gi|229176654|ref|ZP_04304059.1| Transcription-repair-coupling factor [Bacillus cereus 172560W]
 gi|206732497|gb|EDZ49676.1| transcription-repair coupling factor [Bacillus cereus AH1134]
 gi|228606821|gb|EEK64237.1| Transcription-repair-coupling factor [Bacillus cereus 172560W]
 gi|228809077|gb|EEM55561.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar kurstaki str. T03a001]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|30260244|ref|NP_842621.1| transcription-repair coupling factor [Bacillus anthracis str. Ames]
 gi|47525306|ref|YP_016655.1| transcription-repair coupling factor [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|49183087|ref|YP_026339.1| transcription-repair coupling factor [Bacillus anthracis str.
           Sterne]
 gi|65317513|ref|ZP_00390472.1| COG1197: Transcription-repair coupling factor (superfamily II
           helicase) [Bacillus anthracis str. A2012]
 gi|165872560|ref|ZP_02217192.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0488]
 gi|167635067|ref|ZP_02393384.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0442]
 gi|167641515|ref|ZP_02399763.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0193]
 gi|170688877|ref|ZP_02880079.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0465]
 gi|170707542|ref|ZP_02897995.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0389]
 gi|177655328|ref|ZP_02936857.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0174]
 gi|190568951|ref|ZP_03021852.1| transcription-repair coupling factor [Bacillus anthracis
           Tsiankovskii-I]
 gi|227812727|ref|YP_002812736.1| transcription-repair coupling factor [Bacillus anthracis str. CDC
           684]
 gi|229603766|ref|YP_002864705.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0248]
 gi|254682320|ref|ZP_05146181.1| transcription-repair coupling factor [Bacillus anthracis str.
           CNEVA-9066]
 gi|254735455|ref|ZP_05193163.1| transcription-repair coupling factor [Bacillus anthracis str.
           Western North America USA6153]
 gi|254744643|ref|ZP_05202322.1| transcription-repair coupling factor [Bacillus anthracis str.
           Kruger B]
 gi|254756348|ref|ZP_05208377.1| transcription-repair coupling factor [Bacillus anthracis str.
           Vollum]
 gi|254762404|ref|ZP_05214246.1| transcription-repair coupling factor [Bacillus anthracis str.
           Australia 94]
 gi|30253565|gb|AAP24107.1| transcription-repair coupling factor [Bacillus anthracis str. Ames]
 gi|47500454|gb|AAT29130.1| transcription-repair coupling factor [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|49177014|gb|AAT52390.1| transcription-repair coupling factor [Bacillus anthracis str.
           Sterne]
 gi|164711688|gb|EDR17233.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0488]
 gi|167510500|gb|EDR85898.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0193]
 gi|167529541|gb|EDR92291.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0442]
 gi|170127538|gb|EDS96412.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0389]
 gi|170667101|gb|EDT17862.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0465]
 gi|172080169|gb|EDT65262.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0174]
 gi|190559875|gb|EDV13859.1| transcription-repair coupling factor [Bacillus anthracis
           Tsiankovskii-I]
 gi|227004902|gb|ACP14645.1| transcription-repair coupling factor [Bacillus anthracis str. CDC
           684]
 gi|229268174|gb|ACQ49811.1| transcription-repair coupling factor [Bacillus anthracis str.
           A0248]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|295694758|ref|YP_003587996.1| transcription-repair coupling factor [Bacillus tusciae DSM 2912]
 gi|295410360|gb|ADG04852.1| transcription-repair coupling factor [Bacillus tusciae DSM 2912]
          Length = 1174

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           +R    Q  + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +  
Sbjct: 488 ERIKNYQDLKVGDYVVHVNHGIGQYMGIQTLEIEGIHKDYLYIRYAGND-KLYVPIDQID 546

Query: 66  DI 67
            +
Sbjct: 547 QV 548


>gi|228912793|ref|ZP_04076441.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar pulsiensis BGSC 4CC1]
 gi|228846853|gb|EEM91857.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar pulsiensis BGSC 4CC1]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229021662|ref|ZP_04178248.1| Transcription-repair-coupling factor [Bacillus cereus AH1272]
 gi|228739637|gb|EEL90047.1| Transcription-repair-coupling factor [Bacillus cereus AH1272]
          Length = 1010

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 335 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 386


>gi|229077333|ref|ZP_04210009.1| Transcription-repair-coupling factor [Bacillus cereus Rock4-2]
 gi|228705971|gb|EEL58283.1| Transcription-repair-coupling factor [Bacillus cereus Rock4-2]
          Length = 968

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 293 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 344


>gi|229159227|ref|ZP_04287252.1| Transcription-repair-coupling factor [Bacillus cereus R309803]
 gi|228624242|gb|EEK81043.1| Transcription-repair-coupling factor [Bacillus cereus R309803]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229188339|ref|ZP_04315388.1| Transcription-repair-coupling factor [Bacillus cereus ATCC 10876]
 gi|228595138|gb|EEK52908.1| Transcription-repair-coupling factor [Bacillus cereus ATCC 10876]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|196036345|ref|ZP_03103742.1| transcription-repair coupling factor [Bacillus cereus W]
 gi|196041756|ref|ZP_03109046.1| transcription-repair coupling factor [Bacillus cereus NVH0597-99]
 gi|196047377|ref|ZP_03114590.1| transcription-repair coupling factor [Bacillus cereus 03BB108]
 gi|218901255|ref|YP_002449089.1| transcription-repair coupling factor [Bacillus cereus AH820]
 gi|225862106|ref|YP_002747484.1| transcription-repair coupling factor [Bacillus cereus 03BB102]
 gi|228925307|ref|ZP_04088404.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
 gi|228931556|ref|ZP_04094463.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
 gi|228943860|ref|ZP_04106246.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
 gi|229089185|ref|ZP_04220467.1| Transcription-repair-coupling factor [Bacillus cereus Rock3-42]
 gi|229119716|ref|ZP_04248978.1| Transcription-repair-coupling factor [Bacillus cereus 95/8201]
 gi|229182448|ref|ZP_04309700.1| Transcription-repair-coupling factor [Bacillus cereus BGSC 6E1]
 gi|301051789|ref|YP_003790000.1| transcription-repair coupling factor [Bacillus anthracis CI]
 gi|195990975|gb|EDX54946.1| transcription-repair coupling factor [Bacillus cereus W]
 gi|196021779|gb|EDX60473.1| transcription-repair coupling factor [Bacillus cereus 03BB108]
 gi|196027376|gb|EDX65993.1| transcription-repair coupling factor [Bacillus cereus NVH0597-99]
 gi|218538935|gb|ACK91333.1| transcription-repair coupling factor [Bacillus cereus AH820]
 gi|225786910|gb|ACO27127.1| transcription-repair coupling factor [Bacillus cereus 03BB102]
 gi|228601028|gb|EEK58596.1| Transcription-repair-coupling factor [Bacillus cereus BGSC 6E1]
 gi|228663741|gb|EEL19319.1| Transcription-repair-coupling factor [Bacillus cereus 95/8201]
 gi|228694148|gb|EEL47829.1| Transcription-repair-coupling factor [Bacillus cereus Rock3-42]
 gi|228815817|gb|EEM62052.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
 gi|228828108|gb|EEM73835.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
 gi|228834354|gb|EEM79894.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
 gi|300373958|gb|ADK02862.1| transcription-repair coupling factor [Bacillus cereus biovar
           anthracis str. CI]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|52145163|ref|YP_081665.1| transcription-repair coupling factor [Bacillus cereus E33L]
 gi|51978632|gb|AAU20182.1| transcription-repair coupling factor [Bacillus cereus E33L]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|324324043|gb|ADY19303.1| transcription-repair coupling factor [Bacillus thuringiensis
           serovar finitimus YBT-020]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|228905850|ref|ZP_04069748.1| Transcription-repair-coupling factor [Bacillus thuringiensis IBL
           200]
 gi|228853790|gb|EEM98549.1| Transcription-repair-coupling factor [Bacillus thuringiensis IBL
           200]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229015456|ref|ZP_04172457.1| Transcription-repair-coupling factor [Bacillus cereus AH1273]
 gi|228745840|gb|EEL95841.1| Transcription-repair-coupling factor [Bacillus cereus AH1273]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229074115|ref|ZP_04207162.1| Transcription-repair-coupling factor [Bacillus cereus Rock4-18]
 gi|229094775|ref|ZP_04225781.1| Transcription-repair-coupling factor [Bacillus cereus Rock3-29]
 gi|229113728|ref|ZP_04243164.1| Transcription-repair-coupling factor [Bacillus cereus Rock1-3]
 gi|228669725|gb|EEL25131.1| Transcription-repair-coupling factor [Bacillus cereus Rock1-3]
 gi|228688643|gb|EEL42515.1| Transcription-repair-coupling factor [Bacillus cereus Rock3-29]
 gi|228709009|gb|EEL61135.1| Transcription-repair-coupling factor [Bacillus cereus Rock4-18]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229153832|ref|ZP_04281963.1| Transcription-repair-coupling factor [Bacillus cereus ATCC 4342]
 gi|228629636|gb|EEK86332.1| Transcription-repair-coupling factor [Bacillus cereus ATCC 4342]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229170904|ref|ZP_04298507.1| Transcription-repair-coupling factor [Bacillus cereus MM3]
 gi|228612570|gb|EEK69789.1| Transcription-repair-coupling factor [Bacillus cereus MM3]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|49479988|ref|YP_034406.1| transcription-repair coupling factor [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|49331544|gb|AAT62190.1| transcription-repair coupling factor [Bacillus thuringiensis
           serovar konkukian str. 97-27]
          Length = 1178

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 503 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 554


>gi|42779132|ref|NP_976379.1| transcription-repair coupling factor [Bacillus cereus ATCC 10987]
 gi|206977924|ref|ZP_03238811.1| transcription-repair coupling factor [Bacillus cereus H3081.97]
 gi|217957629|ref|YP_002336171.1| transcription-repair coupling factor [Bacillus cereus AH187]
 gi|222093823|ref|YP_002527872.1| transcription-repair coupling factor [Bacillus cereus Q1]
 gi|229136900|ref|ZP_04265528.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-ST26]
 gi|42735047|gb|AAS38987.1| transcription-repair coupling factor [Bacillus cereus ATCC 10987]
 gi|206743830|gb|EDZ55250.1| transcription-repair coupling factor [Bacillus cereus H3081.97]
 gi|217067660|gb|ACJ81910.1| transcription-repair coupling factor [Bacillus cereus AH187]
 gi|221237870|gb|ACM10580.1| transcription-repair coupling factor [Bacillus cereus Q1]
 gi|228646565|gb|EEL02771.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-ST26]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|47569902|ref|ZP_00240569.1| transcription-repair coupling factor [Bacillus cereus G9241]
 gi|228983309|ref|ZP_04143523.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar tochigiensis BGSC 4Y1]
 gi|229194444|ref|ZP_04321248.1| Transcription-repair-coupling factor [Bacillus cereus m1293]
 gi|47553436|gb|EAL11820.1| transcription-repair coupling factor [Bacillus cereus G9241]
 gi|228589034|gb|EEK47048.1| Transcription-repair-coupling factor [Bacillus cereus m1293]
 gi|228776423|gb|EEM24775.1| Transcription-repair-coupling factor [Bacillus thuringiensis
           serovar tochigiensis BGSC 4Y1]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229027900|ref|ZP_04184055.1| Transcription-repair-coupling factor [Bacillus cereus AH1271]
 gi|228733414|gb|EEL84241.1| Transcription-repair-coupling factor [Bacillus cereus AH1271]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|68171223|ref|ZP_00544627.1| Transcription-repair coupling factor [Ehrlichia chaffeensis str.
           Sapulpa]
 gi|88658189|ref|YP_507071.1| transcription-repair coupling factor [Ehrlichia chaffeensis str.
           Arkansas]
 gi|67999343|gb|EAM85988.1| Transcription-repair coupling factor [Ehrlichia chaffeensis str.
           Sapulpa]
 gi|88599646|gb|ABD45115.1| transcription-repair coupling factor [Ehrlichia chaffeensis str.
           Arkansas]
          Length = 1134

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 60/158 (37%), Gaps = 18/158 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +++  +G+G I  ++  +V     +F  I +  +   L +PV          L   
Sbjct: 474 IGDIVIHKDYGIGKIVALETTKVFDSYHDFIKIEYYNND-KLFLPVENIN------LISK 526

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSE 135
           +  +     +    ++  T W +R      KI +  +  IA   ++L   ++    S  +
Sbjct: 527 YGQQNVNVTL---DKLGSTSWQQR----KTKIKN-HIKKIA---KELLTIEAARRLSTGK 575

Query: 136 RQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
               +        E +   +  + +AI  +E +LSS  
Sbjct: 576 SFFPDENYKHFCNEFSYTETEDQLQAIKDMEHDLSSGK 613


>gi|229131061|ref|ZP_04259974.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-ST196]
 gi|229165042|ref|ZP_04292838.1| Transcription-repair-coupling factor [Bacillus cereus AH621]
 gi|228618427|gb|EEK75456.1| Transcription-repair-coupling factor [Bacillus cereus AH621]
 gi|228652398|gb|EEL08322.1| Transcription-repair-coupling factor [Bacillus cereus BDRD-ST196]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+H+V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDHVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|163938061|ref|YP_001642945.1| transcription-repair coupling factor [Bacillus weihenstephanensis
           KBAB4]
 gi|163860258|gb|ABY41317.1| transcription-repair coupling factor [Bacillus weihenstephanensis
           KBAB4]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+H+V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDHVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229009563|ref|ZP_04166790.1| Transcription-repair-coupling factor [Bacillus mycoides DSM 2048]
 gi|228751707|gb|EEM01506.1| Transcription-repair-coupling factor [Bacillus mycoides DSM 2048]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+H+V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDHVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|229053900|ref|ZP_04195335.1| Transcription-repair-coupling factor [Bacillus cereus AH603]
 gi|228721441|gb|EEL72961.1| Transcription-repair-coupling factor [Bacillus cereus AH603]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+H+V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDHVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|160943758|ref|ZP_02090989.1| hypothetical protein FAEPRAM212_01253 [Faecalibacterium prausnitzii
           M21/2]
 gi|158444932|gb|EDP21935.1| hypothetical protein FAEPRAM212_01253 [Faecalibacterium prausnitzii
           M21/2]
          Length = 167

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/165 (16%), Positives = 62/165 (37%), Gaps = 11/165 (6%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMK-LEFFVIA--FDKDKMCLKVPVGKAIDIGMR 70
           F+ G  +VY   GV  +  +  +        E++ +   F        +P  K  +  +R
Sbjct: 4   FQAGALVVYGNLGVHEVEGVGLRRFCDEPAREYYTLRPYFSDSHDRSYIPTEK--EAALR 61

Query: 71  KLSEAHFVERALKLVR-GKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ- 128
            ++ A      L  ++  K  +   + +  A+ Y A +++ D      + ++L +  +Q 
Sbjct: 62  PVTPAQQAAADLARIKTEKLPIPAGVQTALAEHYQALLHTNDFYQYLTLFKELGQKQTQQ 121

Query: 129 ----PEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
                + +  +   Y+     +  E+A     S+ EA   +   L
Sbjct: 122 QSRGRKINAMDAYFYQMVERVLREELAVAFGESQQEAGRRLLEIL 166


>gi|229083372|ref|ZP_04215723.1| Transcription-repair-coupling factor [Bacillus cereus Rock3-44]
 gi|228699937|gb|EEL52571.1| Transcription-repair-coupling factor [Bacillus cereus Rock3-44]
          Length = 1176

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|121535095|ref|ZP_01666912.1| transcription-repair coupling factor [Thermosinus carboxydivorans
           Nor1]
 gi|121306345|gb|EAX47270.1| transcription-repair coupling factor [Thermosinus carboxydivorans
           Nor1]
          Length = 1109

 Score = 52.8 bits (126), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +  + G+++V+  HG+G    ++  EV G+  ++F+I +  +   + VP  + 
Sbjct: 425 RDLKVGDYVVHVNHGIGKYAGVETLEVGGVHRDYFLIRYAGED-KIYVPTDQV 476


>gi|152973901|ref|YP_001373418.1| transcription-repair coupling factor [Bacillus cereus subsp.
           cytotoxis NVH 391-98]
 gi|152022653|gb|ABS20423.1| transcription-repair coupling factor [Bacillus cytotoxicus NVH
           391-98]
          Length = 1176

 Score = 52.4 bits (125), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|239825634|ref|YP_002948258.1| transcription-repair coupling factor [Geobacillus sp. WCH70]
 gi|239805927|gb|ACS22992.1| transcription-repair coupling factor [Geobacillus sp. WCH70]
          Length = 1177

 Score = 52.4 bits (125), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGSD-TLYVPVDQIDQV 552


>gi|307720513|ref|YP_003891653.1| transcription-repair coupling factor [Sulfurimonas autotrophica DSM
           16294]
 gi|306978606|gb|ADN08641.1| transcription-repair coupling factor [Sulfurimonas autotrophica DSM
           16294]
          Length = 997

 Score = 52.4 bits (125), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 28/126 (22%), Positives = 56/126 (44%), Gaps = 11/126 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  +GVG   +I++ E+ G   +F VI +  D   + +PV     I  R ++ 
Sbjct: 359 KAGDYVVHEDYGVGIFEKIEQTEILGGIKDFIVIKYVGDD-KILLPVENLDFID-RYIAG 416

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                  L  + GK    +     R +  +    +G ++  A   R L +    P+ S  
Sbjct: 417 GGATP-VLDRL-GKGSFGKLKAKVRKRLLEI---AGQIVNTAA-ARALIKA---PKISLG 467

Query: 135 ERQLYE 140
           +++L E
Sbjct: 468 KKELQE 473


>gi|83952331|ref|ZP_00961063.1| transcriptional regulator, CarD family protein [Roseovarius
           nubinhibens ISM]
 gi|83837337|gb|EAP76634.1| transcriptional regulator, CarD family protein [Roseovarius
           nubinhibens ISM]
          Length = 50

 Score = 52.4 bits (125), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/49 (51%), Positives = 33/49 (67%)

Query: 126 DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           D Q E+SYSERQLYE+AL R+ RE+AAVN   E  A   +   L S+++
Sbjct: 2   DDQREQSYSERQLYEAALERLTREVAAVNGNDEVAAAKQVGDVLVSRAA 50


>gi|295401980|ref|ZP_06811942.1| transcription-repair coupling factor [Geobacillus
           thermoglucosidasius C56-YS93]
 gi|312109202|ref|YP_003987518.1| transcription-repair coupling factor [Geobacillus sp. Y4.1MC1]
 gi|294975982|gb|EFG51598.1| transcription-repair coupling factor [Geobacillus
           thermoglucosidasius C56-YS93]
 gi|311214303|gb|ADP72907.1| transcription-repair coupling factor [Geobacillus sp. Y4.1MC1]
          Length = 1177

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 RVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGSD-TLYVPVDQIDQV 552


>gi|212637897|ref|YP_002314417.1| transcription-repair coupling factor (helicase, mfd) [Anoxybacillus
           flavithermus WK1]
 gi|212559377|gb|ACJ32432.1| Transcription-repair coupling factor (helicase, mfd) [Anoxybacillus
           flavithermus WK1]
          Length = 1189

 Score = 52.1 bits (124), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +  +   L VPV +   +
Sbjct: 520 KVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGND-TLYVPVDQMDLV 571


>gi|327438085|dbj|BAK14450.1| transcription-repair coupling factor [Solibacillus silvestris
           StLB046]
          Length = 1170

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 59/132 (44%), Gaps = 17/132 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           ++G+++V+  HG+G    I+   V G   ++  + + +D   L VPV +   I  R +  
Sbjct: 498 KSGDYVVHVHHGIGKYIGIETLVVNGTHQDYLHVRYREDD-KLYVPVDQIELIQ-RYVPS 555

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +         ++  T W +  ++    +   D+    ++++   + +++   ++S
Sbjct: 556 GEKEPKL-------HKLGGTEWKKTHKKVSNAVQ--DIAD--DLIKLYAKREAEKGYAFS 604

Query: 135 ----ERQLYESA 142
               E++ +E+A
Sbjct: 605 PDSDEQRGFEAA 616


>gi|254520523|ref|ZP_05132579.1| transcription-repair coupling factor [Clostridium sp. 7_2_43FAA]
 gi|226914272|gb|EEH99473.1| transcription-repair coupling factor [Clostridium sp. 7_2_43FAA]
          Length = 1169

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HGVG    IK+ EV G   ++  I +DK    L VPV +   +
Sbjct: 504 KLGDYVVHANHGVGVYKGIKQIEVGGHTRDYLDIVYDKGD-KLYVPVDQLDLV 555


>gi|315660330|ref|ZP_07913183.1| transcription-repair coupling factor [Staphylococcus lugdunensis
           M23590]
 gi|315494619|gb|EFU82961.1| transcription-repair coupling factor [Staphylococcus lugdunensis
           M23590]
          Length = 1173

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 29/163 (17%), Positives = 61/163 (37%), Gaps = 24/163 (14%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+++V+  HGVG    ++  EV  +  ++  + +      L VPV +   +  + 
Sbjct: 494 QDLKVGDYVVHVHHGVGRYLGVETLEVGDVHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 551

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE   +L     + E 
Sbjct: 552 VASEDKSPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAE---ELIALYKEREM 596

Query: 132 S----YSERQLYESALNR-MVREIA--AVNSISEPEAINLIEV 167
           S    + E    + A       E+      SI E +A   ++ 
Sbjct: 597 SVGYQFGEDTAEQQAFELDFPYELTPDQAKSIEEIKADMELQK 639


>gi|167760495|ref|ZP_02432622.1| hypothetical protein CLOSCI_02869 [Clostridium scindens ATCC 35704]
 gi|167661861|gb|EDS05991.1| hypothetical protein CLOSCI_02869 [Clostridium scindens ATCC 35704]
          Length = 169

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/171 (11%), Positives = 57/171 (33%), Gaps = 11/171 (6%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVA--GMKLEFFVIAFDKD-KMCLKVPVGKAIDIGM 69
            F+ G+++ +   GV  + +I + ++     K E++ +    D    L +PV    +  +
Sbjct: 1   MFKIGDYVTHYKEGVCEVIDIGKLDMRCSDRKKEYYTLRPLYDAGGTLYMPVANERNQ-I 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R +         ++ +     +  T   +R   Y   +          +++  +      
Sbjct: 60  RGVITYEEARALIEDIPNIEVLWVTDEKKREALYKEAVFKNQCKEWIAIIKTSYLRKMDR 119

Query: 130 EKSYSER------QLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
             S  ++      +    A   +  E+A    I   +    +   + +  +
Sbjct: 120 -LSSGKKSINVDDKYLSIAEQFLYGELAVALEIPREKIRKYVTERMGTLEA 169


>gi|254458302|ref|ZP_05071728.1| transcription-repair coupling factor [Campylobacterales bacterium
           GD 1]
 gi|207085138|gb|EDZ62424.1| transcription-repair coupling factor [Campylobacterales bacterium
           GD 1]
          Length = 996

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 2/68 (2%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
              M    + G+++V+  +GVG   +I++ E+ G   +F VI +  D   + +PV     
Sbjct: 350 SSIMLDDLKAGDYVVHEDYGVGIFEKIEQTEILGGIKDFIVIKYVGDD-KILLPVENLDF 408

Query: 67  IGMRKLSE 74
           I  R ++ 
Sbjct: 409 ID-RYIAS 415


>gi|23097518|ref|NP_690984.1| transcription-repair coupling factor [Oceanobacillus iheyensis
           HTE831]
 gi|22775741|dbj|BAC12019.1| transcription-repair coupling factor (TRCF) [Oceanobacillus
           iheyensis HTE831]
          Length = 1173

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
               +R    Q  + G+++V+  HGVG    I+  EV+ +  ++ +I +  D   L VP+
Sbjct: 488 VSNAERIKSYQELKIGDYVVHANHGVGKYLGIETLEVSNLHKDYMLIKYSGDD-KLFVPI 546

Query: 62  GKAIDI 67
            +   +
Sbjct: 547 DQIDLV 552


>gi|169824178|ref|YP_001691789.1| transcription-repair coupling factor [Finegoldia magna ATCC 29328]
 gi|167830983|dbj|BAG07899.1| transcription-repair coupling factor [Finegoldia magna ATCC 29328]
          Length = 1168

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
              +++V+  HG+G    I++ +V G++ ++ VI +  +   L +P  +   +
Sbjct: 503 NIDDYVVHENHGIGQYKGIEKIDVNGIQKDYIVIQYKAND-RLMIPTDQMNLV 554


>gi|319648579|ref|ZP_08002793.1| mfd protein [Bacillus sp. BT1B_CT2]
 gi|317389346|gb|EFV70159.1| mfd protein [Bacillus sp. BT1B_CT2]
          Length = 1177

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +  +K   
Sbjct: 501 QIGDYVVHVNHGIGKYLGIETLEINGIHKDYLNIHYQGSD-KLYVPVDQIDQV--QKYVG 557

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +   E  L  + G        W R       K     +  IA+   DL +  ++ E S  
Sbjct: 558 SEGKEPKLYKLGGSE------WKR-----VKKKVESSVQDIAD---DLIKLYAEREASKG 603


>gi|289551698|ref|YP_003472602.1| Transcription-repair coupling factor [Staphylococcus lugdunensis
           HKU09-01]
 gi|289181229|gb|ADC88474.1| Transcription-repair coupling factor [Staphylococcus lugdunensis
           HKU09-01]
          Length = 1173

 Score = 52.1 bits (124), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 29/163 (17%), Positives = 61/163 (37%), Gaps = 24/163 (14%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+++V+  HGVG    ++  EV  +  ++  + +      L VPV +   +  + 
Sbjct: 494 QDLKVGDYVVHVHHGVGRYLGVETLEVGDVHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 551

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE   +L     + E 
Sbjct: 552 VASEDKSPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAE---ELIALYKEREM 596

Query: 132 S----YSERQLYESALNR-MVREIA--AVNSISEPEAINLIEV 167
           S    + E    + A       E+      SI E +A   ++ 
Sbjct: 597 SVGYQFGEDTAEQQAFELDFPYELTPDQAKSIEEIKADMELQK 639


>gi|256827273|ref|YP_003151232.1| transcription-repair coupling factor Mfd [Cryptobacterium curtum
           DSM 15641]
 gi|256583416|gb|ACU94550.1| transcription-repair coupling factor Mfd [Cryptobacterium curtum
           DSM 15641]
          Length = 1155

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+ AHG+    ++  QEV G   ++ ++ + +    L VPV +   +  R + 
Sbjct: 486 FNPGDYVVHAAHGIAFFRDVVRQEVGGSLRDYLLLEYAEGD-KLYVPVEQLDRV-TRYVG 543

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+  + WSR
Sbjct: 544 PEGSSPRL-------TRLNTSDWSR 561


>gi|182420058|ref|ZP_02951292.1| transcription-repair coupling factor [Clostridium butyricum 5521]
 gi|237669507|ref|ZP_04529487.1| transcription-repair coupling factor [Clostridium butyricum E4 str.
           BoNT E BL5262]
 gi|182376095|gb|EDT73682.1| transcription-repair coupling factor [Clostridium butyricum 5521]
 gi|237654951|gb|EEP52511.1| transcription-repair coupling factor [Clostridium butyricum E4 str.
           BoNT E BL5262]
          Length = 1166

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ EVAG K ++  I +DK    L VPV +   I
Sbjct: 503 KPGDYVVHANHGIGVYKGIKQIEVAGHKRDYLDIVYDKGD-KLYVPVDQLDLI 554


>gi|52078550|ref|YP_077341.1| transcription-repair coupling factor [Bacillus licheniformis ATCC
           14580]
 gi|52783912|ref|YP_089741.1| hypothetical protein BLi00068 [Bacillus licheniformis ATCC 14580]
 gi|52001761|gb|AAU21703.1| transcription-repair coupling factor [Bacillus licheniformis ATCC
           14580]
 gi|52346414|gb|AAU39048.1| Mfd [Bacillus licheniformis ATCC 14580]
          Length = 1177

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +  +K   
Sbjct: 501 QIGDYVVHVNHGIGKYLGIETLEINGIHKDYLNIHYQGSD-KLYVPVDQIDQV--QKYVG 557

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +   E  L  + G        W R       K     +  IA+   DL +  ++ E S  
Sbjct: 558 SEGKEPKLYKLGGSE------WKR-----VKKKVESSVQDIAD---DLIKLYAEREASKG 603


>gi|328551756|gb|AEB22248.1| transcription-repair coupling factor [Bacillus amyloliquefaciens
           TA208]
          Length = 1177

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEIKGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|308171946|ref|YP_003918651.1| transcription-repair coupling factor [Bacillus amyloliquefaciens
           DSM 7]
 gi|307604810|emb|CBI41181.1| transcription-repair coupling factor [Bacillus amyloliquefaciens
           DSM 7]
 gi|328910016|gb|AEB61612.1| transcription-repair coupling factor [Bacillus amyloliquefaciens
           LL3]
          Length = 1177

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEIKGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|303234885|ref|ZP_07321510.1| transcription-repair coupling factor [Finegoldia magna BVS033A4]
 gi|302494003|gb|EFL53784.1| transcription-repair coupling factor [Finegoldia magna BVS033A4]
          Length = 1168

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
              +++V+  HG+G    I++ +V G++ ++ VI +  +   L +P  +   +
Sbjct: 503 NIDDYVVHENHGIGQYKGIEKIDVNGIQKDYIVIQYKAND-RLMIPTDQMNLV 554


>gi|302380838|ref|ZP_07269301.1| transcription-repair coupling factor [Finegoldia magna
           ACS-171-V-Col3]
 gi|302311333|gb|EFK93351.1| transcription-repair coupling factor [Finegoldia magna
           ACS-171-V-Col3]
          Length = 1168

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
              +++V+  HG+G    I++ +V G++ ++ VI +  +   L +P  +   +
Sbjct: 503 NIDDYVVHENHGIGQYKGIEKIDVNGIQKDYIVIQYKAND-RLMIPTDQMNLV 554


>gi|196250768|ref|ZP_03149455.1| transcription-repair coupling factor [Geobacillus sp. G11MC16]
 gi|196209718|gb|EDY04490.1| transcription-repair coupling factor [Geobacillus sp. G11MC16]
          Length = 1177

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGGD-TLYVPVDQMDQV 552


>gi|138893727|ref|YP_001124180.1| transcription-repair coupling factor [Geobacillus
           thermodenitrificans NG80-2]
 gi|134265240|gb|ABO65435.1| Transcription-repair coupling factor [Geobacillus
           thermodenitrificans NG80-2]
          Length = 1177

 Score = 51.7 bits (123), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEINGVHKDYIHIQYQGGD-TLYVPVDQMDQV 552


>gi|154684574|ref|YP_001419735.1| hypothetical protein RBAM_000640 [Bacillus amyloliquefaciens FZB42]
 gi|154350425|gb|ABS72504.1| Mfd [Bacillus amyloliquefaciens FZB42]
          Length = 1177

 Score = 51.7 bits (123), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEIKGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|312865767|ref|ZP_07725989.1| transcription-repair coupling factor [Streptococcus downei F0415]
 gi|311098642|gb|EFQ56864.1| transcription-repair coupling factor [Streptococcus downei F0415]
          Length = 1169

 Score = 51.7 bits (123), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           + G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 QKGDYVVHNVHGIGRFLGIETIEIKGVHRDYLTVQYQNGD-TISIPVEQIE 541


>gi|308387853|pdb|3MLQ|E Chain E, Crystal Structure Of The Thermus Thermophilus
          Transcription-Repair Coupling Factor Rna Polymerase
          Interacting Domain With The Thermus Aquaticus Rna
          Polymerase Beta1 Domain
 gi|308387854|pdb|3MLQ|F Chain F, Crystal Structure Of The Thermus Thermophilus
          Transcription-Repair Coupling Factor Rna Polymerase
          Interacting Domain With The Thermus Aquaticus Rna
          Polymerase Beta1 Domain
 gi|308387855|pdb|3MLQ|G Chain G, Crystal Structure Of The Thermus Thermophilus
          Transcription-Repair Coupling Factor Rna Polymerase
          Interacting Domain With The Thermus Aquaticus Rna
          Polymerase Beta1 Domain
 gi|308387856|pdb|3MLQ|H Chain H, Crystal Structure Of The Thermus Thermophilus
          Transcription-Repair Coupling Factor Rna Polymerase
          Interacting Domain With The Thermus Aquaticus Rna
          Polymerase Beta1 Domain
          Length = 71

 Score = 51.3 bits (122), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 31/48 (64%), Gaps = 1/48 (2%)

Query: 16 TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           G+++++P HGVG    ++ +EV G+K ++ V+ + K +  L +PV +
Sbjct: 5  PGDYLIHPEHGVGQYLGLETREVLGVKRDYLVLRY-KGEGKLYLPVEQ 51


>gi|311070702|ref|YP_003975625.1| transcription-repair coupling factor [Bacillus atrophaeus 1942]
 gi|310871219|gb|ADP34694.1| transcription-repair coupling factor [Bacillus atrophaeus 1942]
          Length = 1177

 Score = 51.3 bits (122), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QVGDYVVHVNHGIGKYLGIETLEINGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|269125277|ref|YP_003298647.1| transcription-repair coupling factor [Thermomonospora curvata DSM
           43183]
 gi|268310235|gb|ACY96609.1| transcription-repair coupling factor [Thermomonospora curvata DSM
           43183]
          Length = 1168

 Score = 51.3 bits (122), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  +++        R G+++V+  HGVG   E+  + V G   E+ V+ + +    L VP
Sbjct: 480 MPSRRRGGIDPLQLRPGDYVVHEQHGVGRYVEMVSRTVQGATREYLVLEYARGD-RLFVP 538

Query: 61  VGKAIDI 67
             +  +I
Sbjct: 539 TDQLEEI 545


>gi|325830839|ref|ZP_08164223.1| transcription-repair coupling factor [Eggerthella sp. HGA1]
 gi|325487246|gb|EGC89689.1| transcription-repair coupling factor [Eggerthella sp. HGA1]
          Length = 1161

 Score = 50.9 bits (121), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+++V+ AHGV    E+  ++V G   ++ ++ + +    L VPV +   +  R + 
Sbjct: 494 YQPGDYVVHAAHGVAYFKELVRRDVDGTARDYLLLEYSEGD-KLYVPVEQLDRV-TRYVG 551

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+    WSR
Sbjct: 552 PEGASPRL-------TRLNTADWSR 569


>gi|288554664|ref|YP_003426599.1| transcription-repair coupling factor [Bacillus pseudofirmus OF4]
 gi|288545824|gb|ADC49707.1| transcription-repair coupling factor (TRCF) [Bacillus pseudofirmus
           OF4]
          Length = 1180

 Score = 50.9 bits (121), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 45/120 (37%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    ++  E+ G+  ++  + +  D   L VPV +   +  + +  
Sbjct: 503 KVGDLVVHTNHGIGKYLGVETLEINGLHKDYLHLRYAGDD-KLYVPVEQIDQVQ-KYVGS 560

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +   L           W +       K     +  IA+   DL +  ++ E S  
Sbjct: 561 EEKDPKIYAL-------GGNDWKK-----VKKRVQSSVEDIAD---DLIKLYAEREASKG 605


>gi|257791044|ref|YP_003181650.1| transcription-repair coupling factor [Eggerthella lenta DSM 2243]
 gi|257474941|gb|ACV55261.1| transcription-repair coupling factor [Eggerthella lenta DSM 2243]
          Length = 1161

 Score = 50.9 bits (121), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+++V+ AHGV    E+  ++V G   ++ ++ + +    L VPV +   +  R + 
Sbjct: 494 YQPGDYVVHAAHGVAYFKELVRRDVDGTARDYLLLEYSEGD-KLYVPVEQLDRV-TRYVG 551

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+    WSR
Sbjct: 552 PEGASPRL-------TRLNTADWSR 569


>gi|297587541|ref|ZP_06946185.1| transcription-repair coupling factor [Finegoldia magna ATCC 53516]
 gi|297574230|gb|EFH92950.1| transcription-repair coupling factor [Finegoldia magna ATCC 53516]
          Length = 1168

 Score = 50.9 bits (121), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
              + +V+  HG+G    I++ +V G++ ++ VI +  +   L +P  +   +
Sbjct: 503 NIDDFVVHENHGIGQYKGIEKIDVNGIQKDYIVIQYKAND-RLMIPTDQMNLV 554


>gi|221195325|ref|ZP_03568381.1| transcription-repair coupling factor [Atopobium rimae ATCC 49626]
 gi|221185228|gb|EEE17619.1| transcription-repair coupling factor [Atopobium rimae ATCC 49626]
          Length = 1150

 Score = 50.9 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 36/85 (42%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F+ G+++V+  HG+    EI  +E AG   ++F++ +      L VP  +   +  R + 
Sbjct: 487 FKPGDYVVHAKHGIAYFKEIVREEAAGRMRDYFLLEYAHGD-KLYVPFEQVDRL-TRYVG 544

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+    WSR
Sbjct: 545 PDGAAPRL-------TRLSTADWSR 562


>gi|297616314|ref|YP_003701473.1| transcription-repair coupling factor [Syntrophothermus lipocalidus
           DSM 12680]
 gi|297144151|gb|ADI00908.1| transcription-repair coupling factor [Syntrophothermus lipocalidus
           DSM 12680]
          Length = 1081

 Score = 50.9 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           R G+++V+  HG+G    I + EV G   E+ VI +      L +PV K  
Sbjct: 425 RVGDYVVHENHGIGLFQGITKMEVEGFAKEYLVIQYAGSD-RLYLPVDKLE 474


>gi|149182807|ref|ZP_01861269.1| transcription-repair coupling factor [Bacillus sp. SG-1]
 gi|148849474|gb|EDL63662.1| transcription-repair coupling factor [Bacillus sp. SG-1]
          Length = 1177

 Score = 50.9 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 51/120 (42%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+H+V+  HG+G    I+  E+ G+  ++  I +  +   L VPV +   +  + ++ 
Sbjct: 501 KIGDHVVHVNHGIGKYLGIETLEINGVHKDYLHIKYQGND-KLYVPVEQFDLVQ-KYVAS 558

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +  KL         T W +       K+ S  +  IA+   DL +  ++ E S  
Sbjct: 559 ESKDPKLYKL-------GGTEWKK----VKNKVES-SVQDIAD---DLIKLYAEREASKG 603


>gi|224475645|ref|YP_002633251.1| putative transcription-repair coupling factor [Staphylococcus
           carnosus subsp. carnosus TM300]
 gi|222420252|emb|CAL27066.1| putative transcription-repair coupling factor [Staphylococcus
           carnosus subsp. carnosus TM300]
          Length = 1172

 Score = 50.9 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q  + G+++V+  HGVG    ++  EV  +  ++  I +      L VPV +   +
Sbjct: 495 QDLKIGDYVVHVHHGVGRYLGVETLEVGDVHRDYIKIQYKGTD-QLFVPVDQMDQV 549


>gi|219850580|ref|YP_002465013.1| transcription-repair coupling factor [Chloroflexus aggregans DSM
           9485]
 gi|219544839|gb|ACL26577.1| transcription-repair coupling factor [Chloroflexus aggregans DSM
           9485]
          Length = 1182

 Score = 50.9 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T    R A  +  + G+++V+  HG+     +  + V  ++ E+ V+ +  +   + VPV
Sbjct: 478 TTVADRTAFLRSLKPGDYVVHIEHGIAVFDGMIRRTVGEVEREYLVLRYAGED-KIYVPV 536

Query: 62  GKAIDI 67
            +   +
Sbjct: 537 DQIDRV 542


>gi|322515787|ref|ZP_08068732.1| exopolyphosphatase [Streptococcus vestibularis ATCC 49124]
 gi|322125749|gb|EFX97067.1| exopolyphosphatase [Streptococcus vestibularis ATCC 49124]
          Length = 1195

 Score = 50.9 bits (121), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +D   + +PV +   +
Sbjct: 493 GDYVVHQTHGIGQFKGIETIEIKGVHRDYLTIQY-QDAATISLPVEQIESL 542


>gi|321313725|ref|YP_004206012.1| transcription-repair coupling factor [Bacillus subtilis BSn5]
 gi|320019999|gb|ADV94985.1| transcription-repair coupling factor [Bacillus subtilis BSn5]
          Length = 1177

 Score = 50.9 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QIGDYVVHINHGIGKYLGIETLEINGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|317488238|ref|ZP_07946807.1| transcription-repair coupling factor [Eggerthella sp. 1_3_56FAA]
 gi|316912680|gb|EFV34220.1| transcription-repair coupling factor [Eggerthella sp. 1_3_56FAA]
          Length = 1022

 Score = 50.9 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 9/85 (10%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           ++ G+++V+ AHGV    E+  ++V G   ++ ++ + +    L VPV +   +  R + 
Sbjct: 355 YQPGDYVVHAAHGVAYFKELVRRDVDGTARDYLLLEYSEGD-KLYVPVEQLDRV-TRYVG 412

Query: 74  EAHFVERALKLVRGKARVKRTMWSR 98
                 R         R+    WSR
Sbjct: 413 PEGASPRL-------TRLNTADWSR 430


>gi|16077123|ref|NP_387936.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221307865|ref|ZP_03589712.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221312187|ref|ZP_03593992.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221317120|ref|ZP_03598414.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221321383|ref|ZP_03602677.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|585481|sp|P37474|MFD_BACSU RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|467444|dbj|BAA05290.1| transcription-repair coupling factor [Bacillus subtilis]
 gi|2632322|emb|CAB11831.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           subtilis str. 168]
          Length = 1177

 Score = 50.9 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QIGDYVVHINHGIGKYLGIETLEINGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|296329557|ref|ZP_06872043.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305672754|ref|YP_003864425.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           spizizenii str. W23]
 gi|296153300|gb|EFG94163.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305410997|gb|ADM36115.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           spizizenii str. W23]
          Length = 1177

 Score = 50.9 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QIGDYVVHINHGIGKYLGIETLEINGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|291482427|dbj|BAI83502.1| transcription-repair coupling factor [Bacillus subtilis subsp.
           natto BEST195]
          Length = 1177

 Score = 50.9 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      L VPV +   +
Sbjct: 501 QIGDYVVHINHGIGKYLGIETLEINGIHKDYLNIHYQGSD-KLYVPVEQIDQV 552


>gi|228476811|ref|ZP_04061459.1| transcription-repair coupling factor [Streptococcus salivarius
           SK126]
 gi|228251548|gb|EEK10685.1| transcription-repair coupling factor [Streptococcus salivarius
           SK126]
          Length = 1168

 Score = 50.9 bits (121), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +D   + +PV +   +
Sbjct: 493 GDYVVHQTHGIGQFKGIETIEIKGVHRDYLTIQY-QDSATISLPVEQIESL 542


>gi|169825685|ref|YP_001695843.1| transcription-repair coupling factor [Lysinibacillus sphaericus
           C3-41]
 gi|168990173|gb|ACA37713.1| Transcription-repair coupling factor [Lysinibacillus sphaericus
           C3-41]
          Length = 1169

 Score = 50.5 bits (120), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G   ++  I +  D   L VPV +   I
Sbjct: 498 KPGDYVVHVHHGIGKYIGVETLEVNGTHKDYLHIRYRADD-KLYVPVEQIDLI 549


>gi|126653275|ref|ZP_01725386.1| transcription-repair coupling factor [Bacillus sp. B14905]
 gi|126589949|gb|EAZ84078.1| transcription-repair coupling factor [Bacillus sp. B14905]
          Length = 1169

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G   ++  I +  D   L VPV +   I
Sbjct: 498 KPGDYVVHVHHGIGKYIGVETLEVNGTHKDYLHIRYRADD-KLYVPVEQIDLI 549


>gi|320527116|ref|ZP_08028303.1| transcription-repair coupling factor [Solobacterium moorei F0204]
 gi|320132444|gb|EFW24987.1| transcription-repair coupling factor [Solobacterium moorei F0204]
          Length = 1130

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/115 (21%), Positives = 44/115 (38%), Gaps = 14/115 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  +GVG    I+ +E+  +K +F  I   +    L VP+ +   +  RK   
Sbjct: 460 QPGDYVVHAQYGVGQYICIENREIQKVKRDFLKI-IYRGNTELLVPLEQFHLV--RKFVS 516

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
              V   L  +      K     +R Q             IAE +  L+    Q 
Sbjct: 517 REGVVPKLNKLGSGDWEKT---KKRLQSNVE--------DIAERLLSLYANREQH 560


>gi|312864113|ref|ZP_07724348.1| transcription-repair coupling factor [Streptococcus vestibularis
           F0396]
 gi|311100345|gb|EFQ58553.1| transcription-repair coupling factor [Streptococcus vestibularis
           F0396]
          Length = 1066

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +D   + +PV +   +
Sbjct: 364 GDYVVHQTHGIGQFKGIETIEIKGVHRDYLTIQY-QDAATISLPVEQIESL 413


>gi|313884578|ref|ZP_07818339.1| transcription-repair coupling factor [Eremococcus coleocola
           ACS-139-V-Col8]
 gi|312620362|gb|EFR31790.1| transcription-repair coupling factor [Eremococcus coleocola
           ACS-139-V-Col8]
          Length = 1181

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HGVG  T ++  E+ G+  +   I + ++   + +PV K   I
Sbjct: 502 SVGDYVVHLNHGVGRYTGMETLEMNGVHRDMLAIEY-QNNARVLIPVDKIHLI 553


>gi|311028986|ref|ZP_07707076.1| transcription-repair coupling factor [Bacillus sp. m3-13]
 gi|311032274|ref|ZP_07710364.1| transcription-repair coupling factor [Bacillus sp. m3-13]
          Length = 1178

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  HG+G    I+  ++ G+  ++  I +      L VPV +   +  + +  
Sbjct: 501 NVGDYVVHINHGIGKYLGIETLDINGLHKDYIHIKYQGSD-KLYVPVEQIDQVQ-KYVGS 558

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +  KL         T W +       K+ S  +  IA+   DL +  ++ E S  
Sbjct: 559 EGKEPKVYKL-------GGTDWKK----VKNKVES-SVQDIAD---DLIKLYAEREASVG 603


>gi|317126795|ref|YP_004093077.1| transcription-repair coupling factor [Bacillus cellulosilyticus DSM
           2522]
 gi|315471743|gb|ADU28346.1| transcription-repair coupling factor [Bacillus cellulosilyticus DSM
           2522]
          Length = 1185

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    I+  EVAG+  ++  I +  +   L VPV +   +
Sbjct: 501 QVGDWVVHINHGIGKYLGIETLEVAGIHKDYMHITYAGND-KLYVPVDQIDQV 552


>gi|226355564|ref|YP_002785304.1| transcription-repair coupling factor [Deinococcus deserti VCD115]
 gi|226317554|gb|ACO45550.1| putative transcription-repair coupling factor [Deinococcus deserti
           VCD115]
          Length = 1041

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/96 (17%), Positives = 40/96 (41%), Gaps = 12/96 (12%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           G   G+ +++P HG+G    ++ ++V G+  ++  I + +    L VP+ +     +R+ 
Sbjct: 366 GLHVGDFLIHPEHGIGRFEGLETRKVLGVTRDYLNIEY-RGGARLSVPIEQLPV--LRRH 422

Query: 73  SEAHFVERALKLVRGKARVKRTMWSR---RAQEYDA 105
                    L          +  W++   RA++   
Sbjct: 423 PGTTDDPPVLSSF------DKKDWAKAKERARKNAE 452


>gi|322373973|ref|ZP_08048507.1| transcription-repair coupling factor [Streptococcus sp. C150]
 gi|321276939|gb|EFX54010.1| transcription-repair coupling factor [Streptococcus sp. C150]
          Length = 1168

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +D   + +PV +   +
Sbjct: 493 GDYVVHQTHGIGQFKGIETIEIKGVHRDYLTIQY-QDAATISLPVEQIESL 542


>gi|22536193|ref|NP_687044.1| transcription-repair coupling factor [Streptococcus agalactiae
           2603V/R]
 gi|25010083|ref|NP_734478.1| transcription-repair coupling factor [Streptococcus agalactiae
           NEM316]
 gi|77414464|ref|ZP_00790614.1| reticulocyte binding protein [Streptococcus agalactiae 515]
 gi|22533010|gb|AAM98916.1|AE014191_8 transcription-repair coupling factor [Streptococcus agalactiae
           2603V/R]
 gi|23094434|emb|CAD45653.1| Unknown [Streptococcus agalactiae NEM316]
 gi|77159474|gb|EAO70635.1| reticulocyte binding protein [Streptococcus agalactiae 515]
          Length = 1165

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+++V+  HGVG    I+  E+ G+  ++  I +      + +PV +  
Sbjct: 489 SVGDYVVHNVHGVGKFLGIETIEIQGIHRDYLTIQYQNAD-RISIPVEQIE 538


>gi|319746177|gb|EFV98447.1| transcription-repair coupling factor [Streptococcus agalactiae ATCC
           13813]
          Length = 1165

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+++V+  HGVG    I+  E+ G+  ++  I +      + +PV +  
Sbjct: 489 SVGDYVVHNVHGVGKFLGIETIEIQGIHRDYLTIQYQNAD-RISIPVEQIE 538


>gi|76788164|ref|YP_328735.1| transcription-repair coupling factor [Streptococcus agalactiae
           A909]
 gi|77405617|ref|ZP_00782706.1| reticulocyte binding protein [Streptococcus agalactiae H36B]
 gi|76563221|gb|ABA45805.1| transcription-repair coupling factor [Streptococcus agalactiae
           A909]
 gi|77175761|gb|EAO78541.1| reticulocyte binding protein [Streptococcus agalactiae H36B]
          Length = 1165

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+++V+  HGVG    I+  E+ G+  ++  I +      + +PV +  
Sbjct: 489 SVGDYVVHNVHGVGKFLGIETIEIQGIHRDYLTIQYQNAD-RISIPVEQIE 538


>gi|77407708|ref|ZP_00784463.1| reticulocyte binding protein [Streptococcus agalactiae COH1]
 gi|77173707|gb|EAO76821.1| reticulocyte binding protein [Streptococcus agalactiae COH1]
          Length = 1165

 Score = 50.5 bits (120), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+++V+  HGVG    I+  E+ G+  ++  I +      + +PV +  
Sbjct: 489 SVGDYVVHNVHGVGKFLGIETIEIQGIHRDYLTIQYQNAD-RISIPVEQIE 538


>gi|46198841|ref|YP_004508.1| transcription-repair coupling factor [Thermus thermophilus HB27]
 gi|46196464|gb|AAS80881.1| transcription-repair coupling factor [Thermus thermophilus HB27]
          Length = 978

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 50/118 (42%), Gaps = 16/118 (13%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
               G+++++P HGVG    ++ +EV G+K ++ V+ + K +  L +PV +   +  R  
Sbjct: 318 ALSPGDYLIHPEHGVGQYLGLETREVLGVKRDYLVLRY-KGEGKLYLPVEQLPLLK-RHP 375

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                           + + +  W +RA+E   K    D+  +A   R L     +  
Sbjct: 376 GTTDDPPEL-------SSLGKNEW-QRAKEKARK----DVEELAG--RLLVLQAKRKA 419


>gi|229542275|ref|ZP_04431335.1| transcription-repair coupling factor [Bacillus coagulans 36D1]
 gi|229326695|gb|EEN92370.1| transcription-repair coupling factor [Bacillus coagulans 36D1]
          Length = 1179

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/120 (22%), Positives = 48/120 (40%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  HG+G    I   E+ G+  ++  I +      L VPV +   +  +K   
Sbjct: 499 NVGDYVVHVNHGIGKYLGIVTLEINGVHKDYLHIKYQGSD-KLYVPVDQIDLV--QKYVG 555

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +   E  L  + G        W R       K+ S  +  IA+   DL +  ++ E S  
Sbjct: 556 SEGKEPKLYKLGGSE------WKR----VKRKVQS-SIQDIAD---DLVKLYAEREASKG 601


>gi|55980858|ref|YP_144155.1| transcription-repair coupling factor [Thermus thermophilus HB8]
 gi|55772271|dbj|BAD70712.1| transcription-repair coupling factor [Thermus thermophilus HB8]
          Length = 978

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 50/118 (42%), Gaps = 16/118 (13%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
               G+++++P HGVG    ++ +EV G+K ++ V+ + K +  L +PV +   +  R  
Sbjct: 318 ALSPGDYLIHPEHGVGQYLGLETREVLGVKRDYLVLRY-KGEGKLYLPVEQLPLLK-RHP 375

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                           + + +  W +RA+E   K    D+  +A   R L     +  
Sbjct: 376 GTTDDPPEL-------SSLGKNEW-QRAKERARK----DVEELAG--RLLVLQAKRKA 419


>gi|256374814|ref|YP_003098474.1| transcription-repair coupling factor [Actinosynnema mirum DSM
           43827]
 gi|255919117|gb|ACU34628.1| transcription-repair coupling factor [Actinosynnema mirum DSM
           43827]
          Length = 1187

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        RTG+++V+  HG+G   E+ ++ VAG   E+ V+ +   K      
Sbjct: 484 MPSRRRNAVDPLALRTGDYVVHEQHGIGRYVEMVQRTVAGATREYLVLEYASSKRGQPGD 543

Query: 56  CLKVPVGKAIDI 67
            L VP  +  ++
Sbjct: 544 RLFVPTDQLDEV 555


>gi|328950754|ref|YP_004368089.1| transcription-repair coupling factor [Marinithermus hydrothermalis
           DSM 14884]
 gi|328451078|gb|AEB11979.1| transcription-repair coupling factor [Marinithermus hydrothermalis
           DSM 14884]
          Length = 985

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 30/51 (58%), Gaps = 1/51 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
               G+++++P HG+G    I+ +EV G+K ++ V+ +  D   L +P+ +
Sbjct: 327 ALSEGDYLIHPEHGIGRFLGIETREVLGVKRDYLVLQYAGDG-RLYLPIEQ 376


>gi|228476216|ref|ZP_04060919.1| transcription-repair coupling factor [Staphylococcus hominis SK119]
 gi|228269701|gb|EEK11200.1| transcription-repair coupling factor [Staphylococcus hominis SK119]
          Length = 1169

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HGVG    ++  EV  +  ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYVVHVHHGVGRYLGVETLEVGDVHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|326333885|ref|ZP_08200118.1| transcription-repair coupling factor [Nocardioidaceae bacterium
           Broad-1]
 gi|325948467|gb|EGD40574.1| transcription-repair coupling factor [Nocardioidaceae bacterium
           Broad-1]
          Length = 1198

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  ++K+       + G+++V+  HGVG   E+K++EV G   E+ V+ +   K      
Sbjct: 508 MPARRKKQIDPLELKPGDYVVHEQHGVGQFIEMKQREVQGATREYLVLEYGASKRGAPPD 567

Query: 56  CLKVPVGKAIDI 67
            L VP      +
Sbjct: 568 RLYVPADALDQV 579


>gi|70727507|ref|YP_254423.1| transcription-repair coupling factor [Staphylococcus haemolyticus
           JCSC1435]
 gi|123748600|sp|Q4L3G0|MFD_STAHJ RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|68448233|dbj|BAE05817.1| transcription-repair coupling factor [Staphylococcus haemolyticus
           JCSC1435]
          Length = 1169

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HGVG    ++  EV  +  ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYVVHVHHGVGRYLGVETLEVGDVHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|314937290|ref|ZP_07844632.1| transcription-repair coupling factor [Staphylococcus hominis subsp.
           hominis C80]
 gi|313654586|gb|EFS18336.1| transcription-repair coupling factor [Staphylococcus hominis subsp.
           hominis C80]
          Length = 1169

 Score = 50.1 bits (119), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HGVG    ++  EV  +  ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYVVHVHHGVGRYLGVETLEVGDVHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|117929120|ref|YP_873671.1| transcription-repair coupling factor [Acidothermus cellulolyticus
           11B]
 gi|117649583|gb|ABK53685.1| transcription-repair coupling factor [Acidothermus cellulolyticus
           11B]
          Length = 1192

 Score = 50.1 bits (119), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/105 (19%), Positives = 39/105 (37%), Gaps = 17/105 (16%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  ++++       R G+ +V+  HGVG    +  +E+ G   E+ VI +   +      
Sbjct: 501 LPSRRRKSIDPLELRPGDFVVHEQHGVGRFVGMATREIGGATREYLVIEYAPSRRGQPGD 560

Query: 56  CLKVPVGKAIDIGMRKLSEAH-FVERALKLVRGKARVKRTMWSRR 99
            L VP      +  R +      ++R               W+RR
Sbjct: 561 RLWVPTDSLDQV-TRYVGGEAPTLDRI----------GGADWARR 594


>gi|160931462|ref|ZP_02078858.1| hypothetical protein CLOLEP_00295 [Clostridium leptum DSM 753]
 gi|156869527|gb|EDO62899.1| hypothetical protein CLOLEP_00295 [Clostridium leptum DSM 753]
          Length = 1149

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 37/74 (50%), Gaps = 2/74 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G++IV+ AHGVG    I + E+ G+  ++  + + K  + L VPV +   +  + +   
Sbjct: 493 PGDYIVHSAHGVGVFEGIHKLEMQGVTKDYLKVRYAKGDI-LYVPVTQLDMVS-KYIGPK 550

Query: 76  HFVERALKLVRGKA 89
             V+  L  + G+ 
Sbjct: 551 EEVKVRLNRLGGQD 564


>gi|302388692|ref|YP_003824513.1| transcription-repair coupling factor [Thermosediminibacter oceani
           DSM 16646]
 gi|302199320|gb|ADL06890.1| transcription-repair coupling factor [Thermosediminibacter oceani
           DSM 16646]
          Length = 1177

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           KR         G+++V+  HG+G    I+  EV G K ++F I +      L VP  +  
Sbjct: 497 KRITSIDELSAGDYVVHITHGIGRYLGIETLEVEGHKKDYFAIQYAGGD-KLYVPTDQVE 555


>gi|259501958|ref|ZP_05744860.1| transcription-repair coupling factor [Lactobacillus antri DSM
           16041]
 gi|259170135|gb|EEW54630.1| transcription-repair coupling factor [Lactobacillus antri DSM
           16041]
          Length = 1185

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  + IK  EV G+  ++ +I + ++   + VPV +   +
Sbjct: 507 KPGDYVVHVNHGIGIFSGIKTMEVDGVHQDYMIINY-RNNAQIFVPVTQLNLV 558


>gi|72382209|ref|YP_291564.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. NATL2A]
 gi|72002059|gb|AAZ57861.1| transcription-repair coupling factor [Prochlorococcus marinus str.
           NATL2A]
          Length = 1167

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
           +  +K D  +   + G+++V+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 488 SQSKKIDPNKM--KPGDYVVHRNHGIGLFQKIEKLNINGESRDYLVIKYMDGKLSV 541


>gi|312869845|ref|ZP_07729986.1| transcription-repair coupling factor [Lactobacillus oris
           PB013-T2-3]
 gi|311094624|gb|EFQ52927.1| transcription-repair coupling factor [Lactobacillus oris
           PB013-T2-3]
          Length = 1178

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  + IK  EV G+  ++ +I + ++   + VPV +   +
Sbjct: 500 KPGDYVVHVNHGIGIFSGIKTMEVDGVHQDYMIINY-RNNAQIFVPVTQLNLV 551


>gi|228995444|ref|ZP_04155114.1| Transcription-repair-coupling factor [Bacillus mycoides Rock3-17]
 gi|228764305|gb|EEM13182.1| Transcription-repair-coupling factor [Bacillus mycoides Rock3-17]
          Length = 1183

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +  +++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 508 KVDDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 559


>gi|228989261|ref|ZP_04149254.1| Transcription-repair-coupling factor [Bacillus pseudomycoides DSM
           12442]
 gi|228770471|gb|EEM19042.1| Transcription-repair-coupling factor [Bacillus pseudomycoides DSM
           12442]
          Length = 1176

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +  +++V+  HG+G    I+  E+ G+  ++  I +  +   L VP+ +   +
Sbjct: 501 KVDDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGND-KLYVPIEQIDQV 552


>gi|183221209|ref|YP_001839205.1| transcription-repair coupling factor [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
 gi|189911300|ref|YP_001962855.1| transcription-repair coupling factor [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Ames)']
 gi|167775976|gb|ABZ94277.1| Transcription-repair coupling factor [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Ames)']
 gi|167779631|gb|ABZ97929.1| Transcription-repair coupling factor (TRCF; ATP-dependent helicase
           Mfd) [Leptospira biflexa serovar Patoc strain 'Patoc 1
           (Paris)']
          Length = 1140

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
            ++++   M + F   + G+++V+  HGVG   +I+  +  G + +F  + +      L 
Sbjct: 463 RYKKQSSQMIESFIDLKEGDYVVHVNHGVGRFVKIERTKADGKERDFLKLEYAGGDS-LF 521

Query: 59  VPVGKAIDI 67
           VP+ +   +
Sbjct: 522 VPLDQISLV 530


>gi|163848640|ref|YP_001636684.1| transcription-repair coupling factor [Chloroflexus aurantiacus
           J-10-fl]
 gi|222526576|ref|YP_002571047.1| transcription-repair coupling factor [Chloroflexus sp. Y-400-fl]
 gi|163669929|gb|ABY36295.1| transcription-repair coupling factor [Chloroflexus aurantiacus
           J-10-fl]
 gi|222450455|gb|ACM54721.1| transcription-repair coupling factor [Chloroflexus sp. Y-400-fl]
          Length = 1185

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/61 (19%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           R A  +  + G+++V+  HG+     +  + V+ ++ E+ V+ +  +   + VPV +   
Sbjct: 484 RAAFLRTLKPGDYVVHIEHGIAIFDGMIRRTVSEVEREYLVLRYAGED-KIYVPVDQIDR 542

Query: 67  I 67
           +
Sbjct: 543 V 543


>gi|124025758|ref|YP_001014874.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. NATL1A]
 gi|123960826|gb|ABM75609.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. NATL1A]
          Length = 1167

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
           +  +K D  +   + G+++V+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 488 SQSKKIDPNKM--KPGDYVVHRNHGIGLFQKIEKLNINGESRDYLVIKYMDGKLSV 541


>gi|302332216|gb|ADL22409.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus JKD6159]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|221229524|ref|YP_002502940.1| putative transcription-repair coupling factor [Mycobacterium leprae
           Br4923]
 gi|219932631|emb|CAR70345.1| putative transcription-repair coupling factor [Mycobacterium leprae
           Br4923]
          Length = 1224

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++  A       G+ +V+  HG+G   E+ E+ V G + E+ V+ +  +K      
Sbjct: 512 LAAKRRSAADPLALTAGDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASNKKSKQAD 571

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 572 KLYVPMDSLDQL 583


>gi|323490992|ref|ZP_08096186.1| transcription-repair coupling factor [Planococcus donghaensis
           MPA1U2]
 gi|323395348|gb|EGA88200.1| transcription-repair coupling factor [Planococcus donghaensis
           MPA1U2]
          Length = 1177

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G++IV+  HG+G    I+  E  G+  ++  I +  D   L VPV K   I
Sbjct: 501 KPGDYIVHIHHGIGRFVGIETLESGGVHKDYLHIVYKADD-KLFVPVDKIDLI 552


>gi|15827046|ref|NP_301309.1| transcription-repair coupling factor [Mycobacterium leprae TN]
 gi|13092593|emb|CAC29760.1| putative transcription-repair coupling factor [Mycobacterium
           leprae]
          Length = 1224

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++  A       G+ +V+  HG+G   E+ E+ V G + E+ V+ +  +K      
Sbjct: 512 LAAKRRSAADPLALTAGDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASNKKSKQAD 571

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 572 KLYVPMDSLDQL 583


>gi|296875514|ref|ZP_06899586.1| transcription-repair coupling factor [Streptococcus parasanguinis
           ATCC 15912]
 gi|296433438|gb|EFH19213.1| transcription-repair coupling factor [Streptococcus parasanguinis
           ATCC 15912]
          Length = 1167

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/124 (20%), Positives = 52/124 (41%), Gaps = 24/124 (19%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +   +  + ++   
Sbjct: 491 GDYVVHQVHGIGQYLGIETIEISGVHRDYVSIQYQNGD-RISIPVDQIQMLS-KYVASDG 548

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
              +  KL  G           R Q+   K+ +  +  IA+   DL +        Y+ER
Sbjct: 549 KAPKINKLNDG-----------RFQKTKQKVQT-QVEDIAD---DLIKL-------YAER 586

Query: 137 QLYE 140
              E
Sbjct: 587 SQLE 590


>gi|283469795|emb|CAQ49006.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ST398]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|294496926|ref|YP_003560626.1| transcription-repair coupling factor [Bacillus megaterium QM B1551]
 gi|294346863|gb|ADE67192.1| transcription-repair coupling factor [Bacillus megaterium QM B1551]
          Length = 1176

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++  E+ G   ++  I ++     L VPV +   +
Sbjct: 501 NVGDYVVHVNHGIGRYLGMETLEINGNHKDYIHIKYEGSD-KLYVPVEQIDQV 552


>gi|258424461|ref|ZP_05687340.1| transcription-repair coupling factor [Staphylococcus aureus A9635]
 gi|257845330|gb|EEV69365.1| transcription-repair coupling factor [Staphylococcus aureus A9635]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|329731067|gb|EGG67439.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 21193]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|323438735|gb|EGA96475.1| transcription-repair coupling factor [Staphylococcus aureus O11]
 gi|323442053|gb|EGA99688.1| transcription-repair coupling factor [Staphylococcus aureus O46]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|295702293|ref|YP_003595368.1| transcription-repair coupling factor [Bacillus megaterium DSM 319]
 gi|294799952|gb|ADF37018.1| transcription-repair coupling factor [Bacillus megaterium DSM 319]
          Length = 1176

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++  E+ G   ++  I ++     L VPV +   +
Sbjct: 501 NVGDYVVHVNHGIGRYLGMETLEINGNHKDYIHIKYEGSD-KLYVPVEQIDQV 552


>gi|87160796|ref|YP_493190.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|88194263|ref|YP_499055.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus NCTC 8325]
 gi|161508743|ref|YP_001574402.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus USA300_TCH1516]
 gi|253735238|ref|ZP_04869403.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus TCH130]
 gi|258452816|ref|ZP_05700811.1| transcription-repair coupling factor [Staphylococcus aureus A5948]
 gi|262049988|ref|ZP_06022847.1| transcription-repair coupling factor [Staphylococcus aureus D30]
 gi|282925578|ref|ZP_06333231.1| transcription-repair coupling factor [Staphylococcus aureus A9765]
 gi|284023512|ref|ZP_06377910.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 132]
 gi|294850363|ref|ZP_06791096.1| transcription-repair coupling factor [Staphylococcus aureus A9754]
 gi|123098062|sp|Q2G0R8|MFD_STAA8 RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|123722412|sp|Q2FJD8|MFD_STAA3 RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|87126770|gb|ABD21284.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|87201821|gb|ABD29631.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus NCTC 8325]
 gi|160367552|gb|ABX28523.1| transcription-repair coupling factor helicase [Staphylococcus
           aureus subsp. aureus USA300_TCH1516]
 gi|253726798|gb|EES95527.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus TCH130]
 gi|257859502|gb|EEV82355.1| transcription-repair coupling factor [Staphylococcus aureus A5948]
 gi|259161923|gb|EEW46506.1| transcription-repair coupling factor [Staphylococcus aureus D30]
 gi|282592482|gb|EFB97494.1| transcription-repair coupling factor [Staphylococcus aureus A9765]
 gi|294822787|gb|EFG39223.1| transcription-repair coupling factor [Staphylococcus aureus A9754]
 gi|315196186|gb|EFU26542.1| transcription-repair coupling factor helicase [Staphylococcus
           aureus subsp. aureus CGS01]
 gi|320139410|gb|EFW31288.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MRSA131]
 gi|320144187|gb|EFW35955.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MRSA177]
 gi|329729764|gb|EGG66161.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 21189]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|57650044|ref|YP_185435.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus COL]
 gi|151220678|ref|YP_001331500.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus str. Newman]
 gi|81859647|sp|Q5HIH2|MFD_STAAC RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|57284230|gb|AAW36324.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus COL]
 gi|150373478|dbj|BAF66738.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus str. Newman]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|82750210|ref|YP_415951.1| transcription-repair coupling factor [Staphylococcus aureus RF122]
 gi|123768536|sp|Q2YVY2|MFD_STAAB RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|82655741|emb|CAI80140.1| transcription-repair coupling factor [Staphylococcus aureus RF122]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|298693833|gb|ADI97055.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ED133]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|253730971|ref|ZP_04865136.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus USA300_TCH959]
 gi|253725283|gb|EES94012.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus USA300_TCH959]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|21282187|ref|NP_645275.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MW2]
 gi|49485367|ref|YP_042588.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MSSA476]
 gi|297207394|ref|ZP_06923833.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ATCC 51811]
 gi|300910353|ref|ZP_07127806.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus TCH70]
 gi|81827911|sp|Q6GBY5|MFD_STAAS RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|81847858|sp|Q8NXZ6|MFD_STAAW RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|21203623|dbj|BAB94323.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MW2]
 gi|49243810|emb|CAG42235.1| putative transcription-repair coupling factor [Staphylococcus
           aureus subsp. aureus MSSA476]
 gi|296887957|gb|EFH26851.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ATCC 51811]
 gi|300888342|gb|EFK83529.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus TCH70]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|309812806|ref|ZP_07706544.1| transcription-repair coupling factor [Dermacoccus sp. Ellin185]
 gi|308433223|gb|EFP57117.1| transcription-repair coupling factor [Dermacoccus sp. Ellin185]
          Length = 1209

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+H+V+  HGVG   E+ ++ V G   E+ V+ +   K       L VP  +   +
Sbjct: 517 KPGDHVVHEQHGVGRFVEMMQRTVGGATREYLVLEYAASKRGQPGDRLFVPTDQLDQV 574


>gi|229815552|ref|ZP_04445879.1| hypothetical protein COLINT_02602 [Collinsella intestinalis DSM
           13280]
 gi|229808782|gb|EEP44557.1| hypothetical protein COLINT_02602 [Collinsella intestinalis DSM
           13280]
          Length = 169

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 28/176 (15%), Positives = 54/176 (30%), Gaps = 26/176 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC--LKVPVGKAIDIGMR 70
            F  G+H+++P  GV T+T   E     +     ++          L  P+  A    + 
Sbjct: 1   MFEIGQHVIHPGQGVCTVTGFTE----DVAHPMILLRAKSGHAETHLMYPL--AQQSRLH 54

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDA-------KINSGDLIAIAEVVRDLH 123
            +      E  +           T    R    +        K+ + + + +A+ VR  H
Sbjct: 55  AIISREDAEDLIDSYADLTVDSFT---ERNSALEETHFKQQLKLGAPETVRVAKTVR--H 109

Query: 124 RTDS-----QPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
           R        +   SY  R + + A  R + E +      E       +  +     
Sbjct: 110 RIAEAEAHGKKPSSYYSR-MLKEARRRTLEEFSVALGADEDAVEERFKAAIIQAGE 164


>gi|258429620|ref|ZP_05688294.1| transcription-repair-coupling factor [Staphylococcus aureus A9299]
 gi|257849679|gb|EEV73646.1| transcription-repair-coupling factor [Staphylococcus aureus A9299]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|258407227|ref|ZP_05680372.1| transcription-repair coupling factor [Staphylococcus aureus A9763]
 gi|257841185|gb|EEV65634.1| transcription-repair coupling factor [Staphylococcus aureus A9763]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|221142305|ref|ZP_03566798.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus str. JKD6009]
 gi|304380521|ref|ZP_07363197.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ATCC BAA-39]
 gi|269940074|emb|CBI48450.1| putative transcription-repair coupling factor [Staphylococcus
           aureus subsp. aureus TW20]
 gi|302750394|gb|ADL64571.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus str. JKD6008]
 gi|304340925|gb|EFM06849.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ATCC BAA-39]
 gi|329313222|gb|AEB87635.1| Transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus T0131]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|148266962|ref|YP_001245905.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus JH9]
 gi|150393008|ref|YP_001315683.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus JH1]
 gi|257794256|ref|ZP_05643235.1| transcription-repair coupling factor [Staphylococcus aureus A9781]
 gi|258420806|ref|ZP_05683742.1| transcription-repair coupling factor [Staphylococcus aureus A9719]
 gi|258448018|ref|ZP_05696148.1| transcription-repair coupling factor [Staphylococcus aureus A6224]
 gi|258453836|ref|ZP_05701809.1| transcription-repair coupling factor [Staphylococcus aureus A5937]
 gi|295407393|ref|ZP_06817190.1| transcription-repair coupling factor [Staphylococcus aureus A8819]
 gi|297246473|ref|ZP_06930313.1| transcription-repair coupling factor [Staphylococcus aureus A8796]
 gi|147740031|gb|ABQ48329.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus JH9]
 gi|149945460|gb|ABR51396.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus JH1]
 gi|257788228|gb|EEV26568.1| transcription-repair coupling factor [Staphylococcus aureus A9781]
 gi|257843198|gb|EEV67611.1| transcription-repair coupling factor [Staphylococcus aureus A9719]
 gi|257858708|gb|EEV81581.1| transcription-repair coupling factor [Staphylococcus aureus A6224]
 gi|257864007|gb|EEV86762.1| transcription-repair coupling factor [Staphylococcus aureus A5937]
 gi|285816202|gb|ADC36689.1| Transcription-repair coupling factor [Staphylococcus aureus
           04-02981]
 gi|294967750|gb|EFG43782.1| transcription-repair coupling factor [Staphylococcus aureus A8819]
 gi|297176660|gb|EFH35922.1| transcription-repair coupling factor [Staphylococcus aureus A8796]
 gi|312828998|emb|CBX33840.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ECT-R 2]
 gi|315128631|gb|EFT84634.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus CGS03]
 gi|329725040|gb|EGG61535.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 21172]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|15923493|ref|NP_371027.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus Mu50]
 gi|15926180|ref|NP_373713.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus N315]
 gi|156978831|ref|YP_001441090.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus Mu3]
 gi|253315228|ref|ZP_04838441.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus str. CF-Marseille]
 gi|255005296|ref|ZP_05143897.2| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus Mu50-omega]
 gi|282895111|ref|ZP_06303331.1| transcription-repair coupling factor [Staphylococcus aureus A8117]
 gi|81832560|sp|Q7A7B2|MFD_STAAN RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|81855990|sp|Q99WA0|MFD_STAAM RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|13700393|dbj|BAB41691.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus N315]
 gi|14246271|dbj|BAB56665.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus Mu50]
 gi|156720966|dbj|BAF77383.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus Mu3]
 gi|282762529|gb|EFC02669.1| transcription-repair coupling factor [Staphylococcus aureus A8117]
          Length = 1168

 Score = 49.7 bits (118), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|269202123|ref|YP_003281392.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ED98]
 gi|296276156|ref|ZP_06858663.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MR1]
 gi|262074413|gb|ACY10386.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus ED98]
          Length = 1168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|116626979|ref|YP_819598.1| transcription-repair coupling factor [Streptococcus thermophilus
           LMD-9]
 gi|116100256|gb|ABJ65402.1| Transcription-repair coupling factor (superfamily II helicase)
           [Streptococcus thermophilus LMD-9]
 gi|312277424|gb|ADQ62081.1| Transcription-repair coupling factor (Superfamily II helicase)
           [Streptococcus thermophilus ND03]
          Length = 1168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 28/167 (16%), Positives = 65/167 (38%), Gaps = 34/167 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  E+ G+  ++  I + +D   + +P+ +     + K     
Sbjct: 493 GDYVVHQTHGIGQFKGIETIEIKGVHRDYLTIQY-QDAATISLPIEQIES--LSKYVSVD 549

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
             E  +  +             R Q+   K+ S  +  IA+   +L +        Y+ER
Sbjct: 550 GKEPKINKLNDG----------RFQKTKQKV-SKQVEDIAD---NLLKL-------YAER 588

Query: 137 QLY---------ESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                       ++  +    E + V ++ +  +I  I+ ++ S   
Sbjct: 589 SQLKGFAFSPDDDNQRDF-EDEFSYVETVDQLRSIKEIKADMESDKP 634


>gi|258446110|ref|ZP_05694271.1| transcription-repair coupling factor [Staphylococcus aureus A6300]
 gi|257855087|gb|EEV78029.1| transcription-repair coupling factor [Staphylococcus aureus A6300]
          Length = 1168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|239637489|ref|ZP_04678463.1| transcription-repair coupling factor [Staphylococcus warneri
           L37603]
 gi|239596934|gb|EEQ79457.1| transcription-repair coupling factor [Staphylococcus warneri
           L37603]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 48/123 (39%), Gaps = 17/123 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 494 QDLNVGDYVVHVHHGVGRYLGVETLEVGEQHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 551

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      R         ++  T W +      AK+    +  IA+ + DL+    Q E 
Sbjct: 552 VASEDKSPRL-------NKLGGTEWKK----TKAKVQQ-SVEDIADELIDLY---KQREM 596

Query: 132 SYS 134
           S  
Sbjct: 597 SVG 599


>gi|293366145|ref|ZP_06612832.1| transcription-repair coupling factor [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|291319739|gb|EFE60098.1| transcription-repair coupling factor [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|329737888|gb|EGG74116.1| transcription-repair coupling factor [Staphylococcus epidermidis
           VCU045]
          Length = 1166

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 491 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 545


>gi|251809809|ref|ZP_04824282.1| transcription-repair coupling factor [Staphylococcus epidermidis
           BCM-HMP0060]
 gi|251806677|gb|EES59334.1| transcription-repair coupling factor [Staphylococcus epidermidis
           BCM-HMP0060]
          Length = 1166

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 491 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 545


>gi|242241588|ref|ZP_04796033.1| transcription-repair coupling factor [Staphylococcus epidermidis
           W23144]
 gi|242234969|gb|EES37280.1| transcription-repair coupling factor [Staphylococcus epidermidis
           W23144]
          Length = 1166

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 491 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 545


>gi|329723937|gb|EGG60462.1| transcription-repair coupling factor [Staphylococcus epidermidis
           VCU144]
          Length = 1166

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 491 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 545


>gi|283768938|ref|ZP_06341847.1| transcription-repair-coupling factor [Staphylococcus aureus subsp.
           aureus H19]
 gi|283461119|gb|EFC08205.1| transcription-repair-coupling factor [Staphylococcus aureus subsp.
           aureus H19]
          Length = 1168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/157 (18%), Positives = 62/157 (39%), Gaps = 20/157 (12%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             Y E    ++A      E+     ++  +A ++ E+
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKSIDEI 630


>gi|282915821|ref|ZP_06323589.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus D139]
 gi|282320312|gb|EFB50654.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus D139]
          Length = 1168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/157 (18%), Positives = 62/157 (39%), Gaps = 20/157 (12%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             Y E    ++A      E+     ++  +A ++ E+
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKSIDEI 630


>gi|282875433|ref|ZP_06284305.1| transcription-repair coupling factor [Staphylococcus epidermidis
           SK135]
 gi|281295790|gb|EFA88312.1| transcription-repair coupling factor [Staphylococcus epidermidis
           SK135]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|57866056|ref|YP_187737.1| transcription-repair coupling factor [Staphylococcus epidermidis
           RP62A]
 gi|81819455|sp|Q5HRQ2|MFD_STAEQ RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|57636714|gb|AAW53502.1| transcription-repair coupling factor [Staphylococcus epidermidis
           RP62A]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|27469198|ref|NP_765835.1| transcription-repair coupling factor [Staphylococcus epidermidis
           ATCC 12228]
 gi|81842450|sp|Q8CMT1|MFD_STAES RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|27316747|gb|AAO05922.1|AE016751_217 transcription-repair coupling factor [Staphylococcus epidermidis
           ATCC 12228]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|329733010|gb|EGG69349.1| transcription-repair coupling factor [Staphylococcus epidermidis
           VCU028]
          Length = 1166

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 491 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 545


>gi|319399660|gb|EFV87914.1| transcription-repair coupling factor [Staphylococcus epidermidis
           FRI909]
          Length = 1166

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 491 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 545


>gi|150014978|ref|YP_001307232.1| transcription-repair coupling factor [Clostridium beijerinckii
           NCIMB 8052]
 gi|149901443|gb|ABR32276.1| transcription-repair coupling factor [Clostridium beijerinckii
           NCIMB 8052]
          Length = 1166

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ +V G K ++  I +DK    L VPV +   I
Sbjct: 503 KPGDYVVHANHGIGVYKGIKQIDVGGHKRDYLDIVYDKGD-KLYVPVDQLDLI 554


>gi|322392420|ref|ZP_08065880.1| transcription-repair coupling factor [Streptococcus peroris ATCC
           700780]
 gi|321144412|gb|EFX39813.1| transcription-repair coupling factor [Streptococcus peroris ATCC
           700780]
          Length = 1167

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  I +      + +PV +   +
Sbjct: 492 QKGDYVVHQIHGIGQYLGIETIEIKGIHRDYVTIQYQNGD-RISIPVEQIQTL 543


>gi|330686080|gb|EGG97702.1| transcription-repair coupling factor [Staphylococcus epidermidis
           VCU121]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 48/123 (39%), Gaps = 17/123 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  HGVG    ++  EV     ++  + +      L VPV +   +  + 
Sbjct: 494 QDLNVGDYVVHVHHGVGRYLGVETLEVGEQHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 551

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      R         ++  T W +      AK+    +  IA+ + DL+    Q E 
Sbjct: 552 VASEDKSPRL-------NKLGGTEWKK----TKAKVQQ-SVEDIADELIDLY---KQREM 596

Query: 132 SYS 134
           S  
Sbjct: 597 SVG 599


>gi|156741461|ref|YP_001431590.1| transcription-repair coupling factor [Roseiflexus castenholzii DSM
           13941]
 gi|156232789|gb|ABU57572.1| transcription-repair coupling factor [Roseiflexus castenholzii DSM
           13941]
          Length = 1246

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
              + R A  +G + G+++V+  HG+     +  + V G+  ++  + + +    L VPV
Sbjct: 527 RSVEDRAAFLRGLKPGDYVVHIEHGIAVYEGLVRRSVGGVARDYLNLRYAEGD-RLYVPV 585

Query: 62  GKAIDI 67
            +   +
Sbjct: 586 DQIDRV 591


>gi|314932725|ref|ZP_07840095.1| transcription-repair coupling factor [Staphylococcus caprae C87]
 gi|313654555|gb|EFS18307.1| transcription-repair coupling factor [Staphylococcus caprae C87]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|242371667|ref|ZP_04817241.1| transcription-repair coupling factor [Staphylococcus epidermidis
           M23864:W1]
 gi|242350616|gb|EES42217.1| transcription-repair coupling factor [Staphylococcus epidermidis
           M23864:W1]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|257424615|ref|ZP_05601043.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 55/2053]
 gi|257427281|ref|ZP_05603682.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 65-1322]
 gi|257429918|ref|ZP_05606304.1| transcription-repair-coupling factor [Staphylococcus aureus subsp.
           aureus 68-397]
 gi|257435524|ref|ZP_05611574.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M876]
 gi|282903089|ref|ZP_06310981.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus C160]
 gi|282904878|ref|ZP_06312738.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282907825|ref|ZP_06315663.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus WW2703/97]
 gi|282910141|ref|ZP_06317947.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus WBG10049]
 gi|282913331|ref|ZP_06321122.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M899]
 gi|282918284|ref|ZP_06326024.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus C427]
 gi|282923035|ref|ZP_06330721.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus C101]
 gi|283957293|ref|ZP_06374751.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus A017934/97]
 gi|293500380|ref|ZP_06666232.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|293509318|ref|ZP_06668034.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M809]
 gi|293515907|ref|ZP_06670597.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M1015]
 gi|297591586|ref|ZP_06950223.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MN8]
 gi|257272642|gb|EEV04762.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 55/2053]
 gi|257275932|gb|EEV07400.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 65-1322]
 gi|257279434|gb|EEV10029.1| transcription-repair-coupling factor [Staphylococcus aureus subsp.
           aureus 68-397]
 gi|257285161|gb|EEV15278.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M876]
 gi|282314554|gb|EFB44941.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus C101]
 gi|282317850|gb|EFB48219.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus C427]
 gi|282322802|gb|EFB53122.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M899]
 gi|282325989|gb|EFB56295.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus WBG10049]
 gi|282328301|gb|EFB58576.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus WW2703/97]
 gi|282331995|gb|EFB61504.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282596515|gb|EFC01475.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus C160]
 gi|283791217|gb|EFC30027.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus A017934/97]
 gi|290921315|gb|EFD98373.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M1015]
 gi|291096340|gb|EFE26600.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|291467863|gb|EFF10373.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus M809]
 gi|297575455|gb|EFH94172.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MN8]
 gi|312436407|gb|ADQ75478.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus TCH60]
          Length = 1168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 62/158 (39%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV  +  ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQIHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|283796045|ref|ZP_06345198.1| transcriptional regulator, CarD family [Clostridium sp. M62/1]
 gi|291076255|gb|EFE13619.1| transcriptional regulator, CarD family [Clostridium sp. M62/1]
 gi|295092338|emb|CBK78445.1| CarD-like/TRCF domain. [Clostridium cf. saccharolyticum K10]
          Length = 169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/170 (13%), Positives = 65/170 (38%), Gaps = 9/170 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVA---GMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
            F+ GE+I+Y + G   +  +           +L + +I        +  PV     + M
Sbjct: 1   MFQEGEYIIYGSSGACKVERVGILPYGSGKEERLCYTLIPCRDPGSTIFTPVDN-QKVLM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-----R 124
           R +         +  +R  + +      +R +EY   + + D   +  +++ ++     R
Sbjct: 60  RPVMTREEAMDLIGQMREISPLWIQNERKREEEYREAVRTCDGRELVRIIKTIYLRRRKR 119

Query: 125 TDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                + + ++ + ++ A + +  E+A    +   +  + IE  + +  +
Sbjct: 120 MSEGKKITAADSRYFKLAEDNLYGELAVSLDLERDKVKDFIEEKIGAGEA 169


>gi|49482730|ref|YP_039954.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus MRSA252]
 gi|295427037|ref|ZP_06819674.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus EMRSA16]
 gi|81828081|sp|Q6GJG8|MFD_STAAR RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|49240859|emb|CAG39526.1| putative transcription-repair coupling factor [Staphylococcus
           aureus subsp. aureus MRSA252]
 gi|295129040|gb|EFG58669.1| transcription-repair coupling factor [Staphylococcus aureus subsp.
           aureus EMRSA16]
          Length = 1168

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 62/158 (39%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV  +  ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQIHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|223044420|ref|ZP_03614453.1| transcription-repair coupling factor [Staphylococcus capitis SK14]
 gi|222442209|gb|EEE48321.1| transcription-repair coupling factor [Staphylococcus capitis SK14]
          Length = 1169

 Score = 49.4 bits (117), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G++IV+  HGVG    ++  EV     ++  + +      L VPV +   +
Sbjct: 494 QDLNVGDYIVHVHHGVGRYLGVETLEVGDTHRDYIKLQYKGTD-QLFVPVDQMDQV 548


>gi|257432620|ref|ZP_05608982.1| transcription-repair-coupling factor [Staphylococcus aureus subsp.
           aureus E1410]
 gi|257282485|gb|EEV12618.1| transcription-repair-coupling factor [Staphylococcus aureus subsp.
           aureus E1410]
          Length = 1168

 Score = 49.4 bits (117), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 62/158 (39%), Gaps = 21/158 (13%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G++IV+  HGVG    ++  EV  +  ++  + +      L VPV +   +  + 
Sbjct: 493 QDLNVGDYIVHVHHGVGRYLGVETLEVGQIHRDYIKLQYKGTD-QLFVPVDQMDQVQ-KY 550

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           ++      +         ++  + W +      AK+    +  IAE + DL++     E 
Sbjct: 551 VASEDKTPKL-------NKLGGSEWKK----TKAKVQQ-SVEDIAEELIDLYKEREMAEG 598

Query: 132 -SYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
             Y E    ++A      E+     ++  +A + I+  
Sbjct: 599 YQYGE----DTAEQT-TFELDFPYELTPDQAKS-IDEI 630


>gi|320161444|ref|YP_004174668.1| transcription-repair coupling factor [Anaerolinea thermophila
           UNI-1]
 gi|319995297|dbj|BAJ64068.1| transcription-repair coupling factor [Anaerolinea thermophila
           UNI-1]
          Length = 1129

 Score = 49.4 bits (117), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +A    F+ G++IV+  +G+G    +  + V G++ E+  I ++     + VPV +A  +
Sbjct: 450 EAEYTDFKVGDYIVHVDYGIGRFAGLSRRTVDGVEREYLAIEYEGGD-TIFVPVYQADRL 508


>gi|260887854|ref|ZP_05899117.1| transcription-repair coupling factor [Selenomonas sputigena ATCC
           35185]
 gi|330838722|ref|YP_004413302.1| transcription-repair coupling factor [Selenomonas sputigena ATCC
           35185]
 gi|260862360|gb|EEX76860.1| transcription-repair coupling factor [Selenomonas sputigena ATCC
           35185]
 gi|329746486|gb|AEB99842.1| transcription-repair coupling factor [Selenomonas sputigena ATCC
           35185]
          Length = 1118

 Score = 49.4 bits (117), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 1/63 (1%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
             +++R A  +    G+++V+  HGVG    ++  +V G+K ++  I +  D   L VP 
Sbjct: 415 ASKEERIAHFREINVGDYVVHVNHGVGKYLGVETLDVGGIKKDYLHIKYGGDD-KLFVPT 473

Query: 62  GKA 64
            + 
Sbjct: 474 DQV 476


>gi|119715169|ref|YP_922134.1| transcription-repair coupling factor [Nocardioides sp. JS614]
 gi|119535830|gb|ABL80447.1| transcription-repair coupling factor [Nocardioides sp. JS614]
          Length = 1224

 Score = 49.4 bits (117), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  ++KR         G+++V+  HGVG   E+K++EV G   E+ V+ +   K      
Sbjct: 526 MPARRKRQIDPLELSAGDYVVHEQHGVGRFVEMKQREVGGAVREYLVLEYGASKRGGPPD 585

Query: 56  CLKVPVGKAIDI 67
            L VP      +
Sbjct: 586 RLYVPADALDQV 597


>gi|329666673|gb|AEB92621.1| transcription-repair coupling factor [Lactobacillus johnsonii DPC
           6026]
          Length = 1165

 Score = 49.4 bits (117), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 55/123 (44%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +  +   L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHND-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++  + W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGRVPHI-------NKLGSSEWTK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|76797973|ref|ZP_00780232.1| transcription-repair coupling factor [Streptococcus agalactiae
           18RS21]
 gi|76586653|gb|EAO63152.1| transcription-repair coupling factor [Streptococcus agalactiae
           18RS21]
          Length = 727

 Score = 49.4 bits (117), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+++V+  HGVG    I+  E+ G+  ++  I +      + +PV +  
Sbjct: 51  SVGDYVVHNVHGVGKFLGIETIEIQGIHRDYLTIQYQNAD-RISIPVEQIE 100


>gi|118444361|ref|YP_877116.1| transcription-repair coupling factor [Clostridium novyi NT]
 gi|118134817|gb|ABK61861.1| transcription-repair coupling factor [Clostridium novyi NT]
          Length = 1170

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ EV G K ++  ++++     L VPV +   +
Sbjct: 502 KPGDYVVHTNHGIGVYKGIKQLEVQGHKKDYLELSYNAGD-TLYVPVEQLDLV 553


>gi|55820109|ref|YP_138551.1| transcription repair coupling factor [Streptococcus thermophilus
           LMG 18311]
 gi|55736094|gb|AAV59736.1| transcription repair coupling factor [Streptococcus thermophilus
           LMG 18311]
          Length = 1168

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 27/167 (16%), Positives = 64/167 (38%), Gaps = 34/167 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  E+ G+  ++  I + +D   + +P+ +     + K     
Sbjct: 493 GDYVVHQTHGIGQFKGIETIEIRGVHRDYLTIQY-QDAATISLPIEQIES--LSKYVSVD 549

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
             E  +  +             R Q+   K+ S  +  IA+   +L +        Y+ER
Sbjct: 550 GKEPKINKLNDG----------RFQKTKQKV-SKQVEDIAD---NLLKL-------YAER 588

Query: 137 QLY---------ESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                       ++  +    E +   ++ +  +I  I+ ++ S   
Sbjct: 589 SQLKGFAFSPDDDNQRDF-EDEFSYAETVDQLRSIKEIKADMESDKP 634


>gi|326803014|ref|YP_004320832.1| transcription-repair coupling factor [Aerococcus urinae
           ACS-120-V-Col10a]
 gi|326650035|gb|AEA00218.1| transcription-repair coupling factor [Aerococcus urinae
           ACS-120-V-Col10a]
          Length = 1183

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q  + G+++V+  HG+G    ++  EVAG   ++  I    D   + VP+ +   +
Sbjct: 500 QELKPGDYVVHVNHGIGQFVGVETIEVAGNHKDYLSI-VYADNASIHVPIDQIDLV 554


>gi|255524039|ref|ZP_05391001.1| transcription-repair coupling factor [Clostridium carboxidivorans
           P7]
 gi|296186896|ref|ZP_06855297.1| transcription-repair coupling factor [Clostridium carboxidivorans
           P7]
 gi|255512326|gb|EET88604.1| transcription-repair coupling factor [Clostridium carboxidivorans
           P7]
 gi|296048610|gb|EFG88043.1| transcription-repair coupling factor [Clostridium carboxidivorans
           P7]
          Length = 1173

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ E+ G K ++  + ++ D   L VPV +   +
Sbjct: 505 KPGDYVVHANHGIGVYKGIKQLELQGHKKDYLELIYESDD-KLYVPVEQLDMV 556


>gi|325838706|ref|ZP_08166621.1| transcription-repair coupling factor [Turicibacter sp. HGF1]
 gi|325490756|gb|EGC93063.1| transcription-repair coupling factor [Turicibacter sp. HGF1]
          Length = 1176

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G + +F +IA+  D   L VP+ K   +
Sbjct: 496 KIGDYVVHVQHGIGQYIGIETLESNGARKDFLMIAYRGDD-KLYVPIDKIQMV 547


>gi|293375931|ref|ZP_06622192.1| transcription-repair coupling factor [Turicibacter sanguinis PC909]
 gi|292645453|gb|EFF63502.1| transcription-repair coupling factor [Turicibacter sanguinis PC909]
          Length = 1176

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G + +F +IA+  D   L VP+ K   +
Sbjct: 496 KIGDYVVHVQHGIGQYIGIETLESNGARKDFLMIAYRGDD-KLYVPIDKIQMV 547


>gi|332364170|gb|EGJ41947.1| transcription-repair coupling factor [Streptococcus sanguinis SK49]
          Length = 1167

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIKYQNSD-RISIPVDQID 542


>gi|78043233|ref|YP_359072.1| transcription-repair coupling factor [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77995348|gb|ABB14247.1| transcription-repair coupling factor [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 1160

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           F  G+++V+P HG+G    IK  EV G   ++ VIA+  +   L VP  +  ++
Sbjct: 497 FSPGDYVVHPVHGIGKYLGIKPVEVGGNVKDYLVIAYQGED-RLYVPPEQVGNL 549


>gi|55821999|ref|YP_140440.1| transcription repair coupling factor [Streptococcus thermophilus
           CNRZ1066]
 gi|55737984|gb|AAV61625.1| transcription repair coupling factor [Streptococcus thermophilus
           CNRZ1066]
          Length = 1168

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +D   + +P+ +   +
Sbjct: 493 GDYVVHQTHGIGQFKGIETIEIRGVHRDYLTIQY-QDAATISLPIEQIESL 542


>gi|325473854|gb|EGC77042.1| hypothetical protein HMPREF9353_01390 [Treponema denticola F0402]
          Length = 721

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/113 (15%), Positives = 44/113 (38%), Gaps = 14/113 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  +G+G    I+  ++   + ++  +    +   + +P+ +A  +  R +  
Sbjct: 493 NPGDYVVHVNYGIGKFRGIERVKILDTERDYINL-LYANDETVFIPIEQADLVQ-RYIGN 550

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
                  L ++  K+      W  R      K+    +  IA  + DL+    
Sbjct: 551 EGEAPH-LDILGSKS------WENR----KNKVKK-SVEDIAAKLIDLYSKRK 591


>gi|227528907|ref|ZP_03958956.1| transcription-repair coupling factor [Lactobacillus vaginalis ATCC
           49540]
 gi|227351181|gb|EEJ41472.1| transcription-repair coupling factor [Lactobacillus vaginalis ATCC
           49540]
          Length = 1170

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  + I+  EV G+  ++ VI + ++   + VPV +   +
Sbjct: 498 KPGDYVVHVNHGIGIFSGIRTMEVDGVHQDYMVINY-RNNAQIFVPVTQLNLV 549


>gi|167629346|ref|YP_001679845.1| transcription-repair coupling factor [Heliobacterium modesticaldum
           Ice1]
 gi|167592086|gb|ABZ83834.1| transcription-repair coupling factor [Heliobacterium modesticaldum
           Ice1]
          Length = 1247

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    +++ EV G+  ++ VI +  +   L VP  +   I
Sbjct: 515 GDYVVHVNHGIGRYMGVEKLEVGGVHKDYLVIRYAGED-RLYVPTDQVHLI 564


>gi|146317670|ref|YP_001197382.1| transcription-repair coupling factor [Streptococcus suis 05ZYH33]
 gi|253750931|ref|YP_003024072.1| transcription-repair coupling factor [Streptococcus suis SC84]
 gi|253752830|ref|YP_003025970.1| transcription-repair coupling factor [Streptococcus suis P1/7]
 gi|253754655|ref|YP_003027795.1| transcription-repair coupling factor [Streptococcus suis BM407]
 gi|145688476|gb|ABP88982.1| Transcription-repair coupling factor (superfamily II helicase)
           [Streptococcus suis 05ZYH33]
 gi|251815220|emb|CAZ50784.1| putative transcription-repair coupling factor [Streptococcus suis
           SC84]
 gi|251817119|emb|CAZ54840.1| putative transcription-repair coupling factor [Streptococcus suis
           BM407]
 gi|251819075|emb|CAR44089.1| putative transcription-repair coupling factor [Streptococcus suis
           P1/7]
 gi|292557472|gb|ADE30473.1| Transcription-repair coupling factor [Streptococcus suis GZ1]
          Length = 1164

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+++V+  HG+G    I+  E++G+  ++  + +      + +PV +  
Sbjct: 491 VGDYVVHHVHGIGQYLGIETIEISGIHRDYLTVQYQNSD-RISIPVEQID 539


>gi|298244980|ref|ZP_06968786.1| transcription-repair coupling factor [Ktedonobacter racemifer DSM
           44963]
 gi|297552461|gb|EFH86326.1| transcription-repair coupling factor [Ktedonobacter racemifer DSM
           44963]
          Length = 1169

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 33/70 (47%), Gaps = 5/70 (7%)

Query: 2   TFQQKRDAMRQGF----RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
           + Q+++      F      G+++V+  HG+G    + +  +AG++ E+ +I +      L
Sbjct: 487 SQQRRKPVTPASFLAEVNPGDYVVHQEHGIGRFEGLTKMNLAGVEREYLLIHYAGTD-KL 545

Query: 58  KVPVGKAIDI 67
            +P  +   +
Sbjct: 546 YIPTDQLDRV 555


>gi|116513512|ref|YP_812418.1| transcription-repair coupling factor [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC BAA-365]
 gi|116092827|gb|ABJ57980.1| transcription-repair coupling factor [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC BAA-365]
          Length = 1158

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G K ++  I + K    L VP  +   +
Sbjct: 486 KPGDYVVHVNHGIGRFEGIQTLETDGKKRDYITITYQKGD-QLFVPADQLSLV 537


>gi|317120949|ref|YP_004100952.1| transcription-repair coupling factor [Thermaerobacter marianensis
           DSM 12885]
 gi|315590929|gb|ADU50225.1| transcription-repair coupling factor [Thermaerobacter marianensis
           DSM 12885]
          Length = 1219

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  E+ G+  ++  I +      L VP  +   +
Sbjct: 516 KPGDYVVHVHHGIGRFLGLRTMEIQGVHRDYLTIQYAGGD-RLYVPTDQIELV 567


>gi|331268338|ref|YP_004394830.1| transcription-repair coupling factor [Clostridium botulinum
           BKT015925]
 gi|329124888|gb|AEB74833.1| transcription-repair coupling factor [Clostridium botulinum
           BKT015925]
          Length = 1169

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ EV G K ++  +++      L VPV +   +
Sbjct: 502 KPGDYVVHTNHGIGVYKGIKQLEVQGHKKDYLELSYTAGD-TLYVPVEQLDLV 553


>gi|319757180|gb|ADV69122.1| transcription-repair coupling factor [Streptococcus suis JS14]
          Length = 1164

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+++V+  HG+G    I+  E++G+  ++  + +      + +PV +  
Sbjct: 491 VGDYVVHHVHGIGQYLGIETIEISGIHRDYLTVQYQNSD-RISIPVEQID 539


>gi|332971077|gb|EGK10047.1| transcription-repair coupling factor [Desmospora sp. 8437]
          Length = 1181

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q  + G+++V+  HG+G     +  +V G+  ++ +I +  +   L VP+ +   +
Sbjct: 498 QELQPGDYVVHVNHGIGRYAGTETLDVGGIHKDYLLIQYAGND-KLYVPIEQIDQV 552


>gi|325846766|ref|ZP_08169681.1| transcription-repair coupling factor [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
 gi|325481524|gb|EGC84565.1| transcription-repair coupling factor [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
          Length = 1163

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  +G+G    I + EV   K ++FVI +  +   + VPV +   +
Sbjct: 498 EIGDYVVHENNGIGIYKGISQIEVNNTKKDYFVIEYQGND-KVFVPVDQMDLV 549


>gi|325125148|gb|ADY84478.1| Transcriptional repair coupling factor [Lactobacillus delbrueckii
           subsp. bulgaricus 2038]
          Length = 1163

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G K ++  I + K    L VP  +   +
Sbjct: 486 KPGDYVVHVNHGIGRFEGIQTLETDGKKRDYITITYQKGD-QLFVPADQLSLV 537


>gi|325684691|gb|EGD26845.1| transcription-repair coupling factor [Lactobacillus delbrueckii
           subsp. lactis DSM 20072]
          Length = 1158

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G K ++  I + K    L VP  +   +
Sbjct: 486 KPGDYVVHVNHGIGRFEGIQTLETDGKKRDYITITYQKGD-QLFVPADQLSLV 537


>gi|313123080|ref|YP_004033339.1| transcription-repair coupling factor (superfamily ii helicase)
           [Lactobacillus delbrueckii subsp. bulgaricus ND02]
 gi|312279643|gb|ADQ60362.1| Transcription-repair coupling factor (Superfamily II helicase)
           [Lactobacillus delbrueckii subsp. bulgaricus ND02]
          Length = 1158

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G K ++  I + K    L VP  +   +
Sbjct: 486 KPGDYVVHVNHGIGRFEGIQTLETDGKKRDYITITYQKGD-QLFVPADQLSLV 537


>gi|260893903|ref|YP_003240000.1| transcription-repair coupling factor [Ammonifex degensii KC4]
 gi|260866044|gb|ACX53150.1| transcription-repair coupling factor [Ammonifex degensii KC4]
          Length = 1123

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/122 (23%), Positives = 52/122 (42%), Gaps = 23/122 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM-- 69
           + F+ GE++V+P HG+G    + +  V G+  E+ +I +  +   L +P   A  +G+  
Sbjct: 458 REFKPGEYVVHPEHGIGIYRGLVQLSVEGVTREYALIQYAGED-RLYLP---ADQLGVLE 513

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSR-RAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
           R +      +  L  + G        W R RA+   A           +V R+L R  + 
Sbjct: 514 RYV-GGEGAKPRLSRLGGGE------WKRVRARVKQA---------ATDVARELLRLYAM 557

Query: 129 PE 130
            E
Sbjct: 558 RE 559


>gi|300812086|ref|ZP_07092534.1| transcription-repair coupling factor [Lactobacillus delbrueckii
           subsp. bulgaricus PB2003/044-T3-4]
 gi|300496925|gb|EFK31999.1| transcription-repair coupling factor [Lactobacillus delbrueckii
           subsp. bulgaricus PB2003/044-T3-4]
          Length = 1158

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G K ++  I + K    L VP  +   +
Sbjct: 486 KPGDYVVHVNHGIGRFEGIQTLETDGKKRDYITITYQKGD-QLFVPADQLSLV 537


>gi|291166313|gb|EFE28359.1| transcription-repair coupling factor [Filifactor alocis ATCC 35896]
          Length = 1124

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  +GVG   EI+++E  G+K ++  IA+      L VP+ +   +
Sbjct: 486 KKGDYVVHETYGVGQFIEIEQREFDGIKKDYIKIAYFGGDS-LYVPLEQMDKV 537


>gi|325830786|ref|ZP_08164170.1| CarD-like protein [Eggerthella sp. HGA1]
 gi|325487193|gb|EGC89636.1| CarD-like protein [Eggerthella sp. HGA1]
          Length = 179

 Score = 49.0 bits (116), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 31/173 (17%), Positives = 72/173 (41%), Gaps = 26/173 (15%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            +  G+ +VY  H V  +  ++E    G   ++  +    ++ + L V V +A    +R 
Sbjct: 1   MYACGDTVVYRHH-VCEVAALRENYFEG--KDYLELRALFENSLKLFVAVDEATPDNLRP 57

Query: 72  L-------------SEAHFVERALKLVRGKARVKRTMWSRRAQE-YDAKINS---GDLIA 114
           +              +A  ++     ++  A     +  RR +E YD ++ +    DLI 
Sbjct: 58  VMSKRKALALIDSIVDADTIDE--NALKPDAPTPTLL-ERRMKEEYDKRLRTFAPEDLIP 114

Query: 115 IAEVV--RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           I + V  R + R DS    + ++++ ++ A   +  E+A   ++      +++
Sbjct: 115 IMKSVHERSVRRVDSGRRITATDKKYFDLAEGLLCDELAVSLAVPRENVKDVL 167


>gi|251794075|ref|YP_003008806.1| transcription-repair coupling factor [Paenibacillus sp. JDR-2]
 gi|247541701|gb|ACS98719.1| transcription-repair coupling factor [Paenibacillus sp. JDR-2]
          Length = 1175

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I   E+ G+  ++  I +      L VPV +   I
Sbjct: 489 KVGDYVVHQNHGIGKYVGIGTLEIGGIHKDYLHILYAGGD-KLSVPVEQVDMI 540


>gi|253681221|ref|ZP_04862019.1| transcription-repair coupling factor [Clostridium botulinum D str.
           1873]
 gi|253562459|gb|EES91910.1| transcription-repair coupling factor [Clostridium botulinum D str.
           1873]
          Length = 1169

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ EV G K ++  +++      L VPV +   +
Sbjct: 502 KPGDYVVHTNHGIGVYKGIKQLEVQGHKKDYLELSYTAGD-TLYVPVEQLDLV 553


>gi|332365100|gb|EGJ42865.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK355]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|332359490|gb|EGJ37309.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK1056]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|325689360|gb|EGD31366.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK115]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|324989584|gb|EGC21530.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK353]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|323350835|ref|ZP_08086494.1| transcription-repair coupling factor [Streptococcus sanguinis
           VMC66]
 gi|322123009|gb|EFX94712.1| transcription-repair coupling factor [Streptococcus sanguinis
           VMC66]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|322390530|ref|ZP_08064048.1| transcription-repair coupling factor [Streptococcus parasanguinis
           ATCC 903]
 gi|321142804|gb|EFX38264.1| transcription-repair coupling factor [Streptococcus parasanguinis
           ATCC 903]
          Length = 1164

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/124 (20%), Positives = 51/124 (41%), Gaps = 24/124 (19%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +   +  + ++   
Sbjct: 491 GDYVVHQVHGIGQYLGIETIEISGVHRDYVSIQYQNGD-RISIPVDQIQMLS-KYVASDG 548

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
              +  KL  G           R Q    K+ +  +  IA+   DL +        Y+ER
Sbjct: 549 KTPKINKLNDG-----------RFQRTKQKVQT-QVEDIAD---DLIKL-------YAER 586

Query: 137 QLYE 140
              E
Sbjct: 587 SQLE 590


>gi|125716894|ref|YP_001034027.1| transcription-repair coupling factor [Streptococcus sanguinis SK36]
 gi|125496811|gb|ABN43477.1| Transcription-repair coupling factor, putative [Streptococcus
           sanguinis SK36]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|332363612|gb|EGJ41393.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK1059]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|328945180|gb|EGG39335.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK1087]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|327471614|gb|EGF17057.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK408]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|327467732|gb|EGF13226.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK330]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|325695766|gb|EGD37665.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK150]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|324991860|gb|EGC23783.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK405]
 gi|324996250|gb|EGC28160.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK678]
 gi|325698026|gb|EGD39907.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK160]
 gi|327458484|gb|EGF04834.1| transcription-repair coupling factor [Streptococcus sanguinis SK1]
 gi|327490344|gb|EGF22131.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK1058]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|148657760|ref|YP_001277965.1| transcription-repair coupling factor [Roseiflexus sp. RS-1]
 gi|148569870|gb|ABQ92015.1| transcription-repair coupling factor [Roseiflexus sp. RS-1]
          Length = 1265

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +G + G+++V+  HG+     +  + V G++ ++  + + +    L VPV +   +
Sbjct: 542 RGLKPGDYVVHIEHGIAVYEGLIRRSVGGIERDYLNLRYAEGD-RLYVPVDQIDRV 596


>gi|323142048|ref|ZP_08076896.1| transcription-repair coupling factor [Phascolarctobacterium sp. YIT
           12067]
 gi|322413435|gb|EFY04306.1| transcription-repair coupling factor [Phascolarctobacterium sp. YIT
           12067]
          Length = 1090

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 43/99 (43%), Gaps = 16/99 (16%)

Query: 5   QKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           + +    Q F   + G+++V+  HG+G    ++  EV G+  ++ ++A+  D   L VPV
Sbjct: 413 KNQGQQLQYFSDIKAGDYVVHKVHGIGRYIGVENVEVDGIHRDYLLLAYAGDD-KLYVPV 471

Query: 62  GKAIDIGMRK--LSEAHFVERALKLVRGKARVKRTMWSR 98
                +GM    +     V R        +++    W R
Sbjct: 472 ---EQVGMLHKYVGSEGSVPRL-------SKMGGNDWKR 500


>gi|325686483|gb|EGD28512.1| transcription-repair coupling factor [Streptococcus sanguinis SK72]
          Length = 1167

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYLTIQYQNSD-RISIPVDQID 542


>gi|15896463|ref|NP_349812.1| transcription-repair coupling factor [Clostridium acetobutylicum
           ATCC 824]
 gi|15026288|gb|AAK81152.1|AE007817_6 Transcription-repair coupling factor, MFD (superfamily II helicase
           ) [Clostridium acetobutylicum ATCC 824]
 gi|325510621|gb|ADZ22257.1| Transcription-repair coupling factor, MFD (superfamily II helicase
           ) [Clostridium acetobutylicum EA 2018]
          Length = 1171

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G++IV+  HG+G    IK+ EV G K ++  +++  D   L VPV +   +
Sbjct: 503 KPGDYIVHVNHGIGVFKGIKQLEVQGHKKDYLELSYAVDD-KLYVPVEQLDLV 554


>gi|323340106|ref|ZP_08080371.1| transcription-repair coupling factor [Lactobacillus ruminis ATCC
           25644]
 gi|323092483|gb|EFZ35090.1| transcription-repair coupling factor [Lactobacillus ruminis ATCC
           25644]
          Length = 1179

 Score = 48.6 bits (115), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 24/117 (20%), Positives = 53/117 (45%), Gaps = 15/117 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    ++  EVAG   ++  I   +D   L +PV +   I  + +S 
Sbjct: 499 KPGDFVVHVNHGIGRFMGMETLEVAGRHQDYMTI-IYRDDAKLFIPVSQLDRIQ-KYVSS 556

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPE 130
              V +         ++  + W +  ++  +K+       IA+ + +L+ R +S+  
Sbjct: 557 EGKVPKV-------NKLGSSEWEKTKRKVASKL-----EDIADELVELYSRRESEKG 601


>gi|313902509|ref|ZP_07835910.1| transcription-repair coupling factor [Thermaerobacter subterraneus
           DSM 13965]
 gi|313467195|gb|EFR62708.1| transcription-repair coupling factor [Thermaerobacter subterraneus
           DSM 13965]
          Length = 1196

 Score = 48.6 bits (115), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  E+ G+  ++  + +      L VP  +   +
Sbjct: 516 KPGDYVVHVHHGIGRFLGLRTMEIQGVHRDYLTLQYAGGD-RLYVPTDQIELV 567


>gi|199598792|ref|ZP_03212204.1| Transcription-repair coupling factor (superfamily II helicase)
           [Lactobacillus rhamnosus HN001]
 gi|199590297|gb|EDY98391.1| Transcription-repair coupling factor (superfamily II helicase)
           [Lactobacillus rhamnosus HN001]
          Length = 1175

 Score = 48.6 bits (115), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|75675705|ref|YP_318126.1| transcription-repair coupling factor [Nitrobacter winogradskyi
           Nb-255]
 gi|74420575|gb|ABA04774.1| transcription-repair coupling factor [Nitrobacter winogradskyi
           Nb-255]
          Length = 1174

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 18/115 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    ++  EV G   +   + +  ++  L +PV     +  R  S+  
Sbjct: 505 GDLVVHVEHGIGRFVGLQTLEVGGAPHDCLELRYA-NETKLFLPVENIELLS-RYGSDQA 562

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
            VE  L  + G        W  R     AK+ S     I E+  +L R  ++   
Sbjct: 563 NVE--LDRLGGGG------WQAR----KAKLKS----RIREIAGELIRIAAERHL 601


>gi|167463169|ref|ZP_02328258.1| transcription-repair coupling factor [Paenibacillus larvae subsp.
           larvae BRL-230010]
          Length = 1150

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q  + G+++V+  HG+G    I   E+ G+  ++  I +      L VP+ +   I
Sbjct: 486 QELKVGDYVVHVNHGIGKYVGIGTLEINGIHKDYLHILYAGGD-KLSVPIDQIDLI 540


>gi|258540716|ref|YP_003175215.1| transcription-repair coupling factor [Lactobacillus rhamnosus Lc
           705]
 gi|257152392|emb|CAR91364.1| Transcription-repair coupling factor [Lactobacillus rhamnosus Lc
           705]
          Length = 1175

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|239630377|ref|ZP_04673408.1| transcription-repair coupling factor [Lactobacillus paracasei
           subsp. paracasei 8700:2]
 gi|239526660|gb|EEQ65661.1| transcription-repair coupling factor [Lactobacillus paracasei
           subsp. paracasei 8700:2]
          Length = 1174

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|227533044|ref|ZP_03963093.1| transcription-repair coupling factor (TRCF) [Lactobacillus
           paracasei subsp. paracasei ATCC 25302]
 gi|227189445|gb|EEI69512.1| transcription-repair coupling factor (TRCF) [Lactobacillus
           paracasei subsp. paracasei ATCC 25302]
          Length = 1174

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|191639457|ref|YP_001988623.1| Transcription-repair coupling factor (TRCF) [Lactobacillus casei
           BL23]
 gi|190713759|emb|CAQ67765.1| Transcription-repair coupling factor (TRCF) [Lactobacillus casei
           BL23]
 gi|205270976|emb|CAP07849.1| transcriptional-repair coupling factor [Lactobacillus casei BL23]
 gi|327383550|gb|AEA55026.1| Transcription-repair coupling factor [Lactobacillus casei LC2W]
 gi|327386742|gb|AEA58216.1| Transcription-repair coupling factor [Lactobacillus casei BD-II]
          Length = 1174

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|72160828|ref|YP_288485.1| transcription-repair coupling factor [Thermobifida fusca YX]
 gi|71914560|gb|AAZ54462.1| transcription-repair coupling factor [Thermobifida fusca YX]
          Length = 1210

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 47/135 (34%), Gaps = 21/135 (15%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            ++R       + G+++V+  HG+G   E+  + + G   E+ VI +            K
Sbjct: 520 SRRRGVDPLQLKPGDYVVHEQHGIGRYVEMVSRTIQGATREYLVIEYAPS---------K 570

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTM----WSRRAQEYDAKINSGDLIAIAEVV 119
               G R       ++   + V G +     M    W        AK  S    A+ E+ 
Sbjct: 571 RGQPGDRLFVPTDQLDEVTRYVGGDSPTLSKMGGSDW--------AKAKSRARKAVREIA 622

Query: 120 RDLHRTDSQPEKSYS 134
            DL R  S    S  
Sbjct: 623 GDLIRLYSARHASPG 637


>gi|332798184|ref|YP_004459683.1| transcription-repair coupling factor [Tepidanaerobacter sp. Re1]
 gi|332695919|gb|AEE90376.1| transcription-repair coupling factor [Tepidanaerobacter sp. Re1]
          Length = 1178

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           KR         G+++V+  HG+G    I+  EV G   ++F + +      L VP  +  
Sbjct: 498 KRITDFNELDVGDYVVHITHGIGKYLGIESLEVGGHIKDYFTLMYAGGD-KLYVPTNQVD 556

Query: 66  DI 67
            I
Sbjct: 557 LI 558


>gi|301067528|ref|YP_003789551.1| transcription-repair coupling factor (superfamily II helicase)
           [Lactobacillus casei str. Zhang]
 gi|300439935|gb|ADK19701.1| Transcription-repair coupling factor (superfamily II helicase)
           [Lactobacillus casei str. Zhang]
          Length = 1174

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|258509516|ref|YP_003172267.1| transcription-repair coupling factor [Lactobacillus rhamnosus GG]
 gi|257149443|emb|CAR88416.1| Transcription-repair coupling factor [Lactobacillus rhamnosus GG]
 gi|259650784|dbj|BAI42946.1| transcription-repair coupling factor [Lactobacillus rhamnosus GG]
          Length = 1175

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|229551616|ref|ZP_04440341.1| transcription-repair coupling factor [Lactobacillus rhamnosus
           LMS2-1]
 gi|229315020|gb|EEN80993.1| transcription-repair coupling factor [Lactobacillus rhamnosus
           LMS2-1]
          Length = 1182

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 503 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 554


>gi|257791039|ref|YP_003181645.1| hypothetical protein Elen_1287 [Eggerthella lenta DSM 2243]
 gi|317488244|ref|ZP_07946812.1| hypothetical protein HMPREF1023_00510 [Eggerthella sp. 1_3_56FAA]
 gi|257474936|gb|ACV55256.1| hypothetical protein Elen_1287 [Eggerthella lenta DSM 2243]
 gi|316912656|gb|EFV34197.1| hypothetical protein HMPREF1023_00510 [Eggerthella sp. 1_3_56FAA]
          Length = 179

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 26/173 (15%), Positives = 69/173 (39%), Gaps = 26/173 (15%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRK 71
            +  G+ +VY  H V  +  ++E    G   ++  +    ++ + L V V +A    +R 
Sbjct: 1   MYACGDTVVYRHH-VCEVAALRENYFEG--KDYLELRALFENSLKLFVAVDEATPDNLRP 57

Query: 72  L-------------SEAHFVERALKLVRGKARVKRTMWSRRAQE-YDAKINSGDLIAIAE 117
           +              +A  ++     ++  A     +  RR +E YD ++ +     +  
Sbjct: 58  IMSKRAALALIDSIVDADTIDE--NALKPDAPTPTLL-ERRMKEEYDKRLRTFAPEDLVP 114

Query: 118 VV-----RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           ++     R + R DS    + ++++ ++ A   +  E+A   ++      +++
Sbjct: 115 IMKSVHERTVRRVDSGRRITATDKKYFDLAEGLLCDELAVSLAVPRENVKDVL 167


>gi|116495978|ref|YP_807712.1| transcription-repair coupling factor [Lactobacillus casei ATCC 334]
 gi|116106128|gb|ABJ71270.1| transcription-repair coupling factor [Lactobacillus casei ATCC 334]
          Length = 1174

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  T ++  EV G+  ++  I +  +   L +PV +   +
Sbjct: 496 KPGDYVVHVNHGIGQYTGMETLEVDGVHRDYITIVYRNND-KLFIPVDQLNLV 547


>gi|322381190|ref|ZP_08055193.1| transcription-repair coupling factor-like protein [Paenibacillus
           larvae subsp. larvae B-3650]
 gi|321154766|gb|EFX47037.1| transcription-repair coupling factor-like protein [Paenibacillus
           larvae subsp. larvae B-3650]
          Length = 1173

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q  + G+++V+  HG+G    I   E+ G+  ++  I +      L VP+ +   I
Sbjct: 486 QELKVGDYVVHVNHGIGKYVGIGTLEINGIHKDYLHILYAGGD-KLSVPIDQIDLI 540


>gi|327463840|gb|EGF10156.1| transcription-repair coupling factor [Streptococcus sanguinis
           SK1057]
          Length = 1167

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGVHRDYMTIQYQNSD-RISIPVDQID 542


>gi|320450396|ref|YP_004202492.1| transcription-repair coupling factor [Thermus scotoductus SA-01]
 gi|320150565|gb|ADW21943.1| transcription-repair coupling factor [Thermus scotoductus SA-01]
          Length = 980

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 49/118 (41%), Gaps = 16/118 (13%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
               G+ +++P HGVG    ++ +EV G++ ++ V+ + K +  L +PV +   +  R  
Sbjct: 320 ALSPGDFLIHPDHGVGQYLGLETREVLGVRRDYLVLRY-KGEGKLYLPVEQLPLLR-RHP 377

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                      L +G+       W +R +E   K    D+  +A   R L     +  
Sbjct: 378 GTTDDPPELSSLGKGE-------W-QRLKEKARK----DVEELA--ARLLILQAKRKA 421


>gi|319891456|ref|YP_004148331.1| Transcription-repair coupling factor [Staphylococcus
           pseudintermedius HKU10-03]
 gi|317161152|gb|ADV04695.1| Transcription-repair coupling factor [Staphylococcus
           pseudintermedius HKU10-03]
 gi|323465374|gb|ADX77527.1| transcription-repair coupling factor [Staphylococcus
           pseudintermedius ED99]
          Length = 1170

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HGVG    ++   V  +  ++  I +      L VPV +   +
Sbjct: 496 QELNVGDYVVHVHHGVGRYLGVETLAVGDVHRDYIKIQYQGTD-QLFVPVDQMEQV 550


>gi|205371994|ref|ZP_03224812.1| transcription-repair coupling factor [Bacillus coahuilensis m4-4]
          Length = 1181

 Score = 48.2 bits (114), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+   + G   ++  + +      L VPV +   +
Sbjct: 499 KVGDYVVHVNHGIGKYLGIETLMINGAHKDYLHLRYQGTD-KLYVPVEQIDLV 550


>gi|45657330|ref|YP_001416.1| transcription-repair coupling factor [Leptospira interrogans
           serovar Copenhageni str. Fiocruz L1-130]
 gi|45600568|gb|AAS70053.1| transcription-repair coupling factor [Leptospira interrogans
           serovar Copenhageni str. Fiocruz L1-130]
          Length = 1186

 Score = 48.2 bits (114), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 32/69 (46%), Gaps = 4/69 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
            F+++     Q F   + G+++V+  HGVG   +I+     G + +F  + +      L 
Sbjct: 505 RFKKQNSKALQSFIDLKEGDYVVHIHHGVGKFLKIERTSAGGKERDFLKLEYSGGDS-LF 563

Query: 59  VPVGKAIDI 67
           VP+ +   +
Sbjct: 564 VPLDQISLV 572


>gi|24215213|ref|NP_712694.1| transcription-repair coupling factor [Leptospira interrogans
           serovar Lai str. 56601]
 gi|24196293|gb|AAN49712.1|AE011418_8 transcription-repair coupling factor [Leptospira interrogans
           serovar Lai str. 56601]
          Length = 1186

 Score = 48.2 bits (114), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 32/69 (46%), Gaps = 4/69 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
            F+++     Q F   + G+++V+  HGVG   +I+     G + +F  + +      L 
Sbjct: 505 RFKKQNSKALQSFIDLKEGDYVVHIHHGVGKFLKIERTSAGGKERDFLKLEYSGGDS-LF 563

Query: 59  VPVGKAIDI 67
           VP+ +   +
Sbjct: 564 VPLDQISLV 572


>gi|269792682|ref|YP_003317586.1| DEAD/DEAH box helicase domain-containing protein [Thermanaerovibrio
           acidaminovorans DSM 6589]
 gi|269100317|gb|ACZ19304.1| DEAD/DEAH box helicase domain protein [Thermanaerovibrio
           acidaminovorans DSM 6589]
          Length = 994

 Score = 48.2 bits (114), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 27/125 (21%), Positives = 49/125 (39%), Gaps = 18/125 (14%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  +GV     I+  E  G++ ++  + F + K  L  P  +   +  R   +  
Sbjct: 354 GDLMVHEDYGVCRFLGIEMIEQGGVQQDYIALEFAQGKRLLM-PTYRIARL-YRYAGDPA 411

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAE-VVRDLHRTDSQPEKSYS- 134
             E  L  ++      R  WSR  QE   K         AE ++    R  S    ++  
Sbjct: 412 EAE--LDSLK------RGRWSRSYQEAKEKAR-----EAAERLLSAQARRHSARGIAFDP 458

Query: 135 -ERQL 138
            ER++
Sbjct: 459 LEREM 463


>gi|296131721|ref|YP_003638968.1| transcription-repair coupling factor [Thermincola sp. JR]
 gi|296030299|gb|ADG81067.1| transcription-repair coupling factor [Thermincola potens JR]
          Length = 1178

 Score = 48.2 bits (114), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    +++ EV G+  ++ +I +  +   L VP  +   +
Sbjct: 509 SVGDYVVHVNHGIGRYLGLQKLEVGGVTKDYLIIQYTGED-KLYVPTDQISLV 560


>gi|28209962|ref|NP_780906.1| transcription-repair coupling factor [Clostridium tetani E88]
 gi|28202397|gb|AAO34843.1| transcription-repair coupling factor [Clostridium tetani E88]
          Length = 1030

 Score = 48.2 bits (114), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 10/73 (13%)

Query: 4   QQKRDAMRQGF---------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           + K+   ++GF         + G++IV+  HG+G    IK+ EV G + ++  + +  D 
Sbjct: 490 KNKKLTNKKGFSRIKSFTDLKPGDYIVHVNHGIGVYKGIKQLEVGGHRKDYLELTYYGDD 549

Query: 55  MCLKVPVGKAIDI 67
             L VPV +   +
Sbjct: 550 -KLYVPVEQLDIV 561


>gi|324997533|ref|ZP_08118645.1| transcription-repair coupling factor [Pseudonocardia sp. P1]
          Length = 1211

 Score = 48.2 bits (114), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+++V+  HG+G   E+KE+ V G   E+ V+ +   K       L VP     +I
Sbjct: 521 QPGDYVVHNQHGIGRFVEMKERTVQGATREYLVLEYASSKRGQPADRLFVPTDALDEI 578


>gi|229917410|ref|YP_002886056.1| transcription-repair coupling factor [Exiguobacterium sp. AT1b]
 gi|229468839|gb|ACQ70611.1| transcription-repair coupling factor [Exiguobacterium sp. AT1b]
          Length = 1175

 Score = 47.8 bits (113), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 1/65 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
              +R    Q  +  +++V+  HG+G    IK  EV G+  ++  + +  D   L VPV 
Sbjct: 485 TNAERIKSYQELKPNDYVVHVHHGIGKYLGIKTIEVGGIHQDYLHLVYAGDDA-LYVPVD 543

Query: 63  KAIDI 67
           +   +
Sbjct: 544 QIDLV 548


>gi|325282867|ref|YP_004255408.1| transcription factor CarD [Deinococcus proteolyticus MRP]
 gi|324314676|gb|ADY25791.1| transcription factor CarD [Deinococcus proteolyticus MRP]
          Length = 1054

 Score = 47.8 bits (113), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 41/96 (42%), Gaps = 12/96 (12%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           G  TG+++++P HG+G    ++ + V G+  ++  + + +    L VP+ +   +  R  
Sbjct: 378 GLHTGDYLIHPEHGIGQFLGLETRTVLGVTRDYLNLEY-RGGSRLSVPIEQLSLLR-RHP 435

Query: 73  SEAHFVERALKLVRGKARVKRTMWSR---RAQEYDA 105
                  R        +   +  WS+   RAQ+   
Sbjct: 436 GTTDDPPRL-------SSFDKKDWSKAKARAQKNAE 464


>gi|256844410|ref|ZP_05549896.1| transcription-repair coupling factor [Lactobacillus crispatus
           125-2-CHN]
 gi|256613488|gb|EEU18691.1| transcription-repair coupling factor [Lactobacillus crispatus
           125-2-CHN]
          Length = 1164

 Score = 47.8 bits (113), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGTKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|312866818|ref|ZP_07727031.1| putative transcription-repair coupling factor [Streptococcus
           parasanguinis F0405]
 gi|311097601|gb|EFQ55832.1| putative transcription-repair coupling factor [Streptococcus
           parasanguinis F0405]
          Length = 764

 Score = 47.8 bits (113), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 52/124 (41%), Gaps = 24/124 (19%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +   +  + ++   
Sbjct: 491 GDYVVHQVHGIGQYLGIETIEISGVHRDYVSIQYQNGD-RISIPVDQIQMLS-KYVASDG 548

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
              +  KL  G           R Q+   ++ +  +  IA+   DL +        Y+ER
Sbjct: 549 KTPKINKLNDG-----------RFQKTKQRVQT-QVEDIAD---DLIKL-------YAER 586

Query: 137 QLYE 140
              E
Sbjct: 587 SQLE 590


>gi|262047218|ref|ZP_06020176.1| transcription-repair coupling factor [Lactobacillus crispatus
           MV-3A-US]
 gi|312978409|ref|ZP_07790151.1| transcription-repair coupling factor [Lactobacillus crispatus
           CTV-05]
 gi|260572463|gb|EEX29025.1| transcription-repair coupling factor [Lactobacillus crispatus
           MV-3A-US]
 gi|310894752|gb|EFQ43824.1| transcription-repair coupling factor [Lactobacillus crispatus
           CTV-05]
          Length = 1164

 Score = 47.8 bits (113), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGTKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|331694753|ref|YP_004330992.1| transcription-repair coupling factor [Pseudonocardia dioxanivorans
           CB1190]
 gi|326949442|gb|AEA23139.1| transcription-repair coupling factor [Pseudonocardia dioxanivorans
           CB1190]
          Length = 1194

 Score = 47.8 bits (113), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 11/77 (14%)

Query: 2   TFQQKRDAMRQG------FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
              +K  A R+        + G+ +V+  HG+G   E++E+ V G   E+ V+ +   K 
Sbjct: 489 ATARKMPARRRNAVDLAVLQPGDFVVHSQHGIGKFVEMRERTVQGATREYLVLEYASSKR 548

Query: 56  -----CLKVPVGKAIDI 67
                 L VP     +I
Sbjct: 549 GQPADRLFVPTDALDEI 565


>gi|299782816|gb|ADJ40814.1| Transcription-repair coupling factor [Lactobacillus fermentum CECT
           5716]
          Length = 1113

 Score = 47.8 bits (113), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  EV G+  ++ V+ + +D   + VPV +   +
Sbjct: 430 KPGDYVVHVNHGIGLFAGIKTMEVDGVHQDYMVLDY-RDNAQIFVPVTQLNLV 481


>gi|295425671|ref|ZP_06818358.1| transcription-repair coupling factor [Lactobacillus amylolyticus
           DSM 11664]
 gi|295064687|gb|EFG55608.1| transcription-repair coupling factor [Lactobacillus amylolyticus
           DSM 11664]
          Length = 1165

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLRLV 543


>gi|295692138|ref|YP_003600748.1| transcription-repair coupling factor [Lactobacillus crispatus ST1]
 gi|295030244|emb|CBL49723.1| Transcription-repair coupling factor [Lactobacillus crispatus ST1]
          Length = 1164

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGTKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|227878367|ref|ZP_03996322.1| transcriptional repair coupling factor [Lactobacillus crispatus
           JV-V01]
 gi|256849202|ref|ZP_05554635.1| transcriptional repair coupling factor [Lactobacillus crispatus
           MV-1A-US]
 gi|227862046|gb|EEJ69610.1| transcriptional repair coupling factor [Lactobacillus crispatus
           JV-V01]
 gi|256713978|gb|EEU28966.1| transcriptional repair coupling factor [Lactobacillus crispatus
           MV-1A-US]
          Length = 1164

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGTKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|42526796|ref|NP_971894.1| transcription-repair coupling factor [Treponema denticola ATCC
           35405]
 gi|41817111|gb|AAS11805.1| transcription-repair coupling factor [Treponema denticola ATCC
           35405]
          Length = 1155

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 17/113 (15%), Positives = 44/113 (38%), Gaps = 14/113 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  +G+G    I+  ++   + ++  +    +   + +P+ +A  +  R +  
Sbjct: 493 NPGDYVVHVNYGIGKFRGIERVKILDTERDYINL-LYANDETVFIPIEQADLVQ-RYIGN 550

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
                  L ++  K+      W  R      K+    +  IA  + DL+    
Sbjct: 551 EGEAPH-LDILGSKS------WENR----KNKVKK-SVEDIAAKLIDLYSKRK 591


>gi|293380357|ref|ZP_06626428.1| transcription-repair coupling factor [Lactobacillus crispatus
           214-1]
 gi|290923040|gb|EFD99971.1| transcription-repair coupling factor [Lactobacillus crispatus
           214-1]
          Length = 1164

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGTKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|256824567|ref|YP_003148527.1| transcription-repair coupling factor Mfd [Kytococcus sedentarius
           DSM 20547]
 gi|256687960|gb|ACV05762.1| transcription-repair coupling factor Mfd [Kytococcus sedentarius
           DSM 20547]
          Length = 1244

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  ++++         G+ IV+  HGVG   E+ ++ V G   E+ V+ +   K      
Sbjct: 544 MPSRRRKMVDPLQLNPGDFIVHEQHGVGRFIEMVQRTVGGATREYLVLEYASSKRGQPAD 603

Query: 56  CLKVPVGKAIDI 67
            L VP  +   I
Sbjct: 604 RLFVPTDQLDQI 615


>gi|315104557|gb|EFT76533.1| transcription-repair coupling factor [Propionibacterium acnes
           HL050PA2]
          Length = 1208

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|314982388|gb|EFT26481.1| transcription-repair coupling factor [Propionibacterium acnes
           HL110PA3]
 gi|315092571|gb|EFT64547.1| transcription-repair coupling factor [Propionibacterium acnes
           HL110PA4]
          Length = 1208

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|314922168|gb|EFS85999.1| transcription-repair coupling factor [Propionibacterium acnes
           HL001PA1]
 gi|314965251|gb|EFT09350.1| transcription-repair coupling factor [Propionibacterium acnes
           HL082PA2]
 gi|315094011|gb|EFT65987.1| transcription-repair coupling factor [Propionibacterium acnes
           HL060PA1]
 gi|327329541|gb|EGE71301.1| transcription-repair coupling factor [Propionibacterium acnes
           HL103PA1]
          Length = 1208

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|114800270|ref|YP_760685.1| transcription-repair coupling factor [Hyphomonas neptunium ATCC
           15444]
 gi|114740444|gb|ABI78569.1| transcription-repair coupling factor [Hyphomonas neptunium ATCC
           15444]
          Length = 1145

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +K  EV G   +   + +    M + +PV     I
Sbjct: 441 PGDLVVHIDHGVGKYIGLKTLEVTGAPHDCLQLEYAGGDM-IFIPVENIDLI 491


>gi|284048953|ref|YP_003399292.1| transcription-repair coupling factor [Acidaminococcus fermentans
           DSM 20731]
 gi|283953174|gb|ADB47977.1| transcription-repair coupling factor [Acidaminococcus fermentans
           DSM 20731]
          Length = 1092

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 7/72 (9%)

Query: 1   MTFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
           +T  + +      F   + G+++V+   G+G    ++  EV G+  ++  + +      L
Sbjct: 412 LTKTKGKGPALNYFSDIKAGDYVVHDVQGIGRYMGVETIEVNGVHRDYLQLQYAGGD-KL 470

Query: 58  KVPVGKAIDIGM 69
            VPV     +G+
Sbjct: 471 HVPV---EQVGL 479


>gi|219666201|ref|YP_002456636.1| transcription-repair coupling factor [Desulfitobacterium hafniense
           DCB-2]
 gi|219536461|gb|ACL18200.1| transcription-repair coupling factor [Desulfitobacterium hafniense
           DCB-2]
          Length = 1197

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 4/61 (6%)

Query: 6   KRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           ++   R  F   + G+ +V+  HG+G    I+   V G++ ++F + +      L VP+ 
Sbjct: 512 EKTGQRLQFADLKPGDFVVHVHHGIGQFMGIERIAVGGVEKDYFSVKYAGQD-KLYVPLD 570

Query: 63  K 63
           +
Sbjct: 571 Q 571


>gi|312144318|ref|YP_003995764.1| transcription-repair coupling factor [Halanaerobium sp.
           'sapolanicus']
 gi|311904969|gb|ADQ15410.1| transcription-repair coupling factor [Halanaerobium sp.
           'sapolanicus']
          Length = 1164

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    +K  E+ G   ++ V+ +  +   L VP  K   +
Sbjct: 500 GDYVVHENHGIGKYLGVKTLEIQGQHKDYLVLKYAGED-KLYVPTDKINLV 549


>gi|134097431|ref|YP_001103092.1| transcription-repair coupling factor [Saccharopolyspora erythraea
           NRRL 2338]
 gi|291004579|ref|ZP_06562552.1| transcription-repair coupling factor [Saccharopolyspora erythraea
           NRRL 2338]
 gi|133910054|emb|CAM00166.1| transcription-repair coupling factor [Saccharopolyspora erythraea
           NRRL 2338]
          Length = 1195

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        + G+ +V+  HG+G   E+ ++ V G   E+ V+ +   K      
Sbjct: 494 MPSRRRNAVDPLALKAGDFVVHEQHGIGKYVEMVQRTVGGATREYLVLEYASSKRGQPGD 553

Query: 56  CLKVPVGKAIDI 67
            L VP  +  ++
Sbjct: 554 RLFVPTDQLDEV 565


>gi|89892935|ref|YP_516422.1| hypothetical protein DSY0189 [Desulfitobacterium hafniense Y51]
 gi|89332383|dbj|BAE81978.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 1178

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 4/61 (6%)

Query: 6   KRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           ++   R  F   + G+ +V+  HG+G    I+   V G++ ++F + +      L VP+ 
Sbjct: 493 EKTGQRLQFADLKPGDFVVHVHHGIGQFMGIERIAVGGVEKDYFSVKYAGQD-KLYVPLD 551

Query: 63  K 63
           +
Sbjct: 552 Q 552


>gi|257057197|ref|YP_003135029.1| transcription-repair coupling factor Mfd [Saccharomonospora viridis
           DSM 43017]
 gi|256587069|gb|ACU98202.1| transcription-repair coupling factor Mfd [Saccharomonospora viridis
           DSM 43017]
          Length = 1199

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        ++G+++V+  HG+G   E+  + V G   E+ VI +   K      
Sbjct: 497 MPSRRRNAVDPLALKSGDYVVHDQHGIGRFVEMVRRTVGGATREYLVIEYAPSKRGHPGD 556

Query: 56  CLKVPVGKAIDI 67
            L VP  +  ++
Sbjct: 557 RLFVPTDQLDEV 568


>gi|304319738|ref|YP_003853381.1| transcription-repair coupling factor [Parvularcula bermudensis
           HTCC2503]
 gi|303298641|gb|ADM08240.1| transcription-repair coupling factor [Parvularcula bermudensis
           HTCC2503]
          Length = 1163

 Score = 47.8 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
                   G+ IV+  HG+G    ++  EV G   +  ++ + K    L +PV    
Sbjct: 489 TEASSLSVGDLIVHVDHGIGRYDGLETLEVGGAPHDCLILTYQKGD-KLFLPVENIE 544


>gi|332674949|gb|AEE71765.1| transcription-repair-coupling factor [Propionibacterium acnes 266]
          Length = 1222

 Score = 47.8 bits (113), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 538 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 595


>gi|295130108|ref|YP_003580771.1| transcription-repair coupling factor [Propionibacterium acnes
           SK137]
 gi|291376182|gb|ADE00037.1| transcription-repair coupling factor [Propionibacterium acnes
           SK137]
          Length = 1222

 Score = 47.8 bits (113), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 538 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 595


>gi|260663740|ref|ZP_05864628.1| transcription-repair coupling factor [Lactobacillus fermentum
           28-3-CHN]
 gi|260551791|gb|EEX24907.1| transcription-repair coupling factor [Lactobacillus fermentum
           28-3-CHN]
          Length = 1180

 Score = 47.8 bits (113), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  EV G+  ++ V+ + +D   + VPV +   +
Sbjct: 497 KPGDYVVHVNHGIGLFAGIKTMEVDGVHQDYMVLDY-RDNAQIFVPVTQLNLV 548


>gi|227514331|ref|ZP_03944380.1| transcription-repair coupling factor [Lactobacillus fermentum ATCC
           14931]
 gi|227087303|gb|EEI22615.1| transcription-repair coupling factor [Lactobacillus fermentum ATCC
           14931]
          Length = 1180

 Score = 47.8 bits (113), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  EV G+  ++ V+ + +D   + VPV +   +
Sbjct: 497 KPGDYVVHVNHGIGLFAGIKTMEVDGVHQDYMVLDY-RDNAQIFVPVTQLNLV 548


>gi|327335135|gb|EGE76846.1| transcription-repair coupling factor [Propionibacterium acnes
           HL097PA1]
          Length = 1208

 Score = 47.8 bits (113), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|313792864|gb|EFS40931.1| transcription-repair coupling factor [Propionibacterium acnes
           HL110PA1]
 gi|313802684|gb|EFS43906.1| transcription-repair coupling factor [Propionibacterium acnes
           HL110PA2]
 gi|313840319|gb|EFS78033.1| transcription-repair coupling factor [Propionibacterium acnes
           HL086PA1]
 gi|314964282|gb|EFT08382.1| transcription-repair coupling factor [Propionibacterium acnes
           HL082PA1]
 gi|315078702|gb|EFT50733.1| transcription-repair coupling factor [Propionibacterium acnes
           HL053PA2]
 gi|315081837|gb|EFT53813.1| transcription-repair coupling factor [Propionibacterium acnes
           HL078PA1]
 gi|327456823|gb|EGF03478.1| transcription-repair coupling factor [Propionibacterium acnes
           HL092PA1]
          Length = 1208

 Score = 47.8 bits (113), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|223983659|ref|ZP_03633835.1| hypothetical protein HOLDEFILI_01116 [Holdemania filiformis DSM
           12042]
 gi|223964356|gb|EEF68692.1| hypothetical protein HOLDEFILI_01116 [Holdemania filiformis DSM
           12042]
          Length = 1147

 Score = 47.8 bits (113), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 39/97 (40%), Gaps = 6/97 (6%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ IV+  HGVG    I  +E  G+  +F  + +  +   L VP+ +   +  RK
Sbjct: 477 QELQPGDFIVHSQHGVGQYLGIVTREFNGVHKDFLRVVYKGND-ELLVPLEQFRLV--RK 533

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
                 V   L  +      K     +R ++   +I 
Sbjct: 534 FVSREGVVPKLNKLGSHDWEKT---KQRLKDNVNEIA 567


>gi|317506800|ref|ZP_07964575.1| transcription-repair coupling factor [Segniliparus rugosus ATCC
           BAA-974]
 gi|316254911|gb|EFV14206.1| transcription-repair coupling factor [Segniliparus rugosus ATCC
           BAA-974]
          Length = 1155

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 5/60 (8%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
             +TG+ +V+  HGVG   E+ E+ VAG + E+ V+ +   K       L VP+     +
Sbjct: 527 ALKTGDFVVHDQHGVGRFVELVERTVAGARREYVVVEYASSKRGHPPDRLYVPMDALDQL 586


>gi|314969382|gb|EFT13480.1| transcription-repair coupling factor [Propionibacterium acnes
           HL037PA1]
          Length = 1208

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|313832012|gb|EFS69726.1| transcription-repair coupling factor [Propionibacterium acnes
           HL007PA1]
          Length = 1208

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|313772670|gb|EFS38636.1| transcription-repair coupling factor [Propionibacterium acnes
           HL074PA1]
 gi|313810893|gb|EFS48607.1| transcription-repair coupling factor [Propionibacterium acnes
           HL083PA1]
 gi|313834448|gb|EFS72162.1| transcription-repair coupling factor [Propionibacterium acnes
           HL056PA1]
 gi|314974450|gb|EFT18545.1| transcription-repair coupling factor [Propionibacterium acnes
           HL053PA1]
 gi|314977360|gb|EFT21455.1| transcription-repair coupling factor [Propionibacterium acnes
           HL045PA1]
 gi|314985541|gb|EFT29633.1| transcription-repair coupling factor [Propionibacterium acnes
           HL005PA1]
 gi|315097614|gb|EFT69590.1| transcription-repair coupling factor [Propionibacterium acnes
           HL038PA1]
 gi|327331627|gb|EGE73366.1| transcription-repair coupling factor [Propionibacterium acnes
           HL096PA2]
 gi|327446976|gb|EGE93630.1| transcription-repair coupling factor [Propionibacterium acnes
           HL043PA1]
 gi|327449987|gb|EGE96641.1| transcription-repair coupling factor [Propionibacterium acnes
           HL043PA2]
 gi|328761618|gb|EGF75134.1| transcription-repair coupling factor [Propionibacterium acnes
           HL099PA1]
          Length = 1208

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|184154691|ref|YP_001843031.1| transcription-repair coupling factor [Lactobacillus fermentum IFO
           3956]
 gi|183226035|dbj|BAG26551.1| transcription-repair coupling factor [Lactobacillus fermentum IFO
           3956]
          Length = 1180

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  EV G+  ++ V+ + +D   + VPV +   +
Sbjct: 497 KPGDYVVHVNHGIGLFAGIKTMEVDGVHQDYMVLDY-RDNAQIFVPVTQLNLV 548


>gi|50842025|ref|YP_055252.1| transcription-repair coupling factor [Propionibacterium acnes
           KPA171202]
 gi|50839627|gb|AAT82294.1| transcription-repair coupling factor [Propionibacterium acnes
           KPA171202]
          Length = 1222

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 538 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 595


>gi|85717289|ref|ZP_01048243.1| transcription-repair coupling factor [Nitrobacter sp. Nb-311A]
 gi|85695878|gb|EAQ33782.1| transcription-repair coupling factor [Nitrobacter sp. Nb-311A]
          Length = 1174

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 18/115 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    ++  EV G   +   + +  ++  L +PV     +  R  S+  
Sbjct: 505 GDLVVHVEHGIGRFVGLQTLEVGGAPHDCLELRYA-NETKLFLPVENIELLS-RYGSDHA 562

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
            VE  L  + G        W  R     AK+ S     I E+  +L R  ++   
Sbjct: 563 SVE--LDRLGGGG------WQAR----KAKLKS----RIREIAGELIRIAAERHL 601


>gi|313765341|gb|EFS36705.1| transcription-repair coupling factor [Propionibacterium acnes
           HL013PA1]
 gi|313806696|gb|EFS45203.1| transcription-repair coupling factor [Propionibacterium acnes
           HL087PA2]
 gi|313814596|gb|EFS52310.1| transcription-repair coupling factor [Propionibacterium acnes
           HL025PA1]
 gi|313815252|gb|EFS52966.1| transcription-repair coupling factor [Propionibacterium acnes
           HL059PA1]
 gi|313817239|gb|EFS54953.1| transcription-repair coupling factor [Propionibacterium acnes
           HL046PA2]
 gi|313821699|gb|EFS59413.1| transcription-repair coupling factor [Propionibacterium acnes
           HL036PA1]
 gi|313824410|gb|EFS62124.1| transcription-repair coupling factor [Propionibacterium acnes
           HL036PA2]
 gi|313826767|gb|EFS64481.1| transcription-repair coupling factor [Propionibacterium acnes
           HL063PA1]
 gi|313828557|gb|EFS66271.1| transcription-repair coupling factor [Propionibacterium acnes
           HL063PA2]
 gi|314916016|gb|EFS79847.1| transcription-repair coupling factor [Propionibacterium acnes
           HL005PA4]
 gi|314916921|gb|EFS80752.1| transcription-repair coupling factor [Propionibacterium acnes
           HL050PA1]
 gi|314921562|gb|EFS85393.1| transcription-repair coupling factor [Propionibacterium acnes
           HL050PA3]
 gi|314931114|gb|EFS94945.1| transcription-repair coupling factor [Propionibacterium acnes
           HL067PA1]
 gi|314954829|gb|EFS99235.1| transcription-repair coupling factor [Propionibacterium acnes
           HL027PA1]
 gi|314958995|gb|EFT03097.1| transcription-repair coupling factor [Propionibacterium acnes
           HL002PA1]
 gi|314961290|gb|EFT05391.1| transcription-repair coupling factor [Propionibacterium acnes
           HL002PA2]
 gi|314980484|gb|EFT24578.1| transcription-repair coupling factor [Propionibacterium acnes
           HL072PA2]
 gi|315086378|gb|EFT58354.1| transcription-repair coupling factor [Propionibacterium acnes
           HL002PA3]
 gi|315087626|gb|EFT59602.1| transcription-repair coupling factor [Propionibacterium acnes
           HL072PA1]
 gi|315099738|gb|EFT71714.1| transcription-repair coupling factor [Propionibacterium acnes
           HL059PA2]
 gi|315101957|gb|EFT73933.1| transcription-repair coupling factor [Propionibacterium acnes
           HL046PA1]
 gi|315106536|gb|EFT78512.1| transcription-repair coupling factor [Propionibacterium acnes
           HL030PA1]
 gi|315110324|gb|EFT82300.1| transcription-repair coupling factor [Propionibacterium acnes
           HL030PA2]
 gi|327333610|gb|EGE75330.1| transcription-repair coupling factor [Propionibacterium acnes
           HL096PA3]
 gi|327445362|gb|EGE92016.1| transcription-repair coupling factor [Propionibacterium acnes
           HL013PA2]
 gi|327454831|gb|EGF01486.1| transcription-repair coupling factor [Propionibacterium acnes
           HL087PA3]
 gi|327455689|gb|EGF02344.1| transcription-repair coupling factor [Propionibacterium acnes
           HL083PA2]
 gi|328755887|gb|EGF69503.1| transcription-repair coupling factor [Propionibacterium acnes
           HL087PA1]
 gi|328756670|gb|EGF70286.1| transcription-repair coupling factor [Propionibacterium acnes
           HL025PA2]
          Length = 1208

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|314926804|gb|EFS90635.1| transcription-repair coupling factor [Propionibacterium acnes
           HL036PA3]
          Length = 1208

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|317133014|ref|YP_004092328.1| transcription-repair coupling factor [Ethanoligenens harbinense
           YUAN-3]
 gi|315470993|gb|ADU27597.1| transcription-repair coupling factor [Ethanoligenens harbinense
           YUAN-3]
          Length = 1179

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+ AHG+G    I +  V G+  ++  I +      L VPV +   +
Sbjct: 493 PGDYVVHAAHGIGVYEGIHKLTVQGVVKDYIKIRYAGRD-TLYVPVTQLDLV 543


>gi|314987497|gb|EFT31588.1| transcription-repair coupling factor [Propionibacterium acnes
           HL005PA2]
 gi|314989037|gb|EFT33128.1| transcription-repair coupling factor [Propionibacterium acnes
           HL005PA3]
 gi|315082669|gb|EFT54645.1| transcription-repair coupling factor [Propionibacterium acnes
           HL027PA2]
 gi|328758609|gb|EGF72225.1| transcription-repair coupling factor [Propionibacterium acnes
           HL020PA1]
          Length = 1208

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 524 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 581


>gi|291278661|ref|YP_003495496.1| transcription-repair coupling factor [Deferribacter desulfuricans
           SSM1]
 gi|290753363|dbj|BAI79740.1| transcription-repair coupling factor [Deferribacter desulfuricans
           SSM1]
          Length = 1111

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 11/48 (22%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  +G+G    I+ +E+ G+K ++  + F+  +  L +P+   
Sbjct: 450 GDYVVHVDYGIGIYRGIENKEIGGIKGDYIKVEFENGE-NLYIPISNI 496


>gi|289428412|ref|ZP_06430098.1| transcription-repair coupling factor [Propionibacterium acnes J165]
 gi|289158384|gb|EFD06601.1| transcription-repair coupling factor [Propionibacterium acnes J165]
          Length = 1198

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 514 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 571


>gi|289424265|ref|ZP_06426048.1| transcription-repair coupling factor [Propionibacterium acnes
           SK187]
 gi|289154962|gb|EFD03644.1| transcription-repair coupling factor [Propionibacterium acnes
           SK187]
          Length = 1198

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 514 KPGDLIVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 571


>gi|86608683|ref|YP_477445.1| transcription-repair coupling factor [Synechococcus sp.
           JA-2-3B'a(2-13)]
 gi|86557225|gb|ABD02182.1| transcription-repair coupling factor [Synechococcus sp.
           JA-2-3B'a(2-13)]
          Length = 1158

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 23/56 (41%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                R       + G+ +V+ AHG+G    ++   + G   E+ VI +    + +
Sbjct: 472 RQASSRQVDPNLLKPGDFVVHKAHGIGQFLRLETLTIGGETREYLVIQYSDGLLRV 527


>gi|227894501|ref|ZP_04012306.1| transcriptional repair coupling factor [Lactobacillus ultunensis
           DSM 16047]
 gi|227863660|gb|EEJ71081.1| transcriptional repair coupling factor [Lactobacillus ultunensis
           DSM 16047]
          Length = 1164

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|256545180|ref|ZP_05472546.1| transcription-repair coupling factor - superfamily II helicase
           [Anaerococcus vaginalis ATCC 51170]
 gi|256399221|gb|EEU12832.1| transcription-repair coupling factor - superfamily II helicase
           [Anaerococcus vaginalis ATCC 51170]
          Length = 1164

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  +G+G    I + EV   K ++FVI +  +   + VPV +   +
Sbjct: 498 EIGDYVVHENNGIGIYKGISKIEVNNTKKDYFVIEYKGND-KVFVPVDQMGLV 549


>gi|256848382|ref|ZP_05553825.1| transcription-repair coupling factor [Lactobacillus coleohominis
           101-4-CHN]
 gi|256714980|gb|EEU29958.1| transcription-repair coupling factor [Lactobacillus coleohominis
           101-4-CHN]
          Length = 1179

 Score = 47.4 bits (112), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK   V G+  ++ VI + +D   + VPV +   +
Sbjct: 498 KPGDYVVHVNHGIGIFAGIKTMTVDGVHQDYIVIDY-RDHAQIFVPVTQLNLV 549


>gi|328463460|gb|EGF35111.1| transcription-repair coupling factor [Lactobacillus helveticus MTCC
           5463]
          Length = 1055

 Score = 47.4 bits (112), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|282852620|ref|ZP_06261962.1| transcription-repair coupling factor [Lactobacillus gasseri 224-1]
 gi|282556362|gb|EFB61982.1| transcription-repair coupling factor [Lactobacillus gasseri 224-1]
          Length = 935

 Score = 47.4 bits (112), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 53/123 (43%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHHD-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++    W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGKVPHI-------NKLGSAEWAK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|325955975|ref|YP_004286585.1| transcription-repair coupling factor [Lactobacillus acidophilus
           30SC]
 gi|325332540|gb|ADZ06448.1| transcription-repair coupling factor [Lactobacillus acidophilus
           30SC]
          Length = 1164

 Score = 47.4 bits (112), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|315037511|ref|YP_004031079.1| transcription-repair coupling factor [Lactobacillus amylovorus GRL
           1112]
 gi|312275644|gb|ADQ58284.1| transcription-repair coupling factor [Lactobacillus amylovorus GRL
           1112]
          Length = 1164

 Score = 47.4 bits (112), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|256389420|ref|YP_003110984.1| transcription-repair coupling factor [Catenulispora acidiphila DSM
           44928]
 gi|256355646|gb|ACU69143.1| transcription-repair coupling factor [Catenulispora acidiphila DSM
           44928]
          Length = 1182

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/108 (25%), Positives = 47/108 (43%), Gaps = 17/108 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG   E+ ++ VAG   E+ VI +            K    G R    
Sbjct: 507 KAGDPVVHEQHGVGRYVEMAQRTVAGATREYLVIEYA---------AAKRGQPGDRLFVP 557

Query: 75  AHFVERALKLVRGKA----RVKRTMW---SRRAQEYDAKINSGDLIAI 115
              +++  K V G+A    R+    W     RA++   +I  GDL+ +
Sbjct: 558 TDQLDQVTKYVGGEAPSLHRLGGADWQKAKSRARKAVKQIA-GDLVKL 604


>gi|327182807|gb|AEA31254.1| transcription-repair coupling factor [Lactobacillus amylovorus GRL
           1118]
          Length = 1164

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|323465804|gb|ADX69491.1| Transcriptional repair coupling factor [Lactobacillus helveticus
           H10]
          Length = 1165

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|299133932|ref|ZP_07027126.1| transcription-repair coupling factor [Afipia sp. 1NLS2]
 gi|298591768|gb|EFI51969.1| transcription-repair coupling factor [Afipia sp. 1NLS2]
          Length = 1172

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 12/103 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
           TG+ +V+  HG+G    ++  EV+G   +   + +  +   L +PV     +  R  SE 
Sbjct: 502 TGDLVVHVEHGIGRYIGLQTLEVSGAPHDCLELHYA-NNAKLYLPVENIELLS-RYGSEQ 559

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
             VE  L  + G        W  R  +   +I    GDLI +A
Sbjct: 560 GGVE--LDRLGGGG------WQARKAKLKNRIREIAGDLIKVA 594


>gi|161506855|ref|YP_001576809.1| transcriptional repair coupling factor [Lactobacillus helveticus
           DPC 4571]
 gi|160347844|gb|ABX26518.1| transcriptional repair coupling factor [Lactobacillus helveticus
           DPC 4571]
          Length = 1165

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|260102336|ref|ZP_05752573.1| transcription-repair coupling factor [Lactobacillus helveticus DSM
           20075]
 gi|260083845|gb|EEW67965.1| transcription-repair coupling factor [Lactobacillus helveticus DSM
           20075]
          Length = 1165

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I +      L VP  +   +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLENNGVKRDYITITYQHGD-QLFVPADQLSLV 543


>gi|149186684|ref|ZP_01864995.1| transcription-repair coupling factor [Erythrobacter sp. SD-21]
 gi|148829592|gb|EDL48032.1| transcription-repair coupling factor [Erythrobacter sp. SD-21]
          Length = 1163

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 25/110 (22%), Positives = 42/110 (38%), Gaps = 12/110 (10%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A  Q    G+ IV+  HG+G    ++   V   K +   + +      L +PV     + 
Sbjct: 479 AELQTLSVGDLIVHTEHGIGKYLGLEPVSVGKSKHDCVQLEYKGGD-KLFIPVENIDVLS 537

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
            R  S    V   L  + G+A      W +R      +I    G+L+ +A
Sbjct: 538 -RYGSSEEAV--MLDRLGGEA------WQKRRARLKERIREIAGELMQVA 578


>gi|237752073|ref|ZP_04582553.1| transcription-repair coupling factor [Helicobacter winghamensis
           ATCC BAA-430]
 gi|229376640|gb|EEO26731.1| transcription-repair coupling factor [Helicobacter winghamensis
           ATCC BAA-430]
          Length = 1011

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/85 (18%), Positives = 39/85 (45%), Gaps = 6/85 (7%)

Query: 4   QQKRDAMR---QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           QQKR  ++      + G+++V+  +G+   + I +  + G   +F  + +  +   L +P
Sbjct: 361 QQKRAKVKILLDELKVGDYVVHCDYGIAIFSGITQANIFGATRDFIALRYLGED-KLLLP 419

Query: 61  VGKAIDIGMRKLSEAHFVERALKLV 85
           V     I  R ++++  +   L  +
Sbjct: 420 VENLDRID-RYIADSGGIP-ILDKL 442


>gi|218290671|ref|ZP_03494762.1| transcription-repair coupling factor [Alicyclobacillus
           acidocaldarius LAA1]
 gi|218239336|gb|EED06534.1| transcription-repair coupling factor [Alicyclobacillus
           acidocaldarius LAA1]
          Length = 1183

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  EV G + ++  +++      L VPV +   I
Sbjct: 501 QELNVGDYVVHVNHGIGRYMGIKTLEVDGRRNDYLYLSYAGGDS-LYVPVDQIDQI 555


>gi|296169893|ref|ZP_06851505.1| transcription-repair coupling factor [Mycobacterium
           parascrofulaceum ATCC BAA-614]
 gi|295895449|gb|EFG75151.1| transcription-repair coupling factor [Mycobacterium
           parascrofulaceum ATCC BAA-614]
          Length = 1201

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++          G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K      
Sbjct: 487 LAAKRRNTVDPLALTAGDLVVHDQHGIGRFVEMTERTVGGARREYLVLEYASSKRGGGSD 546

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 547 KLYVPMDSLDQL 558


>gi|302530260|ref|ZP_07282602.1| transcription-repair coupling factor [Streptomyces sp. AA4]
 gi|302439155|gb|EFL10971.1| transcription-repair coupling factor [Streptomyces sp. AA4]
          Length = 1192

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 34/72 (47%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        + G+++V+  HG+G   E+ ++ VAG   E+ ++ +   K      
Sbjct: 493 MPSRRRGAVDPLALKAGDYVVHDQHGIGRFVEMVQRTVAGATREYLLLEYASSKRGQPGD 552

Query: 56  CLKVPVGKAIDI 67
            L VP  +  ++
Sbjct: 553 RLFVPTDQLDEV 564


>gi|329117227|ref|ZP_08245944.1| transcription-repair coupling factor [Streptococcus parauberis NCFD
           2020]
 gi|326907632|gb|EGE54546.1| transcription-repair coupling factor [Streptococcus parauberis NCFD
           2020]
          Length = 1167

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 11/52 (21%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  E+ G+  ++  I +      + +PV +   +
Sbjct: 490 IGDYVVHNVHGIGKFLGIETIEIHGVHRDYVTIQYQNSD-RISLPVEQIESL 540


>gi|322807864|emb|CBZ05439.1| transcription-repair coupling factor [Clostridium botulinum H04402
           065]
          Length = 1168

 Score = 47.4 bits (112), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 17/111 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +  R +  
Sbjct: 502 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMVQ-RYIGS 559

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
                +        +++  + W++       K+    +  IAE   DL + 
Sbjct: 560 EGKKPKV-------SKLGSSEWTK----TKNKVKK-SIEEIAE---DLVKL 595


>gi|258510200|ref|YP_003183634.1| transcription-repair coupling factor [Alicyclobacillus
           acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257476926|gb|ACV57245.1| transcription-repair coupling factor [Alicyclobacillus
           acidocaldarius subsp. acidocaldarius DSM 446]
          Length = 1183

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  EV G + ++  +++      L VPV +   I
Sbjct: 501 QELNVGDYVVHVNHGIGRYMGIKTLEVDGRRNDYLYLSYAGGDS-LYVPVDQIDQI 555


>gi|331701922|ref|YP_004398881.1| transcription-repair coupling factor [Lactobacillus buchneri NRRL
           B-30929]
 gi|329129265|gb|AEB73818.1| transcription-repair coupling factor [Lactobacillus buchneri NRRL
           B-30929]
          Length = 1178

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/120 (22%), Positives = 56/120 (46%), Gaps = 15/120 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    +K  EV G   ++  I++ KD   L +PV +   I  + +S 
Sbjct: 497 KPGDYVVHVNHGIGRYEGMKTMEVDGKHQDYLTISY-KDNAKLFIPVTQLNLIQ-KYVSS 554

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEKSY 133
                R         ++  + W++      AK+ S  +  IA+ + DL+ +  ++   +Y
Sbjct: 555 EDKHPRI-------NKLGGSEWAK----TKAKVAS-KIEDIADELIDLYAKRSAEKGYAY 602


>gi|41407085|ref|NP_959921.1| hypothetical protein MAP0987 [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|41395436|gb|AAS03304.1| Mfd [Mycobacterium avium subsp. paratuberculosis K-10]
          Length = 1221

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++          G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K      
Sbjct: 505 LAAKRRNTVDPLALTAGDLVVHDQHGIGRFVEMTERTVGGARREYLVLEYASSKRGGGSD 564

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 565 KLYVPMDSLDQL 576


>gi|328948120|ref|YP_004365457.1| transcription-repair coupling factor [Treponema succinifaciens DSM
           2489]
 gi|328448444|gb|AEB14160.1| transcription-repair coupling factor [Treponema succinifaciens DSM
           2489]
          Length = 1246

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 21/112 (18%), Positives = 46/112 (41%), Gaps = 14/112 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G++IV+  +G+G    I+  +  G + ++  + +  +++   VP+ +   +  R +   
Sbjct: 585 PGDYIVHVNYGIGLFKGIERVKAMGTERDYIKLEYADEEI-AFVPIEQVNMVQ-RYIGSE 642

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
           +   R         R+    WS R  +   K     +  IAE + DL+    
Sbjct: 643 NEKPRL-------DRIGSKNWSARKAKVQQK-----VEEIAEKLIDLYSKRQ 682


>gi|323706238|ref|ZP_08117805.1| transcription-repair coupling factor [Thermoanaerobacterium
           xylanolyticum LX-11]
 gi|323534402|gb|EGB24186.1| transcription-repair coupling factor [Thermoanaerobacterium
           xylanolyticum LX-11]
          Length = 1166

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G ++V+  +G+G    I++  V G+  ++  I +  D   L VPV +   +
Sbjct: 502 VGSYVVHVNYGIGKYEGIEKITVDGVTKDYLKIKYAGDD-KLFVPVEQLDLV 552


>gi|153940210|ref|YP_001392893.1| transcription-repair coupling factor [Clostridium botulinum F str.
           Langeland]
 gi|152936106|gb|ABS41604.1| transcription-repair coupling factor [Clostridium botulinum F str.
           Langeland]
 gi|295320870|gb|ADG01248.1| transcription-repair coupling factor [Clostridium botulinum F str.
           230613]
          Length = 1168

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 17/111 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +  R +  
Sbjct: 502 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMVQ-RYIGS 559

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
                +        +++  + W++       K+    +  IAE   DL + 
Sbjct: 560 EGKKPKV-------SKLGSSEWTK----TKNKVKK-SIEEIAE---DLVKL 595


>gi|300790028|ref|YP_003770319.1| transcription-repair coupling factor [Amycolatopsis mediterranei
           U32]
 gi|299799542|gb|ADJ49917.1| transcription-repair coupling factor [Amycolatopsis mediterranei
           U32]
          Length = 1184

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 35/72 (48%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        ++G+++V+  HG+G   E+ ++ VAG   E+ ++ +   K      
Sbjct: 485 MPSRRRNAVDPLALKSGDYVVHEQHGIGRFVEMVQRTVAGATREYLLLEYGSSKRGHPGD 544

Query: 56  CLKVPVGKAIDI 67
            L VP  +  ++
Sbjct: 545 RLFVPTDQLDEV 556


>gi|170756439|ref|YP_001783179.1| transcription-repair coupling factor [Clostridium botulinum B1 str.
           Okra]
 gi|169121651|gb|ACA45487.1| transcription-repair coupling factor [Clostridium botulinum B1 str.
           Okra]
          Length = 1168

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 17/111 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +  R +  
Sbjct: 502 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMVQ-RYIGS 559

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
                +        +++  + W++       K+    +  IAE   DL + 
Sbjct: 560 EGKKPKV-------SKLGSSEWTK----TKNKVKK-SIEEIAE---DLVKL 595


>gi|168181008|ref|ZP_02615672.1| transcription-repair coupling factor [Clostridium botulinum NCTC
           2916]
 gi|226950995|ref|YP_002806086.1| transcription-repair coupling factor [Clostridium botulinum A2 str.
           Kyoto]
 gi|182668078|gb|EDT80057.1| transcription-repair coupling factor [Clostridium botulinum NCTC
           2916]
 gi|226842319|gb|ACO84985.1| transcription-repair coupling factor [Clostridium botulinum A2 str.
           Kyoto]
          Length = 1168

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 17/111 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +  R +  
Sbjct: 502 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMVQ-RYIGS 559

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
                +        +++  + W++       K+    +  IAE   DL + 
Sbjct: 560 EGKKPKV-------SKLGSSEWTK----TKNKVKK-SIEEIAE---DLVKL 595


>gi|148381479|ref|YP_001256020.1| transcription-repair coupling factor [Clostridium botulinum A str.
           ATCC 3502]
 gi|153934098|ref|YP_001385854.1| transcription-repair coupling factor [Clostridium botulinum A str.
           ATCC 19397]
 gi|153937373|ref|YP_001389261.1| transcription-repair coupling factor [Clostridium botulinum A str.
           Hall]
 gi|148290963|emb|CAL85099.1| transcription-repair coupling factor [Clostridium botulinum A str.
           ATCC 3502]
 gi|152930142|gb|ABS35642.1| transcription-repair coupling factor [Clostridium botulinum A str.
           ATCC 19397]
 gi|152933287|gb|ABS38786.1| transcription-repair coupling factor [Clostridium botulinum A str.
           Hall]
          Length = 1168

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 17/111 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +  R +  
Sbjct: 502 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMVQ-RYIGS 559

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
                +        +++  + W++       K+    +  IAE   DL + 
Sbjct: 560 EGKKPKV-------SKLGSSEWTK----TKNKVKK-SIEEIAE---DLVKL 595


>gi|86606417|ref|YP_475180.1| transcription-repair coupling factor [Synechococcus sp. JA-3-3Ab]
 gi|86554959|gb|ABC99917.1| transcription-repair coupling factor [Synechococcus sp. JA-3-3Ab]
          Length = 1156

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 23/56 (41%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                R       + G+ +V+ AHG+G    ++   + G   E+ VI +    + +
Sbjct: 472 RQASSRQVDPNLLKPGDFVVHKAHGIGQFLRLESLTIGGETREYLVIQYSDGLLRV 527


>gi|297626903|ref|YP_003688666.1| Transcription-repair coupling factor [Propionibacterium
           freudenreichii subsp. shermanii CIRM-BIA1]
 gi|296922668|emb|CBL57245.1| Transcription-repair coupling factor [Propionibacterium
           freudenreichii subsp. shermanii CIRM-BIA1]
          Length = 1232

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++   +    + G+ +V+  HGVG   E+ ++ VAG   E+ VI +   K      
Sbjct: 509 MPTKRRNQVVPLELKPGDPLVHEQHGVGRFVEMTQRTVAGAIREYMVIEYAASKRGQPGD 568

Query: 56  CLKVPVGKAIDI 67
            L VP+ +   +
Sbjct: 569 RLYVPMDQLDQV 580


>gi|319940213|ref|ZP_08014566.1| transcription-repair coupling factor [Streptococcus anginosus
           1_2_62CV]
 gi|319810684|gb|EFW07014.1| transcription-repair coupling factor [Streptococcus anginosus
           1_2_62CV]
          Length = 1164

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 491 GDYVVHNVHGIGRYLGIETIEISGIHRDYLTIQYQNAD-RISIPVDQIQ 538


>gi|238853544|ref|ZP_04643916.1| transcription-repair coupling factor [Lactobacillus gasseri 202-4]
 gi|238833840|gb|EEQ26105.1| transcription-repair coupling factor [Lactobacillus gasseri 202-4]
          Length = 1165

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 53/123 (43%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHHD-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++    W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGKVPHI-------NKLGSAEWAK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|116628945|ref|YP_814117.1| transcription-repair coupling factor [Lactobacillus gasseri ATCC
           33323]
 gi|116094527|gb|ABJ59679.1| transcription-repair coupling factor [Lactobacillus gasseri ATCC
           33323]
          Length = 1165

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 53/123 (43%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHHD-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++    W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGKVPHI-------NKLGSAEWAK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|254994680|ref|ZP_05276870.1| transcription repair coupling factor (mfd) [Anaplasma marginale
           str. Mississippi]
          Length = 1099

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 57/160 (35%), Gaps = 23/160 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  +GVG    ++   V G   +F  I +  +     VPV          L   
Sbjct: 440 VGDVVVHKDYGVGIFNALRTLSVCGHLHDFVEILYRNND-KFFVPVEDI------DLITK 492

Query: 76  --HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  +        T W  R     AK+    +  IA+    L  +++    + 
Sbjct: 493 YGTNTDVVLDKL------GSTSWQER----SAKLKK-RIKDIAQ---TLLHSEAMRVLAE 538

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             + L         +E   V +  + +AI+ +E +L+S  
Sbjct: 539 GNKFLANQRYLDFCKEFPYVETEDQLKAISEVEEDLASGK 578


>gi|291303253|ref|YP_003514531.1| transcription-repair coupling factor [Stackebrandtia nassauensis
           DSM 44728]
 gi|290572473|gb|ADD45438.1| transcription-repair coupling factor [Stackebrandtia nassauensis
           DSM 44728]
          Length = 1351

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 30/72 (41%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  ++K          G+++V+  HGVG   E+  + V G + E+ VI +   K      
Sbjct: 658 MPSRRKGGVNPLELSNGDYVVHEQHGVGRYIELVRRTVNGAEREYLVIEYAASKRGQPAD 717

Query: 56  CLKVPVGKAIDI 67
            L VP      +
Sbjct: 718 RLFVPTDALDQL 729


>gi|255002792|ref|ZP_05277756.1| transcription repair coupling factor (mfd) [Anaplasma marginale
           str. Puerto Rico]
          Length = 1152

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 57/160 (35%), Gaps = 23/160 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  +GVG    ++   V G   +F  I +  +     VPV          L   
Sbjct: 493 VGDVVVHKDYGVGIFNALRTLSVCGHLHDFVEILYRNND-KFFVPVEDI------DLITK 545

Query: 76  --HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  +        T W  R     AK+    +  IA+    L  +++    + 
Sbjct: 546 YGTNTDVVLDKL------GSTSWQER----SAKLKK-RIKDIAQ---TLLHSEAMRVLAE 591

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             + L         +E   V +  + +AI+ +E +L+S  
Sbjct: 592 GNKFLANQRYLDFCKEFPYVETEDQLKAISEVEEDLASGK 631


>gi|269959135|ref|YP_003328924.1| transcription repair coupling factor [Anaplasma centrale str.
           Israel]
 gi|269848966|gb|ACZ49610.1| transcription repair coupling factor [Anaplasma centrale str.
           Israel]
          Length = 1122

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 57/160 (35%), Gaps = 23/160 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  +GVG    ++   V G   +F  I +  +     VPV          L   
Sbjct: 463 VGDVVVHKDYGVGIFNALRTLSVCGHLHDFVEILYRNND-KFFVPVEDI------DLITK 515

Query: 76  --HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  +        T W  R     AK+    +  IA+    L  +++    + 
Sbjct: 516 YGTNTDVVLDKL------GSTSWQER----SAKLKK-RIKDIAQ---TLLHSEAMRVLAE 561

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             + L         +E   V +  + +AI+ +E +L+S  
Sbjct: 562 GNKFLANQRYLDFCKEFPYVETEDQLKAISEVEEDLASGK 601


>gi|158321662|ref|YP_001514169.1| transcription-repair coupling factor [Alkaliphilus oremlandii
           OhILAs]
 gi|158141861|gb|ABW20173.1| transcription-repair coupling factor [Alkaliphilus oremlandii
           OhILAs]
          Length = 1174

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+E +V G+K ++  I +  +   L VP  +   I
Sbjct: 503 KVGDYVVHEGHGIGKYIGIEELKVEGVKKDYLKIRYSGEGF-LYVPTDQMDLI 554


>gi|150388007|ref|YP_001318056.1| transcription-repair coupling factor [Alkaliphilus metalliredigens
           QYMF]
 gi|149947869|gb|ABR46397.1| transcription-repair coupling factor [Alkaliphilus metalliredigens
           QYMF]
          Length = 1174

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+H+V+  HG+G    I+E  V G+K ++  I +  +   L VP  +   I
Sbjct: 503 QVGDHVVHEGHGIGKYIGIEELSVEGIKKDYIKIRYSGEDH-LYVPTDQMNLI 554


>gi|309799277|ref|ZP_07693525.1| transcription-repair coupling factor [Streptococcus infantis
           SK1302]
 gi|308117122|gb|EFO54550.1| transcription-repair coupling factor [Streptococcus infantis
           SK1302]
          Length = 570

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +   +
Sbjct: 492 QKGDYVVHQIHGIGQYLGIETIEIKGIHRDYVSVLYQNGD-RISIPVEQIQTL 543


>gi|256852011|ref|ZP_05557398.1| transcription-repair coupling factor [Lactobacillus jensenii
           27-2-CHN]
 gi|260661420|ref|ZP_05862333.1| transcription-repair coupling factor [Lactobacillus jensenii
           115-3-CHN]
 gi|282933683|ref|ZP_06339041.1| transcription-repair coupling factor [Lactobacillus jensenii 208-1]
 gi|256615423|gb|EEU20613.1| transcription-repair coupling factor [Lactobacillus jensenii
           27-2-CHN]
 gi|260547875|gb|EEX23852.1| transcription-repair coupling factor [Lactobacillus jensenii
           115-3-CHN]
 gi|281302173|gb|EFA94417.1| transcription-repair coupling factor [Lactobacillus jensenii 208-1]
          Length = 1162

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP  +   +
Sbjct: 491 KPGDYVVHVNHGIGRFEGIKTLDVDGQKRDYITITYQGHD-QLFVPADQLSLV 542


>gi|297205117|ref|ZP_06922513.1| transcription-repair coupling factor [Lactobacillus jensenii
           JV-V16]
 gi|297149695|gb|EFH29992.1| transcription-repair coupling factor [Lactobacillus jensenii
           JV-V16]
          Length = 1162

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP  +   +
Sbjct: 491 KPGDYVVHVNHGIGRFEGIKTLDVDGQKRDYITITYQGHD-QLFVPADQLSLV 542


>gi|225867624|ref|YP_002743572.1| transcription-repair coupling factor [Streptococcus equi subsp.
           zooepidemicus]
 gi|225700900|emb|CAW97563.1| putative transcription-repair coupling factor [Streptococcus equi
           subsp. zooepidemicus]
          Length = 1164

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+   + G+  ++  I + +    + +PV +   +
Sbjct: 491 GDYVVHSVHGIGRFLGIETINIQGVHRDYVTIQYQQSD-RISLPVDQLESL 540


>gi|222474820|ref|YP_002563235.1| transcription repair coupling factor (mfd) [Anaplasma marginale
           str. Florida]
 gi|222418956|gb|ACM48979.1| transcription repair coupling factor (mfd) [Anaplasma marginale
           str. Florida]
          Length = 1152

 Score = 47.1 bits (111), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 57/160 (35%), Gaps = 23/160 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  +GVG    ++   V G   +F  I +  +     VPV          L   
Sbjct: 493 VGDVVVHKDYGVGIFNALRTLSVCGHLHDFVEILYRNND-KFFVPVEDI------DLITK 545

Query: 76  --HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  +        T W  R     AK+    +  IA+    L  +++    + 
Sbjct: 546 YGTNTDVVLDKL------GSTSWQER----SAKLKK-RIKDIAQ---TLLHSEAMRVLAE 591

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             + L         +E   V +  + +AI+ +E +L+S  
Sbjct: 592 GNKFLANQRYLDFCKEFPYVETEDQLKAISEVEEDLASGK 631


>gi|209885332|ref|YP_002289189.1| transcription-repair coupling factor [Oligotropha carboxidovorans
           OM5]
 gi|209873528|gb|ACI93324.1| transcription-repair coupling factor [Oligotropha carboxidovorans
           OM5]
          Length = 1171

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 12/103 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
           TG+ +V+  HG+G    ++  EV+G   +   + +  +   L +PV     +  R  +E 
Sbjct: 501 TGDLVVHVEHGIGRYIGLQTLEVSGAPHDCLELHYA-NNAKLYLPVENIELLS-RYGAEG 558

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
             VE  L  + G        W  R  +   +I    GDLI IA
Sbjct: 559 AGVE--LDRLGGGG------WQARKAKLKNRIREIAGDLIKIA 593


>gi|314929229|gb|EFS93060.1| transcription-repair coupling factor [Propionibacterium acnes
           HL044PA1]
          Length = 1194

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           ++G+ +V+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 514 KSGDFVVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 571


>gi|227888873|ref|ZP_04006678.1| transcription-repair coupling factor [Lactobacillus johnsonii ATCC
           33200]
 gi|227850566|gb|EEJ60652.1| transcription-repair coupling factor [Lactobacillus johnsonii ATCC
           33200]
          Length = 1165

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 54/123 (43%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHHD-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++  + W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGRVPHI-------NKLGSSEWTK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|104773517|ref|YP_618497.1| transcription-repair coupling factor [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC 11842]
 gi|103422598|emb|CAI97201.1| Transcription-repair coupling factor [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC 11842]
          Length = 1158

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I+  E  G K ++  I + K    L VP  +   +
Sbjct: 486 KPGDYVVHVNHGIGRFEGIQTLETDGKKRDYITITYQKGD-QLFVPDDQLSLV 537


>gi|83588954|ref|YP_428963.1| transcription-repair coupling factor [Moorella thermoacetica ATCC
           39073]
 gi|83571868|gb|ABC18420.1| transcription-repair coupling factor [Moorella thermoacetica ATCC
           39073]
          Length = 1183

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    +++ +V G+K ++ +I +      L VPV +   +
Sbjct: 505 KEGDYVVHVHHGIGRYLGLQQLDVGGVKKDYLLIQYAGKD-RLYVPVDQVSLV 556


>gi|313835372|gb|EFS73086.1| transcription-repair coupling factor [Propionibacterium acnes
           HL037PA2]
 gi|314972378|gb|EFT16475.1| transcription-repair coupling factor [Propionibacterium acnes
           HL037PA3]
 gi|328908370|gb|EGG28129.1| transcription-repair coupling factor [Propionibacterium sp. P08]
          Length = 1194

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           ++G+ +V+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 514 KSGDFVVHEQHGVGRYVEMVQRTVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 571


>gi|227903169|ref|ZP_04020974.1| transcriptional repair coupling factor [Lactobacillus acidophilus
           ATCC 4796]
 gi|227868974|gb|EEJ76395.1| transcriptional repair coupling factor [Lactobacillus acidophilus
           ATCC 4796]
          Length = 1165

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I + +    L VP  +   +
Sbjct: 492 KPGDYVVHINHGIGRFEGIKTLENNGVKRDYITITYQRGD-QLFVPADQLSLV 543


>gi|225869494|ref|YP_002745441.1| transcription-repair coupling factor [Streptococcus equi subsp.
           equi 4047]
 gi|225698898|emb|CAW91884.1| putative transcription-repair coupling factor [Streptococcus equi
           subsp. equi 4047]
          Length = 1164

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+   + G+  ++  I + +    + +PV +   +
Sbjct: 491 GDYVVHSVHGIGRFLGIETINIQGVHRDYVTIQYQQSD-RISLPVDQLESL 540


>gi|58336612|ref|YP_193197.1| transcriptional repair coupling factor [Lactobacillus acidophilus
           NCFM]
 gi|58253929|gb|AAV42166.1| transcriptional repair coupling factor [Lactobacillus acidophilus
           NCFM]
          Length = 1165

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  E  G+K ++  I + +    L VP  +   +
Sbjct: 492 KPGDYVVHINHGIGRFEGIKTLENNGVKRDYITITYQRGD-QLFVPADQLSLV 543


>gi|257457388|ref|ZP_05622559.1| transcription-repair coupling factor [Treponema vincentii ATCC
           35580]
 gi|257445310|gb|EEV20382.1| transcription-repair coupling factor [Treponema vincentii ATCC
           35580]
          Length = 1154

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 21/112 (18%), Positives = 49/112 (43%), Gaps = 14/112 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  +G+G    I+  +  G + ++  + + +D+  + +P+ +A  +  R +  
Sbjct: 492 NPGDYVVHVNYGIGQFKGIERVKTLGHERDYINLLYAQDE-TVFIPIEQANLVQ-RYIGN 549

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTD 126
                R L ++  KA      W  R      K+    +  IA+ + DL+   
Sbjct: 550 EGEAPR-LDIIGSKA------WENR----KNKVKK-SVEDIADKLIDLYSRR 589


>gi|296272208|ref|YP_003654839.1| transcription-repair coupling factor [Arcobacter nitrofigilis DSM
           7299]
 gi|296096383|gb|ADG92333.1| transcription-repair coupling factor [Arcobacter nitrofigilis DSM
           7299]
          Length = 989

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             + +V+  HG+G    I+   V G K +F ++A+  +   L +PV     I  R +++
Sbjct: 358 VNDFVVHEQHGIGQYKGIEPVVVMGAKRDFVIVAYANED-KLLIPVENIDLID-RYVAD 414


>gi|255003926|ref|ZP_05278727.1| transcription repair coupling factor (mfd) [Anaplasma marginale
           str. Virginia]
          Length = 1148

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 57/160 (35%), Gaps = 23/160 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  +GVG    ++   V G   +F  I +  +     VPV          L   
Sbjct: 489 VGDVVVHKDYGVGIFNALRTLSVCGHLHDFVEILYRNND-KFFVPVEDI------DLITK 541

Query: 76  --HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  +        T W  R     AK+    +  IA+    L  +++    + 
Sbjct: 542 YGTNTDVVLDKL------GSTSWQER----SAKLKK-RIKDIAQ---TLLHSEAMRVLAE 587

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             + L         +E   V +  + +AI+ +E +L+S  
Sbjct: 588 GNKFLANQRYLDFCKEFPYVETEDQLKAISEVEEDLASGK 627


>gi|300362407|ref|ZP_07058583.1| transcription-repair coupling factor [Lactobacillus gasseri JV-V03]
 gi|300353398|gb|EFJ69270.1| transcription-repair coupling factor [Lactobacillus gasseri JV-V03]
          Length = 1171

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 53/123 (43%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHHD-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++    W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGKVPHI-------NKLGSAEWAK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|170759697|ref|YP_001788879.1| transcription-repair coupling factor [Clostridium botulinum A3 str.
           Loch Maree]
 gi|169406686|gb|ACA55097.1| transcription-repair coupling factor [Clostridium botulinum A3 str.
           Loch Maree]
          Length = 1168

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +
Sbjct: 502 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMV 553


>gi|154253521|ref|YP_001414345.1| transcription-repair coupling factor [Parvibaculum lavamentivorans
           DS-1]
 gi|154157471|gb|ABS64688.1| transcription-repair coupling factor [Parvibaculum lavamentivorans
           DS-1]
          Length = 1171

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 25/116 (21%), Positives = 44/116 (37%), Gaps = 13/116 (11%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
                   G+ +V+  HG+G    ++  EV G   +  ++ +      L +PV     + 
Sbjct: 493 TEASSLSPGDLVVHVDHGIGRFERLQTIEVMGAPHDCLLLIYHGGD-KLYLPVENIELLS 551

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIAEVVRDL 122
            R    +  ++  L  + G      T W  R      +I    G+LI IA   R+L
Sbjct: 552 -RY--GSDDLDAQLDRLGG------TGWQARKARLKERIREMAGELIKIAA-AREL 597


>gi|332685798|ref|YP_004455572.1| transcription-repair coupling factor [Melissococcus plutonius ATCC
           35311]
 gi|332369807|dbj|BAK20763.1| transcription-repair coupling factor [Melissococcus plutonius ATCC
           35311]
          Length = 1181

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 498 KVGDYVVHANHGIGKYIGMETLEVDGIHQDYITILYQNDD-KLFIPVTQLNLI 549


>gi|56416451|ref|YP_153525.1| transcription repair coupling factor [Anaplasma marginale str. St.
           Maries]
 gi|56387683|gb|AAV86270.1| transcription repair coupling factor [Anaplasma marginale str. St.
           Maries]
          Length = 1152

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/160 (18%), Positives = 57/160 (35%), Gaps = 23/160 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  +GVG    ++   V G   +F  I +  +     VPV          L   
Sbjct: 493 VGDVVVHKDYGVGIFNALRTLSVCGHLHDFVEILYRNND-KFFVPVEDI------DLITK 545

Query: 76  --HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
                +  L  +        T W  R     AK+    +  IA+    L  +++    + 
Sbjct: 546 YGTNTDVVLDKL------GSTSWQER----SAKLKK-RIKDIAQ---TLLHSEAMRVLAE 591

Query: 134 SERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
             + L         +E   V +  + +AI+ +E +L+S  
Sbjct: 592 GNKFLANQRYLDFCKEFPYVETEDQLKAISEVEEDLASGK 631


>gi|42518364|ref|NP_964294.1| transcription-repair coupling factor [Lactobacillus johnsonii NCC
           533]
 gi|41582649|gb|AAS08260.1| transcription-repair coupling factor [Lactobacillus johnsonii NCC
           533]
          Length = 1165

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 54/123 (43%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHHD-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++  + W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGRVPHI-------NKLGSSEWTK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|332638696|ref|ZP_08417559.1| transcription-repair coupling factor [Weissella cibaria KACC 11862]
          Length = 1172

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HGVG    ++  E  G+K ++  IA+ +    + +PV +   +
Sbjct: 497 KPGDYVVHINHGVGVYEGMQTIENRGVKQDYITIAY-QQDAKIFIPVTQLDLV 548


>gi|268318833|ref|YP_003292489.1| Transcription-repair-coupling factor [Lactobacillus johnsonii
           FI9785]
 gi|262397208|emb|CAX66222.1| Transcription-repair-coupling factor [Lactobacillus johnsonii
           FI9785]
          Length = 1165

 Score = 46.7 bits (110), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/123 (19%), Positives = 54/123 (43%), Gaps = 19/123 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM--RKL 72
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP   A  +G+  + +
Sbjct: 492 KPGDYVVHVNHGIGRFEGIKTLDVDGKKRDYITITYQHHD-QLFVP---ADQLGLVQKYV 547

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEK 131
           +    V           ++  + W++       K     +  IA+ + +L+ + +S+   
Sbjct: 548 ASEGRVPHI-------NKLGSSEWTK-----TKKRVQSKVEDIADDLIELYAKRESEKGF 595

Query: 132 SYS 134
           ++S
Sbjct: 596 AFS 598


>gi|77411312|ref|ZP_00787661.1| reticulocyte binding protein [Streptococcus agalactiae CJB111]
 gi|77162648|gb|EAO73610.1| reticulocyte binding protein [Streptococcus agalactiae CJB111]
          Length = 1165

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+++V+  HGVG     +  E+ G+  ++  I +      + +PV +  
Sbjct: 489 SVGDYVVHNVHGVGKFLGXETIEIQGIHRDYLTIQYQNAD-RISIPVEQIE 538


>gi|308179637|ref|YP_003923765.1| transcription-repair coupling factor [Lactobacillus plantarum
           subsp. plantarum ST-III]
 gi|308045128|gb|ADN97671.1| transcription-repair coupling factor [Lactobacillus plantarum
           subsp. plantarum ST-III]
          Length = 1175

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  IA+ ++   + +PV +   +
Sbjct: 497 KPGDYVVHVNHGIGKYVGMETLEVDGVHQDYITIAY-QNNAKIFIPVTQLNLV 548


>gi|220930375|ref|YP_002507284.1| hypothetical protein Ccel_3010 [Clostridium cellulolyticum H10]
 gi|220000703|gb|ACL77304.1| hypothetical protein Ccel_3010 [Clostridium cellulolyticum H10]
          Length = 162

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 60/158 (37%), Gaps = 9/158 (5%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            F TGE+++    GV  + +I E +        + +   +    + VP  ++ +I +R +
Sbjct: 1   MFNTGEYVICSQGGVWKVMDIVEDK--------YHLQKHESGDRIIVPTTESGEI-VRGI 51

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
           S    +   +  V     +K      R + Y+  +   D +   ++++  +         
Sbjct: 52  SSKEKILDVINRVDFITTIKAPNDKIRKELYEDALKEFDEVGWIKIIKSSYLRKQDGRLM 111

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
             E +  E A + +  EI+ V  I   +    I   +S
Sbjct: 112 QGETEYAEMAKSYLHGEISVVMGIPVNKVEGYISTAVS 149


>gi|103487138|ref|YP_616699.1| transcription-repair coupling factor [Sphingopyxis alaskensis
           RB2256]
 gi|98977215|gb|ABF53366.1| transcription-repair coupling factor [Sphingopyxis alaskensis
           RB2256]
          Length = 1194

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 30/142 (21%), Positives = 48/142 (33%), Gaps = 25/142 (17%)

Query: 1   MTFQQKRDAMRQGF-------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +  +QKR      F         G+ +V+  HG+G    +    V     +   + +   
Sbjct: 503 LVRRQKRRKSADAFLAELATLSVGDLVVHLDHGIGRYEGLTSIPVGNSPHDCVALTYAGG 562

Query: 54  KMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLI 113
              L VPV     +  R   E+  V  AL  + G+A      W RR      +I      
Sbjct: 563 D-KLYVPVENLDVLS-RYGGESDGV--ALDKLGGEA------WQRRKARMKERIR----- 607

Query: 114 AIAEVVRDLHRTDSQPEKSYSE 135
              E+  +L  T +Q      E
Sbjct: 608 ---EIAGELLATAAQRALRPGE 626


>gi|260664822|ref|ZP_05865673.1| transcription-repair coupling factor [Lactobacillus jensenii
           SJ-7A-US]
 gi|260561305|gb|EEX27278.1| transcription-repair coupling factor [Lactobacillus jensenii
           SJ-7A-US]
          Length = 1161

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP  +   +
Sbjct: 490 KPGDYVVHVNHGIGRFEGIKTLDVDGQKRDYITITYQGHD-QLFVPADQLSLV 541


>gi|238855038|ref|ZP_04645366.1| transcription-repair coupling factor [Lactobacillus jensenii 269-3]
 gi|282934824|ref|ZP_06340058.1| transcription-repair coupling factor [Lactobacillus jensenii 208-1]
 gi|238832282|gb|EEQ24591.1| transcription-repair coupling factor [Lactobacillus jensenii 269-3]
 gi|281301096|gb|EFA93406.1| transcription-repair coupling factor [Lactobacillus jensenii 208-1]
          Length = 1161

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK  +V G K ++  I +      L VP  +   +
Sbjct: 490 KPGDYVVHVNHGIGRFEGIKTLDVDGQKRDYITITYQGHD-QLFVPADQLSLV 541


>gi|300768957|ref|ZP_07078848.1| transcription-repair coupling factor [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
 gi|300493478|gb|EFK28655.1| transcription-repair coupling factor [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
          Length = 1175

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  IA+ ++   + +PV +   +
Sbjct: 497 KPGDYVVHVNHGIGKYVGMETLEVDGVHQDYITIAY-QNNAKIFIPVTQLNLV 548


>gi|171778202|ref|ZP_02919431.1| hypothetical protein STRINF_00270 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|171283026|gb|EDT48450.1| hypothetical protein STRINF_00270 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
          Length = 1169

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +    + +PV +   +
Sbjct: 495 GDYVVHHVHGIGQFLGIETIEIHGVHRDYLTIQY-QGSSTISLPVEQIESL 544


>gi|168183619|ref|ZP_02618283.1| transcription-repair coupling factor [Clostridium botulinum Bf]
 gi|237797000|ref|YP_002864552.1| transcription-repair coupling factor [Clostridium botulinum Ba4
           str. 657]
 gi|182673263|gb|EDT85224.1| transcription-repair coupling factor [Clostridium botulinum Bf]
 gi|229263299|gb|ACQ54332.1| transcription-repair coupling factor [Clostridium botulinum Ba4
           str. 657]
          Length = 1168

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +
Sbjct: 502 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMV 553


>gi|310639514|ref|YP_003944272.1| transcription-repair coupling factor [Paenibacillus polymyxa SC2]
 gi|309244464|gb|ADO54031.1| transcription-repair coupling factor [Paenibacillus polymyxa SC2]
          Length = 1175

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 15/81 (18%)

Query: 1   MTFQQKRDAMRQG--------------FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF 46
           M  Q++R A +QG               + G+++V+  HG+G    I   EV G+  ++ 
Sbjct: 462 MFSQKQRKARKQGRHVDNAERIKSYSELKVGDYVVHQNHGIGKYMGIGTLEVGGIHKDYM 521

Query: 47  VIAFDKDKMCLKVPVGKAIDI 67
            I +      L VP+ +   I
Sbjct: 522 HILYAGGD-KLSVPIEQIDLI 541


>gi|254555607|ref|YP_003062024.1| transcription-repair coupling factor [Lactobacillus plantarum JDM1]
 gi|254044534|gb|ACT61327.1| transcription-repair coupling factor [Lactobacillus plantarum JDM1]
          Length = 1175

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  IA+ ++   + +PV +   +
Sbjct: 497 KPGDYVVHVNHGIGKYVGMETLEVDGVHQDYITIAY-QNNAKIFIPVTQLNLV 548


>gi|110634054|ref|YP_674262.1| transcription-repair coupling factor [Mesorhizobium sp. BNC1]
 gi|110285038|gb|ABG63097.1| transcription-repair coupling factor [Chelativorans sp. BNC1]
          Length = 1167

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 30/135 (22%), Positives = 48/135 (35%), Gaps = 25/135 (18%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           +       G+ +V+  HG+G    +K  E AG   E   I +  D   L +PV     + 
Sbjct: 492 SEASALSAGDIVVHADHGIGRFVGLKTIEAAGAPHECLEIHYAGDD-RLFLPVENIELLS 550

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R    +   E  L  + G A      W  R     AK+       + E+   L +    
Sbjct: 551 -RY--GSDSAEATLDKLGGGA------WQSR----KAKLK----KRLLEMAGQLIKL--- 590

Query: 129 PEKSYSERQLYESAL 143
                +ERQ+  +A 
Sbjct: 591 ----AAERQMRPAAK 601


>gi|225181416|ref|ZP_03734859.1| transcription-repair coupling factor [Dethiobacter alkaliphilus AHT
           1]
 gi|225167814|gb|EEG76622.1| transcription-repair coupling factor [Dethiobacter alkaliphilus AHT
           1]
          Length = 1177

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 37/87 (42%), Gaps = 9/87 (10%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    ++  +V G + ++  I +  +   L +P+ +   +  RK
Sbjct: 502 QELQVGDFVVHEQHGIGQYLGLRTLDVGGTQRDYLYIQYSGND-KLYIPIEQIDVV--RK 558

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSR 98
                  +  +  + G        WSR
Sbjct: 559 YIGVEGKKPKMSALGGGE------WSR 579


>gi|187777479|ref|ZP_02993952.1| hypothetical protein CLOSPO_01047 [Clostridium sporogenes ATCC
           15579]
 gi|187774407|gb|EDU38209.1| hypothetical protein CLOSPO_01047 [Clostridium sporogenes ATCC
           15579]
          Length = 1172

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    IK+ E+ G K ++  + +  D   L VPV +   +
Sbjct: 506 KPGDFVVHANHGIGVFKGIKQLELQGNKKDYLELIYHSDD-KLYVPVEQLDMV 557


>gi|28377424|ref|NP_784316.1| transcription-repair coupling factor [Lactobacillus plantarum
           WCFS1]
 gi|28270256|emb|CAD63157.1| transcription-repair coupling factor [Lactobacillus plantarum
           WCFS1]
          Length = 1175

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  IA+ ++   + +PV +   +
Sbjct: 497 KPGDYVVHVNHGIGKYVGMETLEVDGVHQDYITIAY-QNNAKIFIPVTQLNLV 548


>gi|322388485|ref|ZP_08062088.1| transcription-repair coupling factor [Streptococcus infantis ATCC
           700779]
 gi|321140798|gb|EFX36300.1| transcription-repair coupling factor [Streptococcus infantis ATCC
           700779]
          Length = 1167

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 25/126 (19%), Positives = 52/126 (41%), Gaps = 24/126 (19%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    I+  E+ G+  ++  I +      + +PV +   +  + +S 
Sbjct: 492 QKGDYVVHQIHGIGQYLGIETIELKGIHRDYVSIQYQNGD-RISIPVEQIQTLS-KYVSS 549

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                +  KL  G           R ++   K+ +  +  IA+   DL +        Y+
Sbjct: 550 DGKAPKLNKLNDG-----------RFKKAKQKVKN-QVEDIAD---DLIKL-------YA 587

Query: 135 ERQLYE 140
           ER   E
Sbjct: 588 ERSQLE 593


>gi|217076282|ref|YP_002333998.1| transcription-repair coupling factor [Thermosipho africanus TCF52B]
 gi|217036135|gb|ACJ74657.1| transcription-repair coupling factor [Thermosipho africanus TCF52B]
          Length = 909

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 20/117 (17%), Positives = 48/117 (41%), Gaps = 19/117 (16%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+ +V+  +G+       +     ++ EF ++ F  +   L VP  +   +  +K  
Sbjct: 269 FNIGDIVVHKEYGIAKFVGTTKITQKDLEREFLILQF--NDSKLFVPTDRLDLV--QKYI 324

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
             +     L  ++      +  WS+R +    K  S     I ++V+++ R ++  +
Sbjct: 325 GTNE-NVTLDNLK------KNNWSKRVK----KAKS----QIEKIVKEILRINALRK 366


>gi|315222838|ref|ZP_07864723.1| transcription-repair coupling factor [Streptococcus anginosus
           F0211]
 gi|315188074|gb|EFU21804.1| transcription-repair coupling factor [Streptococcus anginosus
           F0211]
          Length = 1168

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 49/123 (39%), Gaps = 24/123 (19%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +   +  + ++   
Sbjct: 495 GDYVVHNVHGIGRYLGIETIEISGIHRDYLTIQYQNAD-RISIPVDQIHLLS-KYVASDG 552

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
              +  KL  G+ +       +R Q             IAE   DL +        YSER
Sbjct: 553 KAPKINKLNDGRFQKT----KQRVQHQVE--------DIAE---DLIKL-------YSER 590

Query: 137 QLY 139
              
Sbjct: 591 SQL 593


>gi|313889521|ref|ZP_07823167.1| transcription-repair coupling factor [Streptococcus pseudoporcinus
           SPIN 20026]
 gi|313122133|gb|EFR45226.1| transcription-repair coupling factor [Streptococcus pseudoporcinus
           SPIN 20026]
          Length = 1166

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/115 (19%), Positives = 47/115 (40%), Gaps = 17/115 (14%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  ++ G+  ++  I +      + +PV +     + K   A 
Sbjct: 491 GDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPVEQIES--LSKYVSAD 547

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
             E  +  +             R Q+   K+ S  +  IA+   DL R  ++  +
Sbjct: 548 GKEPKINKLNDG----------RFQKTKQKV-SKQVEDIAD---DLLRLYAERSQ 588


>gi|116328533|ref|YP_798253.1| transcription-repair coupling factor [Leptospira borgpetersenii
           serovar Hardjo-bovis L550]
 gi|116331261|ref|YP_800979.1| transcription-repair coupling factor [Leptospira borgpetersenii
           serovar Hardjo-bovis JB197]
 gi|116121277|gb|ABJ79320.1| Transcription-repair coupling factor [Leptospira borgpetersenii
           serovar Hardjo-bovis L550]
 gi|116124950|gb|ABJ76221.1| Transcription-repair coupling factor [Leptospira borgpetersenii
           serovar Hardjo-bovis JB197]
          Length = 1176

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 4/69 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
            F+++     Q F   + G+ +V+  HGVG   +I+     G + +F  + +      L 
Sbjct: 495 RFKKQNSKALQSFIDLKEGDPVVHIHHGVGRFLKIERTNAGGKERDFLKLEYAGGDS-LF 553

Query: 59  VPVGKAIDI 67
           VP+ +   I
Sbjct: 554 VPLDQISLI 562


>gi|297566385|ref|YP_003685357.1| transcription factor CarD [Meiothermus silvanus DSM 9946]
 gi|296850834|gb|ADH63849.1| transcription factor CarD [Meiothermus silvanus DSM 9946]
          Length = 988

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/58 (18%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
                      G+++++P HG+G    ++ +E+ G+K ++ ++ +   +  L +PV +
Sbjct: 323 GETGDPSALAPGDYLIHPEHGIGQFVGLEPREILGVKRDYLILQYA-GEARLYLPVEQ 379


>gi|306828591|ref|ZP_07461785.1| transcription-repair coupling factor [Streptococcus mitis ATCC
           6249]
 gi|304429199|gb|EFM32285.1| transcription-repair coupling factor [Streptococcus mitis ATCC
           6249]
          Length = 1167

 Score = 46.7 bits (110), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQIQ 539


>gi|146319860|ref|YP_001199571.1| transcription-repair coupling factor [Streptococcus suis 98HAH33]
 gi|145690666|gb|ABP91171.1| Transcription-repair coupling factor (superfamily II helicase)
           [Streptococcus suis 98HAH33]
          Length = 845

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 26/51 (50%), Gaps = 3/51 (5%)

Query: 16  TGEHIVYPA-HGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+++V P  HG+G    I+  E++G+  ++  + +      + +PV +  
Sbjct: 172 VGDYVV-PHVHGIGQYLGIETIEISGIHRDYLTVQYQNSD-RISIPVEQID 220


>gi|262281636|ref|ZP_06059405.1| transcription-repair coupling factor [Streptococcus sp. 2_1_36FAA]
 gi|262262090|gb|EEY80787.1| transcription-repair coupling factor [Streptococcus sp. 2_1_36FAA]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGIHRDYVTIQYQNAD-RVSIPVDQIQ 542


>gi|322375221|ref|ZP_08049735.1| transcription-repair coupling factor [Streptococcus sp. C300]
 gi|321280721|gb|EFX57760.1| transcription-repair coupling factor [Streptococcus sp. C300]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQIQ 539


>gi|293364521|ref|ZP_06611246.1| transcription-repair coupling factor [Streptococcus oralis ATCC
           35037]
 gi|291317029|gb|EFE57457.1| transcription-repair coupling factor [Streptococcus oralis ATCC
           35037]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQIQ 539


>gi|304315715|ref|YP_003850860.1| transcription-repair coupling factor [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
 gi|302777217|gb|ADL67776.1| transcription-repair coupling factor [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
          Length = 1166

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G ++V+  +G+G    I++    G+  ++  I +  D   L +PV +   I
Sbjct: 502 VGSYVVHVNYGIGKYEGIEKITFDGVTKDYLKIKYAGDD-KLFIPVDQLDLI 552


>gi|209964568|ref|YP_002297483.1| transcription-repair coupling factor [Rhodospirillum centenum SW]
 gi|209958034|gb|ACI98670.1| transcription-repair coupling factor [Rhodospirillum centenum SW]
          Length = 1209

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           A   G   G+ +V+  HG+G    ++  +V G   +   + ++     L VPV    
Sbjct: 492 AEASGLNPGDLVVHIDHGIGRYDGLETLDVGGAPHDCLRLVYEGGD-KLYVPVENIE 547


>gi|307702811|ref|ZP_07639761.1| transcription-repair coupling factor [Streptococcus oralis ATCC
           35037]
 gi|307623667|gb|EFO02654.1| transcription-repair coupling factor [Streptococcus oralis ATCC
           35037]
          Length = 1166

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 491 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQIQ 538


>gi|306826192|ref|ZP_07459527.1| transcription-repair coupling factor [Streptococcus sp. oral taxon
           071 str. 73H25AP]
 gi|304431668|gb|EFM34649.1| transcription-repair coupling factor [Streptococcus sp. oral taxon
           071 str. 73H25AP]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQIQ 539


>gi|157150453|ref|YP_001451365.1| transcription-repair coupling factor [Streptococcus gordonii str.
           Challis substr. CH1]
 gi|157075247|gb|ABV09930.1| transcription-repair coupling factor [Streptococcus gordonii str.
           Challis substr. CH1]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEISGIHRDYVTIQYQNAD-RVSIPVDQIQ 542


>gi|282882197|ref|ZP_06290836.1| transcription-repair coupling factor [Peptoniphilus lacrimalis
           315-B]
 gi|281297962|gb|EFA90419.1| transcription-repair coupling factor [Peptoniphilus lacrimalis
           315-B]
          Length = 1157

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+ +HG+G     ++ EV+G+K ++ VI +  D   L +P+     I
Sbjct: 496 VGDYVVHESHGIGKYIGTEQLEVSGIKRDYVVIKYFGDD-KLFLPIESLDLI 546


>gi|270291823|ref|ZP_06198038.1| transcription-repair coupling factor [Streptococcus sp. M143]
 gi|270279351|gb|EFA25193.1| transcription-repair coupling factor [Streptococcus sp. M143]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQIQ 539


>gi|302023115|ref|ZP_07248326.1| transcription-repair coupling factor [Streptococcus suis 05HAS68]
 gi|330831857|ref|YP_004400682.1| transcription-repair coupling factor [Streptococcus suis ST3]
 gi|329306080|gb|AEB80496.1| transcription-repair coupling factor [Streptococcus suis ST3]
          Length = 1164

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+++V+  HG+G    I+  E++G+  ++  + +      + +PV +  
Sbjct: 491 VGDYVVHHVHGIGQYLGIETIEISGIHRDYLTVQYQNFD-RISIPVEQID 539


>gi|288904230|ref|YP_003429451.1| transcription repair coupling factor [Streptococcus gallolyticus
           UCN34]
 gi|325977207|ref|YP_004286923.1| transcription-repair coupling factor [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
 gi|288730955|emb|CBI12499.1| Transcription repair coupling factor [Streptococcus gallolyticus
           UCN34]
 gi|325177135|emb|CBZ47179.1| transcription-repair coupling factor [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
          Length = 1166

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +    + +PV +   +
Sbjct: 492 GDYVVHHVHGIGKFLGIETIEIHGVHRDYLTIQY-QGSSTISLPVEQIESL 541


>gi|306832490|ref|ZP_07465642.1| transcription-repair coupling factor [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
 gi|304425390|gb|EFM28510.1| transcription-repair coupling factor [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
          Length = 1170

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +    + +PV +   +
Sbjct: 496 GDYVVHHVHGIGKFLGIETIEIHGVHRDYLTIQY-QGSSTISLPVEQIESL 545


>gi|188589474|ref|YP_001919598.1| transcription-repair coupling factor [Clostridium botulinum E3 str.
           Alaska E43]
 gi|188499755|gb|ACD52891.1| transcription-repair coupling factor [Clostridium botulinum E3 str.
           Alaska E43]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ +V+G K ++  I +DK    L VPV +   I
Sbjct: 504 KPGDYVVHVNHGIGVYKGIKQIDVSGHKRDYLDIVYDKGD-KLYVPVEQLDLI 555


>gi|223933455|ref|ZP_03625440.1| transcription-repair coupling factor [Streptococcus suis 89/1591]
 gi|223897893|gb|EEF64269.1| transcription-repair coupling factor [Streptococcus suis 89/1591]
          Length = 1164

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+++V+  HG+G    I+  E++G+  ++  + +      + +PV +  
Sbjct: 491 VGDYVVHHVHGIGQYLGIETIEISGIHRDYLTVQYQNFD-RISIPVEQID 539


>gi|292669445|ref|ZP_06602871.1| transcription-repair-coupling factor [Selenomonas noxia ATCC 43541]
 gi|292648898|gb|EFF66870.1| transcription-repair-coupling factor [Selenomonas noxia ATCC 43541]
          Length = 1097

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
            G+++V+ +HG+G    ++  EVAG+  ++  I +  D   L VP  + 
Sbjct: 430 PGDYVVHVSHGIGKYIGVETLEVAGVHRDYLHIQYGGDD-KLFVPTDQV 477


>gi|187932793|ref|YP_001884406.1| transcription-repair coupling factor [Clostridium botulinum B str.
           Eklund 17B]
 gi|187720946|gb|ACD22167.1| transcription-repair coupling factor [Clostridium botulinum B str.
           Eklund 17B]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ +V+G K ++  I +DK    L VPV +   I
Sbjct: 504 KPGDYVVHVNHGIGVYKGIKQIDVSGHKRDYLDIVYDKGD-KLYVPVEQLDLI 555


>gi|302335359|ref|YP_003800566.1| hypothetical protein Olsu_0571 [Olsenella uli DSM 7084]
 gi|301319199|gb|ADK67686.1| conserved hypothetical protein [Olsenella uli DSM 7084]
          Length = 165

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/163 (19%), Positives = 61/163 (37%), Gaps = 20/163 (12%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK---MCLKVPVGKAIDIGM 69
            +  G++IV+P  GV  + EI    V     + +++         M +  PV  A +  +
Sbjct: 1   MYEVGQYIVHPGQGVCKVEEIVSDPV-----QVYML-MPVGGRHPMRISFPV--ASEGRL 52

Query: 70  RKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQE-YDAKINSG---DLIAIAEVVR---D 121
           R +       + +      A        S   +E Y  ++  G   D + IA+  R   D
Sbjct: 53  RPVLSRSEARQLIGEYDEMALEDFSCNSSALEEEHYKNEMRRGTCRDSVRIAKTFRKRID 112

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINL 164
             R  ++      ER + + A  R + E+A    ++  +   +
Sbjct: 113 DVRACNKKPPVVYER-ILKQARERSLAELAVALDVTPDDVSVM 154


>gi|306834606|ref|ZP_07467718.1| transcription-repair coupling factor [Streptococcus bovis ATCC
           700338]
 gi|304423242|gb|EFM26396.1| transcription-repair coupling factor [Streptococcus bovis ATCC
           700338]
          Length = 1169

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  E+ G+  ++  I + +    + +PV +   +
Sbjct: 495 GDYVVHHVHGIGKFLGIETIEIHGVHRDYLTIQY-QGSSTISLPVEQIESL 544


>gi|24378538|ref|NP_720493.1| putative transcription-repair coupling factor [Streptococcus mutans
           UA159]
 gi|24376386|gb|AAN57799.1|AE014853_6 putative transcription-repair coupling factor [Streptococcus mutans
           UA159]
          Length = 1162

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  EV+G+  ++  I +      + +P+ +  
Sbjct: 491 GDYVVHNVHGIGRFLGIETIEVSGVHRDYLTIQYQNAD-RISIPIEQIE 538


>gi|289166915|ref|YP_003445182.1| transcription-repair coupling factor [Streptococcus mitis B6]
 gi|288906480|emb|CBJ21310.1| transcription-repair coupling factor [Streptococcus mitis B6]
          Length = 1169

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQSGD-KISIPVEQI 538


>gi|290579532|ref|YP_003483924.1| putative transcription-repair coupling factor [Streptococcus mutans
           NN2025]
 gi|254996431|dbj|BAH87032.1| putative transcription-repair coupling factor [Streptococcus mutans
           NN2025]
          Length = 1162

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  EV+G+  ++  I +      + +P+ +  
Sbjct: 491 GDYVVHNVHGIGRFLGIETIEVSGVHRDYLTIQYQNAD-RISIPIEQIE 538


>gi|253576880|ref|ZP_04854205.1| transcription-repair coupling factor [Paenibacillus sp. oral taxon
           786 str. D14]
 gi|251843747|gb|EES71770.1| transcription-repair coupling factor [Paenibacillus sp. oral taxon
           786 str. D14]
          Length = 1177

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I   EV G+  ++  I +      L VP+ +   I
Sbjct: 493 KVGDYVVHQNHGIGKYMGIGTLEVGGIHKDYMHILYAGGD-KLSVPIEQIDMI 544


>gi|302876604|ref|YP_003845237.1| transcription-repair coupling factor [Clostridium cellulovorans
           743B]
 gi|307687278|ref|ZP_07629724.1| transcription-repair coupling factor [Clostridium cellulovorans
           743B]
 gi|302579461|gb|ADL53473.1| transcription-repair coupling factor [Clostridium cellulovorans
           743B]
          Length = 1173

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ EV  +K ++ ++++      L VPV +   I
Sbjct: 506 KPGDYVVHANHGIGVYKGIKQLEVENVKKDYLMVSYSDGD-TLYVPVEQLDLI 557


>gi|168487226|ref|ZP_02711734.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC1087-00]
 gi|183569911|gb|EDT90439.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC1087-00]
          Length = 953

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|157736671|ref|YP_001489354.1| transcription-repair coupling factor [Arcobacter butzleri RM4018]
 gi|157698525|gb|ABV66685.1| transcription-repair coupling factor [Arcobacter butzleri RM4018]
          Length = 995

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 37/83 (44%), Gaps = 9/83 (10%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
            + +V+  +G+G    I+   V G K +F +I +  +   L VPV     I  R +++ +
Sbjct: 365 NDFVVHEKYGIGQYKGIEPVTVMGAKRDFVIIQYQGED-KLLVPVENLDLID-RYVADGN 422

Query: 77  ---FVERA----LKLVRGKARVK 92
               V++        ++ K + K
Sbjct: 423 SYAVVDKLGKGSFAKLKEKVKDK 445


>gi|251779351|ref|ZP_04822271.1| transcription-repair coupling factor [Clostridium botulinum E1 str.
           'BoNT E Beluga']
 gi|243083666|gb|EES49556.1| transcription-repair coupling factor [Clostridium botulinum E1 str.
           'BoNT E Beluga']
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    IK+ +V+G K ++  I +DK    L VPV +   I
Sbjct: 504 KPGDYVVHINHGIGVYKGIKQIDVSGHKRDYLDIVYDKGD-KLYVPVEQLDLI 555


>gi|222152208|ref|YP_002561383.1| transcription-repair coupling factor [Streptococcus uberis 0140J]
 gi|222113019|emb|CAR40328.1| putative transcription-repair coupling factor [Streptococcus uberis
           0140J]
          Length = 1166

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/119 (18%), Positives = 47/119 (39%), Gaps = 15/119 (12%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  ++ G+  ++  I +      + +PV +     + K   A 
Sbjct: 491 GDYVVHNVHGIGKFLGIETIQIHGIHRDYVTIQYQNSD-TISLPVEQIES--LSKYVSAD 547

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEKSYS 134
             E  +  +             R Q+   K+    +  IA+ +  L+     Q   S+S
Sbjct: 548 GKEPKINKLNDG----------RFQKTKQKVAK-QVEDIADDLLKLYAERSQQKGFSFS 595


>gi|307711221|ref|ZP_07647643.1| transcription-repair coupling factor [Streptococcus mitis SK321]
 gi|307617183|gb|EFN96361.1| transcription-repair coupling factor [Streptococcus mitis SK321]
          Length = 1167

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|323126266|gb|ADX23563.1| Transcription-repair coupling factor [Streptococcus dysgalactiae
           subsp. equisimilis ATCC 12394]
          Length = 1166

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 47/120 (39%), Gaps = 15/120 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +     + K   A
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGS--LSKYVSA 546

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA-EVVRDLHRTDSQPEKSYS 134
              E  +  +             R Q+   K+    +  IA E+++       Q   S+S
Sbjct: 547 DGKEPKINKLNDG----------RFQKTKQKVAR-QVEDIADELLKLYAERSQQKGFSFS 595


>gi|150021721|ref|YP_001307075.1| DEAD/DEAH box helicase domain-containing protein [Thermosipho
           melanesiensis BI429]
 gi|149794242|gb|ABR31690.1| DEAD/DEAH box helicase domain protein [Thermosipho melanesiensis
           BI429]
          Length = 901

 Score = 46.3 bits (109), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 52/120 (43%), Gaps = 19/120 (15%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           ++ F+ G+++V+  +G+   + I +     ++ EF ++ F      L VP  +   +  +
Sbjct: 263 QEDFQIGDYVVHKEYGIAKFSGITKITQKNLEREFLILQF--KDSKLFVPTDRLDLVQ-K 319

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            +  +  V+  L  +R      ++ W R  +   AK        I   V++L R ++  +
Sbjct: 320 YIGASETVK--LDNLR------KSNWIR--KVNKAK------KEIQNTVKELLRLNALRK 363


>gi|304437107|ref|ZP_07397070.1| transcription-repair coupling factor [Selenomonas sp. oral taxon
           149 str. 67H29BP]
 gi|304370058|gb|EFM23720.1| transcription-repair coupling factor [Selenomonas sp. oral taxon
           149 str. 67H29BP]
          Length = 1097

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+++V+ +HG+G    ++  EVAG+  ++  I +  D   L VP  +  
Sbjct: 430 PGDYVVHISHGIGKYLGVETIEVAGVHRDYLHIQYGGDD-KLFVPTDQVS 478


>gi|195977163|ref|YP_002122407.1| transcription-repair coupling factor [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
 gi|195973868|gb|ACG61394.1| transcription-repair coupling factor [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
          Length = 1164

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+   + G+  ++  I + +    + +PV +   +
Sbjct: 491 GDYVVHSVHGIGRFLGIETINIQGIHRDYVTIQYQQSD-RISLPVEQLESL 540


>gi|315644370|ref|ZP_07897510.1| transcription-repair coupling factor [Paenibacillus vortex V453]
 gi|315280247|gb|EFU43539.1| transcription-repair coupling factor [Paenibacillus vortex V453]
          Length = 1175

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I   E+ G+  ++  I +      L VP+ +   I
Sbjct: 490 KVGDYVVHQNHGIGKYMGIGTLEINGIHKDYMHILYAGGD-KLSVPIEQIDLI 541


>gi|315635838|ref|ZP_07891100.1| transcription-repair coupling factor [Arcobacter butzleri JV22]
 gi|315479817|gb|EFU70488.1| transcription-repair coupling factor [Arcobacter butzleri JV22]
          Length = 995

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 9/83 (10%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA- 75
            + +V+  +G+G    I+   V G K +F +I +  +   L VPV     I  R +++  
Sbjct: 365 NDFVVHEKYGIGQYKGIEPVTVMGAKRDFVIIQYQGED-KLLVPVENLDLID-RYVADGS 422

Query: 76  --HFVERA----LKLVRGKARVK 92
               V++        ++ K + K
Sbjct: 423 SYAVVDKLGKGSFAKLKEKVKDK 445


>gi|291296005|ref|YP_003507403.1| transcription factor CarD [Meiothermus ruber DSM 1279]
 gi|290470964|gb|ADD28383.1| transcription factor CarD [Meiothermus ruber DSM 1279]
          Length = 987

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 11/48 (22%), Positives = 29/48 (60%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+++++P HG+G    ++ +EV G + ++ V+ +   +  + +PV +
Sbjct: 332 VGDYLIHPEHGIGQYLGLETREVLGAQRDYLVLRYA-GEARMYLPVEQ 378


>gi|258513568|ref|YP_003189790.1| transcription-repair coupling factor [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257777273|gb|ACV61167.1| transcription-repair coupling factor [Desulfotomaculum acetoxidans
           DSM 771]
          Length = 1197

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    + +  +  +K ++ ++ +  +   L +P  +   I
Sbjct: 532 KTGDYVVHVNHGIGRYDGVVQLTIGDVKRDYLLVKYAGED-KLYIPTDQVEMI 583


>gi|212696152|ref|ZP_03304280.1| hypothetical protein ANHYDRO_00688 [Anaerococcus hydrogenalis DSM
           7454]
 gi|212676781|gb|EEB36388.1| hypothetical protein ANHYDRO_00688 [Anaerococcus hydrogenalis DSM
           7454]
          Length = 1163

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
              +++V+  +G+G    I + EV   K ++FVI +  +   + VPV +   +
Sbjct: 498 EIDDYVVHENNGIGIYKGISQIEVNNTKKDYFVIEYQGND-KVFVPVDQMDLV 549


>gi|94984652|ref|YP_604016.1| transcription factor CarD [Deinococcus geothermalis DSM 11300]
 gi|94554933|gb|ABF44847.1| transcription factor CarD [Deinococcus geothermalis DSM 11300]
          Length = 1041

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 40/94 (42%), Gaps = 10/94 (10%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           G   G+++++P HG+G    ++ + V G+  ++  + + +    L VP+ +     +R+ 
Sbjct: 365 GLHVGDYLIHPEHGIGQFQGLETRTVLGVTRDYLNLEY-RGGARLAVPIEQLPV--LRRH 421

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
                    L          +  W+ RA+E   K
Sbjct: 422 PGTTDDPPVLSSF------DKKDWA-RAKEKARK 448


>gi|329925538|ref|ZP_08280412.1| transcription-repair coupling factor [Paenibacillus sp. HGF5]
 gi|328939821|gb|EGG36161.1| transcription-repair coupling factor [Paenibacillus sp. HGF5]
          Length = 1175

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I   E+ G+  ++  I +      L VP+ +   I
Sbjct: 490 KVGDYVVHQNHGIGKYMGIGTLEINGIHKDYMHILYAGGD-KLSVPIEQIDLI 541


>gi|307707904|ref|ZP_07644379.1| transcription-repair coupling factor [Streptococcus mitis NCTC
           12261]
 gi|307615969|gb|EFN95167.1| transcription-repair coupling factor [Streptococcus mitis NCTC
           12261]
          Length = 1167

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|302390888|ref|YP_003826708.1| transcription-repair coupling factor [Acetohalobium arabaticum DSM
           5501]
 gi|302202965|gb|ADL11643.1| transcription-repair coupling factor [Acetohalobium arabaticum DSM
           5501]
          Length = 1175

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    +K  EV G   ++ +I +  +   L VP  +   I
Sbjct: 507 NVGDYVVHENHGIGKYLGVKTLEVQGHNQDYLLIKYADED-KLYVPTDQVNLI 558


>gi|238927163|ref|ZP_04658923.1| transcription-repair coupling factor [Selenomonas flueggei ATCC
           43531]
 gi|238884945|gb|EEQ48583.1| transcription-repair coupling factor [Selenomonas flueggei ATCC
           43531]
          Length = 1097

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
            G+++V+ +HG+G    ++  EVAG+  ++  I +  D   L VP  + 
Sbjct: 430 PGDYVVHVSHGIGKYLGVETIEVAGVHRDYLHIQYGGDD-KLFVPTDQV 477


>gi|330836643|ref|YP_004411284.1| transcription-repair coupling factor [Spirochaeta coccoides DSM
           17374]
 gi|329748546|gb|AEC01902.1| transcription-repair coupling factor [Spirochaeta coccoides DSM
           17374]
          Length = 1092

 Score = 45.9 bits (108), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 45/93 (48%), Gaps = 6/93 (6%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  +GVG   +I    V+G + ++  I +  D+  L VP+ +A  I  R +  A 
Sbjct: 432 GDYVVHANYGVGQFIKIDRVGVSGRERDYIKIRYASDE-NLYVPIEQANLIQ-RYIGSAG 489

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINS 109
               AL  + G+    +     RA++   ++ +
Sbjct: 490 GSP-ALDHLGGQGWEHK---KARARKSAEQLAT 518


>gi|261403915|ref|YP_003240156.1| transcription-repair coupling factor [Paenibacillus sp. Y412MC10]
 gi|261280378|gb|ACX62349.1| transcription-repair coupling factor [Paenibacillus sp. Y412MC10]
          Length = 1175

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I   E+ G+  ++  I +      L VP+ +   I
Sbjct: 490 KVGDYVVHQNHGIGKYMGIGTLEINGIHKDYMHILYAGGD-KLSVPIEQIDLI 541


>gi|332199073|gb|EGJ13154.1| transcription-repair coupling factor [Streptococcus pneumoniae
           GA47901]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|221230954|ref|YP_002510106.1| transcription-repair coupling factor [Streptococcus pneumoniae ATCC
           700669]
 gi|225853617|ref|YP_002735129.1| transcription-repair coupling factor [Streptococcus pneumoniae JJA]
 gi|220673414|emb|CAR67872.1| putative putative transcription-repair coupling factor
           [Streptococcus pneumoniae ATCC 700669]
 gi|225722629|gb|ACO18482.1| transcription-repair coupling factor [Streptococcus pneumoniae JJA]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|301793331|emb|CBW35690.1| putative putative transcription-repair coupling factor
           [Streptococcus pneumoniae INV104]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|168493994|ref|ZP_02718137.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC3059-06]
 gi|183575852|gb|EDT96380.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC3059-06]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|168484302|ref|ZP_02709254.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC1873-00]
 gi|172042444|gb|EDT50490.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC1873-00]
 gi|332198870|gb|EGJ12952.1| transcription-repair coupling factor [Streptococcus pneumoniae
           GA47368]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|332198663|gb|EGJ12746.1| transcription-repair coupling factor [Streptococcus pneumoniae
           GA41317]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|322377900|ref|ZP_08052388.1| transcription-repair coupling factor [Streptococcus sp. M334]
 gi|321281076|gb|EFX58088.1| transcription-repair coupling factor [Streptococcus sp. M334]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|307705912|ref|ZP_07642750.1| transcription-repair coupling factor [Streptococcus mitis SK597]
 gi|307620573|gb|EFN99671.1| transcription-repair coupling factor [Streptococcus mitis SK597]
          Length = 1168

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 491 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 537


>gi|149020164|ref|ZP_01835138.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP23-BS72]
 gi|147930842|gb|EDK81823.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP23-BS72]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|148988910|ref|ZP_01820325.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP6-BS73]
 gi|147925721|gb|EDK76797.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP6-BS73]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|148984550|ref|ZP_01817838.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP3-BS71]
 gi|147923327|gb|EDK74441.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP3-BS71]
 gi|301799155|emb|CBW31667.1| putative putative transcription-repair coupling factor
           [Streptococcus pneumoniae OXC141]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|149003146|ref|ZP_01828055.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP14-BS69]
 gi|237651085|ref|ZP_04525337.1| transcription-repair coupling factor [Streptococcus pneumoniae CCRI
           1974]
 gi|237821198|ref|ZP_04597043.1| transcription-repair coupling factor [Streptococcus pneumoniae CCRI
           1974M2]
 gi|147758887|gb|EDK65883.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP14-BS69]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|15899955|ref|NP_344559.1| transcription-repair coupling factor [Streptococcus pneumoniae
           TIGR4]
 gi|111658624|ref|ZP_01409274.1| hypothetical protein SpneT_02000214 [Streptococcus pneumoniae
           TIGR4]
 gi|14971470|gb|AAK74199.1| transcription-repair coupling factor [Streptococcus pneumoniae
           TIGR4]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|308066876|ref|YP_003868481.1| transcription-repair coupling factor (TRCF) [Paenibacillus polymyxa
           E681]
 gi|305856155|gb|ADM67943.1| Transcription-repair coupling factor (TRCF) [Paenibacillus polymyxa
           E681]
          Length = 1175

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 15/81 (18%)

Query: 1   MTFQQKRDAMRQG--------------FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF 46
           M  Q++R A +QG               + G+++V+  HG+G    I   EV G+  ++ 
Sbjct: 462 MFSQKQRKARKQGRHVDNAERIKSYSELKVGDYVVHQNHGIGKYMGIGTLEVGGIHKDYM 521

Query: 47  VIAFDKDKMCLKVPVGKAIDI 67
            + +      L VP+ +   I
Sbjct: 522 HVLYAGGD-KLSVPIEQIDLI 541


>gi|319934923|ref|ZP_08009368.1| transcription-repair coupling factor [Coprobacillus sp. 29_1]
 gi|319810300|gb|EFW06662.1| transcription-repair coupling factor [Coprobacillus sp. 29_1]
          Length = 1141

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 3/63 (4%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  HG+G    IK  E  G K ++  IA+  +   L +PV     +  RK + 
Sbjct: 477 NIGDYVVHDTHGIGQYMGIKTLETKGAKKDYLYIAYKGND-TLYIPVENFKLV--RKYAS 533

Query: 75  AHF 77
              
Sbjct: 534 RDG 536


>gi|300857300|ref|YP_003782284.1| putative transcription-repair coupling factor [Clostridium
           ljungdahlii DSM 13528]
 gi|300437415|gb|ADK17182.1| predicted transcription-repair coupling factor [Clostridium
           ljungdahlii DSM 13528]
          Length = 1173

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    IK+ EV G K ++  + +D +   L VPV +   +
Sbjct: 505 KPGDFVVHVNHGIGIYKGIKQLEVQGHKKDYLELIYDSED-KLYVPVEQLDMV 556


>gi|225855741|ref|YP_002737252.1| transcription-repair coupling factor [Streptococcus pneumoniae
           P1031]
 gi|225724744|gb|ACO20596.1| transcription-repair coupling factor [Streptococcus pneumoniae
           P1031]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|225857815|ref|YP_002739325.1| transcription-repair coupling factor [Streptococcus pneumoniae
           70585]
 gi|225720446|gb|ACO16300.1| transcription-repair coupling factor [Streptococcus pneumoniae
           70585]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|149013378|ref|ZP_01834087.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP19-BS75]
 gi|182682976|ref|YP_001834723.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CGSP14]
 gi|303254907|ref|ZP_07340992.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS455]
 gi|303259732|ref|ZP_07345708.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP-BS293]
 gi|303262199|ref|ZP_07348144.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP14-BS292]
 gi|303265395|ref|ZP_07351302.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS397]
 gi|303266057|ref|ZP_07351951.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS457]
 gi|303268465|ref|ZP_07354259.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS458]
 gi|147762901|gb|EDK69849.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP19-BS75]
 gi|182628310|gb|ACB89258.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CGSP14]
 gi|301800979|emb|CBW33640.1| putative putative transcription-repair coupling factor
           [Streptococcus pneumoniae INV200]
 gi|302598178|gb|EFL65239.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS455]
 gi|302636839|gb|EFL67329.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP14-BS292]
 gi|302639284|gb|EFL69743.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP-BS293]
 gi|302641966|gb|EFL72319.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS458]
 gi|302644361|gb|EFL74614.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS457]
 gi|302645072|gb|EFL75312.1| transcription-repair coupling factor [Streptococcus pneumoniae
           BS397]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|307710364|ref|ZP_07646805.1| transcription-repair coupling factor [Streptococcus mitis SK564]
 gi|307618956|gb|EFN98091.1| transcription-repair coupling factor [Streptococcus mitis SK564]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|194397105|ref|YP_002036727.1| transcription-repair coupling factor [Streptococcus pneumoniae G54]
 gi|194356772|gb|ACF55220.1| transcription-repair coupling factor [Streptococcus pneumoniae G54]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|149007710|ref|ZP_01831319.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP18-BS74]
 gi|307126180|ref|YP_003878211.1| transcription-repair coupling factor [Streptococcus pneumoniae
           670-6B]
 gi|147760705|gb|EDK67677.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP18-BS74]
 gi|306483242|gb|ADM90111.1| transcription-repair coupling factor [Streptococcus pneumoniae
           670-6B]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|332077813|gb|EGI88272.1| transcription-repair coupling factor [Streptococcus pneumoniae
           GA41301]
          Length = 1171

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|332071328|gb|EGI81823.1| transcription-repair coupling factor [Streptococcus pneumoniae
           GA17545]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|296283911|ref|ZP_06861909.1| transcription-repair coupling factor [Citromicrobium bathyomarinum
           JL354]
          Length = 1163

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 46/123 (37%), Gaps = 18/123 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           +  Q    G+ +V+  HG+G    ++   V   K +  ++ +      L +PV     + 
Sbjct: 479 SELQALSRGDLVVHTEHGIGKYLGLEPVTVGKSKHDCVMLQYKGGD-KLYIPVENLEVLS 537

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R  S    V   L  + G+A      W +R  +   +I         E+  +L RT +Q
Sbjct: 538 -RYGSSEDAV--MLDRLGGEA------WQKRRAQLRERIR--------EIASELMRTAAQ 580

Query: 129 PEK 131
              
Sbjct: 581 RAL 583


>gi|225860052|ref|YP_002741561.1| transcription-repair coupling factor [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|298229483|ref|ZP_06963164.1| transcription-repair coupling factor [Streptococcus pneumoniae str.
           Canada MDR_19F]
 gi|298255135|ref|ZP_06978721.1| transcription-repair coupling factor [Streptococcus pneumoniae str.
           Canada MDR_19A]
 gi|298501796|ref|YP_003723736.1| transcription-repair coupling factor [Streptococcus pneumoniae
           TCH8431/19A]
 gi|225727732|gb|ACO23583.1| transcription-repair coupling factor [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|298237391|gb|ADI68522.1| transcription-repair coupling factor [Streptococcus pneumoniae
           TCH8431/19A]
 gi|327388991|gb|EGE87339.1| transcription-repair coupling factor [Streptococcus pneumoniae
           GA04375]
          Length = 1169

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|148993579|ref|ZP_01823050.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP9-BS68]
 gi|168489341|ref|ZP_02713540.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP195]
 gi|147927800|gb|EDK78822.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP9-BS68]
 gi|183572243|gb|EDT92771.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP195]
 gi|332071709|gb|EGI82202.1| transcription-repair coupling factor [Streptococcus pneumoniae
           GA17570]
          Length = 1174

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKGIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|91200730|emb|CAJ73782.1| similar to transcription-repair coupling factor [Candidatus
           Kuenenia stuttgartiensis]
          Length = 1092

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G++IV+  HG+G    I+  E  G K E+ V+ +D+    + VP  K   +
Sbjct: 429 KKGDYIVHVTHGIGRFLGIEIIEDDGCKREYLVLEYDEGT-KIYVPATKIELV 480


>gi|296393668|ref|YP_003658552.1| transcription-repair coupling factor [Segniliparus rotundus DSM
           44985]
 gi|296180815|gb|ADG97721.1| transcription-repair coupling factor [Segniliparus rotundus DSM
           44985]
          Length = 1214

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 5/60 (8%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
             + G+++V+  HG+G   E+ E+ V G + E+ V+ +   K       L VP+     +
Sbjct: 513 ALKAGDYVVHDQHGIGRFVELVERTVGGARREYVVVEYASSKRGHPPDRLYVPMDALDQL 572


>gi|282853612|ref|ZP_06262949.1| transcription-repair coupling factor [Propionibacterium acnes J139]
 gi|282583065|gb|EFB88445.1| transcription-repair coupling factor [Propionibacterium acnes J139]
          Length = 1209

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           + G+ IV+  HGVG   E+ ++ V G   E+ VI +   K       L VPV     +
Sbjct: 525 KPGDLIVHEQHGVGRYVEMVQRAVGGATREYLVIEYAPSKKGQPGDRLFVPVNSLDQV 582


>gi|310829353|ref|YP_003961710.1| transcription-repair coupling factor [Eubacterium limosum KIST612]
 gi|308741087|gb|ADO38747.1| transcription-repair coupling factor [Eubacterium limosum KIST612]
          Length = 1140

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 11/52 (21%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I++  +  +  +  VI +      L +PV +   +
Sbjct: 475 VGDYVVHDVHGIGIYLGIEQLTIDNVTKDLMVIEYA-GDARLYIPVEQMDSV 525


>gi|240169894|ref|ZP_04748553.1| transcription-repair coupling factor Mfd (TrcF) [Mycobacterium
           kansasii ATCC 12478]
          Length = 1238

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 31/74 (41%), Gaps = 7/74 (9%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++          G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K      
Sbjct: 516 LAAKRRNTVDPLALTAGDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASSKRGGQNS 575

Query: 56  --CLKVPVGKAIDI 67
              L VP+     +
Sbjct: 576 TDKLYVPMDSLDQL 589


>gi|281490512|ref|YP_003352492.1| transcription-repair coupling factor [Lactococcus lactis subsp.
           lactis KF147]
 gi|281374330|gb|ADA63863.1| Transcription-repair coupling factor [Lactococcus lactis subsp.
           lactis KF147]
          Length = 1161

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+ +V+  HG+G    ++  EV GM  ++  I +      + VPV    
Sbjct: 487 VGDFVVHKNHGIGKYLGLQTLEVGGMHRDYLTIQYQNGD-TISVPVDHLD 535


>gi|326405611|gb|ADZ62682.1| transcription-repair coupling factor [Lactococcus lactis subsp.
           lactis CV56]
          Length = 1161

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+ +V+  HG+G    ++  EV GM  ++  I +      + VPV    
Sbjct: 487 VGDFVVHKNHGIGKYLGLQTLEVGGMHRDYLTIQYQNGD-TISVPVDHLD 535


>gi|125622895|ref|YP_001031378.1| transcription-repair coupling factor [Lactococcus lactis subsp.
           cremoris MG1363]
 gi|124491703|emb|CAL96622.1| Transcription-repair coupling factor (TRCF) [Lactococcus lactis
           subsp. cremoris MG1363]
 gi|300069633|gb|ADJ59033.1| transcription-repair coupling factor [Lactococcus lactis subsp.
           cremoris NZ9000]
          Length = 1180

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+ +V+  HG+G    ++  EV GM  ++  I +      + VPV    
Sbjct: 505 VGDFVVHKNHGIGKYLGLQTLEVGGMHRDYLTIQYQNGD-TISVPVDHLD 553


>gi|15671995|ref|NP_266169.1| transcription-repair coupling factor [Lactococcus lactis subsp.
           lactis Il1403]
 gi|12722849|gb|AAK04111.1|AE006240_9 transcription-repair coupling factor [Lactococcus lactis subsp.
           lactis Il1403]
          Length = 1161

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+ +V+  HG+G    ++  EV GM  ++  I +      + VPV    
Sbjct: 487 VGDFVVHKNHGIGKYLGLQTLEVGGMHRDYLTIQYQNGD-TISVPVDHLD 535


>gi|116510854|ref|YP_808070.1| transcription-repair coupling factor [Lactococcus lactis subsp.
           cremoris SK11]
 gi|116106508|gb|ABJ71648.1| transcription-repair coupling factor [Lactococcus lactis subsp.
           cremoris SK11]
          Length = 1162

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+ +V+  HG+G    ++  EV GM  ++  I +      + VPV    
Sbjct: 487 VGDFVVHKNHGIGKYLGLQTLEVGGMHRDYLTIQYQNGD-TISVPVDHLD 535


>gi|39935729|ref|NP_948005.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           CGA009]
 gi|39649582|emb|CAE28104.1| transcription repair coupling factor [Rhodopseudomonas palustris
           CGA009]
          Length = 1172

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 12/104 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            TG+ +V+  HG+G    ++  EV G   +   + +  +   L +PV     +  R  S+
Sbjct: 501 STGDIVVHVEHGIGRFVGLQTLEVGGAPHDCVELHYA-NDTKLFLPVENIELLS-RYGSD 558

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
              VE  L  + G      + W  R  +   +I    G+LI +A
Sbjct: 559 GTSVE--LDKLGG------SGWQARKAKLKNRIRQIAGELIKVA 594


>gi|291458882|ref|ZP_06598272.1| conserved hypothetical protein [Oribacterium sp. oral taxon 078
           str. F0262]
 gi|291418136|gb|EFE91855.1| conserved hypothetical protein [Oribacterium sp. oral taxon 078
           str. F0262]
          Length = 175

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/124 (20%), Positives = 54/124 (43%), Gaps = 8/124 (6%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLE--FFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F++G ++VY   GV  IT I    + G+  +  ++++    K +  +  PV +   I M
Sbjct: 1   MFQSGTYVVYGCKGVHKITGITTLNLEGIPKDKNYYILEPLKKAQAAIYAPVEEMR-IRM 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYD--AKINSGDLIAIAEVVRDLHRTDS 127
           R +      E  L+ +     +  ++ + RA+E      I S +   +  V++ L    +
Sbjct: 60  RPVMSREEAEHFLQSM--GLILPLSIRNPRAREEACRECIRSCEPDELLRVIKTLQHRKT 117

Query: 128 QPEK 131
           +  +
Sbjct: 118 ERAR 121


>gi|322386426|ref|ZP_08060055.1| transcription-repair coupling factor [Streptococcus cristatus ATCC
           51100]
 gi|321269512|gb|EFX52443.1| transcription-repair coupling factor [Streptococcus cristatus ATCC
           51100]
          Length = 1167

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  EV+G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHNIHGIGRYLGIETIEVSGVHRDYLTIQYQNAD-RISIPVDQIN 542


>gi|192291316|ref|YP_001991921.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           TIE-1]
 gi|192285065|gb|ACF01446.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           TIE-1]
          Length = 1172

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 12/104 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            TG+ +V+  HG+G    ++  EV G   +   + +  +   L +PV     +  R  S+
Sbjct: 501 STGDIVVHVEHGIGRFVGLQTLEVGGAPHDCVELHYA-NDTKLFLPVENIELLS-RYGSD 558

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
              VE  L  + G      + W  R  +   +I    G+LI +A
Sbjct: 559 GTSVE--LDKLGG------SGWQARKAKLKNRIRQIAGELIKVA 594


>gi|33861396|ref|NP_892957.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           subsp. pastoris str. CCMP1986]
 gi|33633973|emb|CAE19298.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           subsp. pastoris str. CCMP1986]
          Length = 1171

 Score = 45.9 bits (108), Expect = 0.003,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 24/43 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G++IV+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 493 NPGDYIVHKNHGIGQFLKIEKINITGESRDYLVIRYLDGKISV 535


>gi|283768627|ref|ZP_06341539.1| transcription-repair coupling factor [Bulleidia extructa W1219]
 gi|283105019|gb|EFC06391.1| transcription-repair coupling factor [Bulleidia extructa W1219]
          Length = 1142

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 30/67 (44%), Gaps = 3/67 (4%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q     +++V+  +GVG    I+ +E+  +K +F  I   K    L VP+ +   +  RK
Sbjct: 469 QELEPKDYVVHANYGVGQYMGIETKEINHIKRDFLRI-IYKANSELLVPLEQFRLV--RK 525

Query: 72  LSEAHFV 78
                 +
Sbjct: 526 FVSREGI 532


>gi|163853560|ref|YP_001641603.1| transcription-repair coupling factor [Methylobacterium extorquens
           PA1]
 gi|163665165|gb|ABY32532.1| transcription-repair coupling factor [Methylobacterium extorquens
           PA1]
          Length = 1196

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 42/111 (37%), Gaps = 21/111 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    +K    AG   +   + +      L +PV       +  
Sbjct: 522 QALQPGDLVVHADHGIGRFVTLKTVTAAGAPHDCLELQYAGG--LLLLPVENIE---LLT 576

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
              +   E AL  + G A      W  R     AK+       +GDLI IA
Sbjct: 577 RYGSEDSEVALDRLGGGA------WQAR----KAKMKRRILEMAGDLIKIA 617


>gi|218532420|ref|YP_002423236.1| transcription-repair coupling factor [Methylobacterium
           chloromethanicum CM4]
 gi|218524723|gb|ACK85308.1| transcription-repair coupling factor [Methylobacterium
           chloromethanicum CM4]
          Length = 1196

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 42/111 (37%), Gaps = 21/111 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    +K    AG   +   + +      L +PV       +  
Sbjct: 522 QALQPGDLVVHADHGIGRFVTLKTVTAAGAPHDCLELQYAGG--LLLLPVENIE---LLT 576

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
              +   E AL  + G A      W  R     AK+       +GDLI IA
Sbjct: 577 RYGSEDSEVALDRLGGGA------WQAR----KAKMKRRILEMAGDLIKIA 617


>gi|240140979|ref|YP_002965459.1| transcription repair coupling protein, ATP-dependent helicase
           [Methylobacterium extorquens AM1]
 gi|240010956|gb|ACS42182.1| transcription repair coupling protein, ATP-dependent helicase
           [Methylobacterium extorquens AM1]
          Length = 1196

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 42/111 (37%), Gaps = 21/111 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    +K    AG   +   + +      L +PV       +  
Sbjct: 522 QALQPGDLVVHADHGIGRFVTLKTVTAAGAPHDCLELQYAGG--LLLLPVENIE---LLT 576

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
              +   E AL  + G A      W  R     AK+       +GDLI IA
Sbjct: 577 RYGSEDSEVALDRLGGGA------WQAR----KAKMKRRILEMAGDLIKIA 617


>gi|297582393|ref|YP_003698173.1| transcription-repair coupling factor [Bacillus selenitireducens
           MLS10]
 gi|297140850|gb|ADH97607.1| transcription-repair coupling factor [Bacillus selenitireducens
           MLS10]
          Length = 1186

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+ +V+  HG+G    I+  +V  +  ++  I++  +   L VPV +   +
Sbjct: 501 KTGDWVVHINHGIGKYLGIETLQVGDVHKDYLHISYAGND-KLYVPVDQIDQV 552


>gi|254563490|ref|YP_003070585.1| transcription repair coupling protein, ATP-dependent helicase
           [Methylobacterium extorquens DM4]
 gi|254270768|emb|CAX26773.1| transcription repair coupling protein, ATP-dependent helicase
           [Methylobacterium extorquens DM4]
          Length = 1196

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 42/111 (37%), Gaps = 21/111 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    +K    AG   +   + +      L +PV       +  
Sbjct: 522 QALQPGDLVVHADHGIGRFVTLKTVTAAGAPHDCLELQYAGG--LLLLPVENIE---LLT 576

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
              +   E AL  + G A      W  R     AK+       +GDLI IA
Sbjct: 577 RYGSEDSEVALDRLGGGA------WQAR----KAKMKRRILEMAGDLIKIA 617


>gi|255659238|ref|ZP_05404647.1| transcription-repair coupling factor [Mitsuokella multacida DSM
           20544]
 gi|260848692|gb|EEX68699.1| transcription-repair coupling factor [Mitsuokella multacida DSM
           20544]
          Length = 1129

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 12/50 (24%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           + G+++V+ +HG+G    ++  +V G+  ++  I +  D   L VP  + 
Sbjct: 430 KPGDYVVHESHGIGKYLGVETLDVGGIHKDYLHIQYAGDD-KLFVPTDQV 478


>gi|302534880|ref|ZP_07287222.1| transcription-repair coupling factor [Streptomyces sp. C]
 gi|302443775|gb|EFL15591.1| transcription-repair coupling factor [Streptomyces sp. C]
          Length = 1179

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 488 MPTRRRKSIDPLTLEVGDYIVHEQHGVGRYIEMVQRTVQGATREYLLVEYAPAKRGQPGD 547

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 548 --RLYIPTDQLEQV 559


>gi|251781475|ref|YP_002995776.1| putative transcription-repair coupling factor [Streptococcus
           dysgalactiae subsp. equisimilis GGS_124]
 gi|242390103|dbj|BAH80562.1| putative transcription-repair coupling factor [Streptococcus
           dysgalactiae subsp. equisimilis GGS_124]
          Length = 1166

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQISSL 540


>gi|218295465|ref|ZP_03496278.1| transcription factor CarD [Thermus aquaticus Y51MC23]
 gi|218244097|gb|EED10623.1| transcription factor CarD [Thermus aquaticus Y51MC23]
          Length = 699

 Score = 45.5 bits (107), Expect = 0.003,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 48/118 (40%), Gaps = 16/118 (13%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
               G+ +++P HG+G    ++ +EV G++ ++ V+ +  +   L +PV     +  R  
Sbjct: 39  ALSPGDFLIHPEHGIGQYLGLETREVLGVRRDYLVLRYRGEG-RLYLPVEGLPLLK-RHP 96

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                      L +G+       W +RA+E   K    D+  +A   R L     +  
Sbjct: 97  GTTDDPPELSSLGKGE-------W-QRAKEKARK----DVEELA--ARLLVLHAKRKA 140


>gi|254459943|ref|ZP_05073359.1| transcription-repair coupling factor [Rhodobacterales bacterium
           HTCC2083]
 gi|206676532|gb|EDZ41019.1| transcription-repair coupling factor [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 1150

 Score = 45.5 bits (107), Expect = 0.004,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 15/118 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + ++   L +PV       
Sbjct: 471 TETQSLNPGDLVVHVDHGIGRYQGLEVITAAGAAHECIMLDYAENA-RLYLPVENIE--- 526

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              L   +  E   L  + G A + K+     R +E   K+    +   AE  R L R
Sbjct: 527 ---LLSKYGHEEGLLDRLGGGAWQSKKAKLKERIREMADKL----IRVAAE--RALRR 575


>gi|172056088|ref|YP_001812548.1| transcription-repair coupling factor [Exiguobacterium sibiricum
           255-15]
 gi|171988609|gb|ACB59531.1| transcription-repair coupling factor [Exiguobacterium sibiricum
           255-15]
          Length = 1171

 Score = 45.5 bits (107), Expect = 0.004,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 1/65 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
              +R    Q  +TG+++V+  HG+G    IK  +VAG   ++  + +  +   L VPV 
Sbjct: 485 TNAERIKSYQELKTGDYVVHIHHGIGRYHGIKTIDVAGNHQDYLHLIYAGEDS-LYVPVD 543

Query: 63  KAIDI 67
           +   I
Sbjct: 544 QIDLI 548


>gi|15674256|ref|NP_268429.1| putative transcription-repair coupling factor [Streptococcus
           pyogenes M1 GAS]
 gi|71909820|ref|YP_281370.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS5005]
 gi|13621331|gb|AAK33151.1| putative transcription-repair coupling factor [Streptococcus
           pyogenes M1 GAS]
 gi|71852602|gb|AAZ50625.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS5005]
          Length = 1167

 Score = 45.5 bits (107), Expect = 0.004,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQISSL 540


>gi|28894918|ref|NP_801268.1| transcription-repair coupling factor [Streptococcus pyogenes SSI-1]
 gi|28810163|dbj|BAC63101.1| putative transcription-repair coupling factor [Streptococcus
           pyogenes SSI-1]
          Length = 1167

 Score = 45.5 bits (107), Expect = 0.004,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQISSL 540


>gi|328882973|emb|CCA56212.1| Transcription-repair coupling factor [Streptomyces venezuelae ATCC
           10712]
          Length = 1221

 Score = 45.5 bits (107), Expect = 0.004,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 531 MPAKRRKTIDPLTLEVGDYIVHEQHGVGRYVEMVQRTVQGATREYLLVEYAPAKRGQPGD 590

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 591 --RLYIPTDQLEQV 602


>gi|92117582|ref|YP_577311.1| transcription-repair coupling factor [Nitrobacter hamburgensis X14]
 gi|91800476|gb|ABE62851.1| transcription-repair coupling factor [Nitrobacter hamburgensis X14]
          Length = 1173

 Score = 45.5 bits (107), Expect = 0.004,   Method: Composition-based stats.
 Identities = 31/118 (26%), Positives = 51/118 (43%), Gaps = 13/118 (11%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G  T ++  EV G   +   + +  ++  L +PV     +  R  S+  
Sbjct: 504 GDLVVHVEHGIGRFTGLQTLEVGGAPHDCLELRYA-NETKLFLPVENIELLS-RYGSDHA 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIAEVVRDLHRTDSQPEKS 132
            VE  L  + G      + W  R  +   +I    G+LI IA   R LH     P +S
Sbjct: 562 NVE--LDRLGG------SGWQARKAKLKNRIREIAGELIKIAA-ARHLHEAPKMPVQS 610


>gi|21909542|ref|NP_663810.1| putative transcription-repair coupling factor [Streptococcus
           pyogenes MGAS315]
 gi|21903722|gb|AAM78613.1| putative transcription-repair coupling factor [Streptococcus
           pyogenes MGAS315]
          Length = 1139

 Score = 45.5 bits (107), Expect = 0.004,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 462 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQISSL 512


>gi|294813058|ref|ZP_06771701.1| Transcriptional-repair coupling factor [Streptomyces clavuligerus
           ATCC 27064]
 gi|294325657|gb|EFG07300.1| Transcriptional-repair coupling factor [Streptomyces clavuligerus
           ATCC 27064]
          Length = 1206

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 516 MPTRRRKTIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 575

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 576 --RLYIPTDQLEQI 587


>gi|188583862|ref|YP_001927307.1| transcription-repair coupling factor [Methylobacterium populi
           BJ001]
 gi|179347360|gb|ACB82772.1| transcription-repair coupling factor [Methylobacterium populi
           BJ001]
          Length = 1200

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 34/161 (21%), Positives = 59/161 (36%), Gaps = 27/161 (16%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    +K    AG   +   + +      L +PV       +  
Sbjct: 526 QALQPGDLVVHADHGIGRFVGLKTVTAAGAPHDCLELQYAGG--LLLLPVENIE---LLT 580

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA-EVVRDLHRTDSQPE 130
              +   E AL  + G A      W  R     AK+    ++ +A E+++       +P 
Sbjct: 581 RYGSEDSEVALDRLGGGA------WQAR----KAKMKR-RILEMAGELIKVAAARFVKPA 629

Query: 131 KSYSERQLYESALNRMVREIAA--VNSISEPEAINLIEVNL 169
            S         A   +  E AA      +E +A N I+  L
Sbjct: 630 PSL-------KAPEGLYEEFAARFAFQETEDQA-NAIDAVL 662


>gi|269219241|ref|ZP_06163095.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           848 str. F0332]
 gi|269211388|gb|EEZ77728.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           848 str. F0332]
          Length = 1194

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 32/75 (42%), Gaps = 8/75 (10%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA---GMKLEFFVIAFDKDKM-- 55
           M  ++K     Q  + G+++V+  HGVG   ++ ++ +      + E+ V+ +   +   
Sbjct: 495 MPARRKNAVDLQALKPGDYVVHEHHGVGRFVKMAKRSIGASRETQREYLVLEYASTRRGA 554

Query: 56  ---CLKVPVGKAIDI 67
               L VP      +
Sbjct: 555 PPDQLWVPTDSLDQV 569


>gi|254388765|ref|ZP_05003997.1| transcriptional-repair coupling factor [Streptomyces clavuligerus
           ATCC 27064]
 gi|197702484|gb|EDY48296.1| transcriptional-repair coupling factor [Streptomyces clavuligerus
           ATCC 27064]
          Length = 1187

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 497 MPTRRRKTIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 556

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 557 --RLYIPTDQLEQI 568


>gi|3511015|gb|AAD03810.1| transcription-repair coupling factor [Lactobacillus sakei]
          Length = 1045

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I   +D   L +PV +   +
Sbjct: 498 KPGDYVVHVNHGIGEYVGMETLEVDGVHQDYITI-LYRDNGKLFIPVTQLDMV 549


>gi|295104237|emb|CBL01781.1| transcription-repair coupling factor [Faecalibacterium prausnitzii
           SL3/3]
          Length = 1171

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 9/88 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+ +HG+G    I+  EV G   ++  + +    + L VPV +   +  R  + 
Sbjct: 489 KPGDYVVHQSHGIGMYAGIQRLEVQGATKDYLKVQYSGSDV-LYVPVTQLDLLS-RYTAP 546

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQ 101
               +  L  + G      T W R RA+
Sbjct: 547 GDEEKVKLAKLGG------TEWQRTRAK 568


>gi|304405853|ref|ZP_07387511.1| transcription-repair coupling factor [Paenibacillus curdlanolyticus
           YK9]
 gi|304345096|gb|EFM10932.1| transcription-repair coupling factor [Paenibacillus curdlanolyticus
           YK9]
          Length = 1177

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I   E+ G+  ++  + +      L VP+ +   I
Sbjct: 489 KVGDYVVHQNHGIGKYLGIGTLEIGGIHKDYMHVMYAGGD-KLSVPIEQIDMI 540


>gi|114768783|ref|ZP_01446409.1| transcription-repair coupling factor [alpha proteobacterium
           HTCC2255]
 gi|114549700|gb|EAU52581.1| transcription-repair coupling factor [alpha proteobacterium
           HTCC2255]
          Length = 1151

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 20/101 (19%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
                   G+ +V+  HGVG    ++  + AG   +  ++ +  +   L +PV       
Sbjct: 475 TEASSLSVGDLVVHVDHGVGRYRGLETVKAAGAPHDCLLLEYANND-RLYLPVENVE--- 530

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   K+
Sbjct: 531 ---LLSRYGHETGLLDRLGGSAWQAKKAKLKERIREMADKL 568


>gi|331265444|ref|YP_004325074.1| transcription-repair coupling factor [Streptococcus oralis Uo5]
 gi|326682116|emb|CBY99732.1| transcription-repair coupling factor [Streptococcus oralis Uo5]
          Length = 1167

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIQGIHRDYVSVQYQNGD-QISIPVEQIQ 539


>gi|238062748|ref|ZP_04607457.1| transcription-repair coupling factor [Micromonospora sp. ATCC
           39149]
 gi|237884559|gb|EEP73387.1| transcription-repair coupling factor [Micromonospora sp. ATCC
           39149]
          Length = 1229

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 32/72 (44%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        + G+H+V+  HG+G   E+ ++ V G   E+ VI +   K      
Sbjct: 531 MPSRRRNTIDPLELKAGDHVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSKRGQPGD 590

Query: 56  CLKVPVGKAIDI 67
            L VP  +   +
Sbjct: 591 RLFVPTDQLDQL 602


>gi|315612154|ref|ZP_07887069.1| transcription-repair coupling factor [Streptococcus sanguinis ATCC
           49296]
 gi|315315715|gb|EFU63752.1| transcription-repair coupling factor [Streptococcus sanguinis ATCC
           49296]
          Length = 1167

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    I+  E+ G+  ++  + +      + +PV +  
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIQGIHRDYVSVQYQNGD-QISIPVEQIQ 539


>gi|86749967|ref|YP_486463.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           HaA2]
 gi|86572995|gb|ABD07552.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           HaA2]
          Length = 1171

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 24/102 (23%), Positives = 42/102 (41%), Gaps = 12/102 (11%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    ++  EV G   +   + +  +   L +PV     +  R  S+  
Sbjct: 503 GDIVVHVEHGIGRFIGLQTLEVGGAPHDCVELHYA-NDTKLFLPVENIELLS-RYGSDGT 560

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
            VE  L  + G        W  R  +   +I    G+LI +A
Sbjct: 561 SVE--LDRLGGGG------WQARKAKLKNRIRQIAGELIKVA 594


>gi|325288390|ref|YP_004264571.1| transcription-repair coupling factor [Syntrophobotulus glycolicus
           DSM 8271]
 gi|324963791|gb|ADY54570.1| transcription-repair coupling factor [Syntrophobotulus glycolicus
           DSM 8271]
          Length = 1182

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           + G+ +V+  HG+G    I++  V G++ ++F I +  +   L VP+ +  
Sbjct: 502 KPGDFVVHLYHGIGKFIGIEKIGVDGIEKDYFAIKYAGED-KLYVPLDQIQ 551


>gi|291545188|emb|CBL18297.1| transcription-repair coupling factor [Ruminococcus sp. 18P13]
          Length = 1156

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 35/84 (41%), Gaps = 2/84 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    I++ E+ G+  ++  I +    + L VPV +   +  R +    
Sbjct: 490 GDLVVHALHGIGRFVGIRKLELEGVTKDYITIQYAGKDV-LYVPVTQLDMVS-RYIGTRD 547

Query: 77  FVERALKLVRGKARVKRTMWSRRA 100
                L  +      K     +RA
Sbjct: 548 DDHVKLHKLSSVEWQKTRNNVKRA 571


>gi|227544685|ref|ZP_03974734.1| transcription-repair coupling factor [Lactobacillus reuteri
           CF48-3A]
 gi|300909073|ref|ZP_07126536.1| transcription-repair coupling factor [Lactobacillus reuteri SD2112]
 gi|227185331|gb|EEI65402.1| transcription-repair coupling factor [Lactobacillus reuteri
           CF48-3A]
 gi|300894480|gb|EFK87838.1| transcription-repair coupling factor [Lactobacillus reuteri SD2112]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  + IK  EV  +  ++ +I + +D   + VPV +   +
Sbjct: 501 KPGDYVVHVNHGIGIFSGIKTMEVDHVHQDYMIINY-RDNAQIYVPVTQLNLV 552


>gi|326441399|ref|ZP_08216133.1| transcription-repair coupling factor [Streptomyces clavuligerus
           ATCC 27064]
          Length = 1176

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 486 MPTRRRKTIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 546 --RLYIPTDQLEQI 557


>gi|160947369|ref|ZP_02094536.1| hypothetical protein PEPMIC_01303 [Parvimonas micra ATCC 33270]
 gi|158446503|gb|EDP23498.1| hypothetical protein PEPMIC_01303 [Parvimonas micra ATCC 33270]
          Length = 1168

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 49/121 (40%), Gaps = 13/121 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +V+  HG+G    I++ EV G+  +  +I +  +   L +P  +     ++K   
Sbjct: 504 NVGDFVVHENHGIGEYRGIEQIEVDGIVKDHILILYKGND-KLYIPTDQMNL--IQKYIG 560

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
               +  L  +     +K      RA++   +I     I + ++     + D     ++S
Sbjct: 561 KDGYKPKLNKLGSNDWIKTKT---RAKKVLDEIA----IDLVQLY---AKRDKIRGFAFS 610

Query: 135 E 135
           E
Sbjct: 611 E 611


>gi|160944870|ref|ZP_02092097.1| hypothetical protein FAEPRAM212_02386 [Faecalibacterium prausnitzii
           M21/2]
 gi|158444054|gb|EDP21058.1| hypothetical protein FAEPRAM212_02386 [Faecalibacterium prausnitzii
           M21/2]
          Length = 1171

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 9/88 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+ +HG+G    I+  EV G   ++  + +    + L VPV +   +  R  + 
Sbjct: 489 KPGDYVVHQSHGIGMYAGIQRLEVQGATKDYLKVQYSGSDV-LYVPVTQLDLLS-RYTAP 546

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQ 101
               +  L  + G      T W R RA+
Sbjct: 547 GDEEKVKLAKLGG------TEWQRTRAK 568


>gi|149204032|ref|ZP_01881000.1| transcription-repair coupling factor [Roseovarius sp. TM1035]
 gi|149142474|gb|EDM30519.1| transcription-repair coupling factor [Roseovarius sp. TM1035]
          Length = 1150

 Score = 45.1 bits (106), Expect = 0.004,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  V+ + +    L +PV       
Sbjct: 470 TEAQSLSVGDLVVHVDHGIGRYLGLEVVTAAGAAHECLVLEYAESS-KLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   ++
Sbjct: 526 ---LLSKYGHEEGLLDRLGGGAWQAKKARLKERIREMADRL 563


>gi|254384864|ref|ZP_05000200.1| transcriptional-repair coupling factor [Streptomyces sp. Mg1]
 gi|194343745|gb|EDX24711.1| transcriptional-repair coupling factor [Streptomyces sp. Mg1]
          Length = 1187

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 497 MPTRRRKAIDPLTLEVGDYIVHEQHGVGRYIEMVQRTVQGATREYLLVEYAPAKRGQPGD 556

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 557 --RLYIPTDQLEQV 568


>gi|315924903|ref|ZP_07921120.1| transcription-repair coupling factor [Pseudoramibacter
           alactolyticus ATCC 23263]
 gi|315621802|gb|EFV01766.1| transcription-repair coupling factor [Pseudoramibacter
           alactolyticus ATCC 23263]
          Length = 1144

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 1/62 (1%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           K+         G+++V+  HG+G    I++  +     +  VIA+  D   L +PV +  
Sbjct: 467 KKIETFTSLSAGDYVVHDIHGIGVYQGIEKMTIGETTKDMIVIAYQGDD-RLYLPVDQMG 525

Query: 66  DI 67
            I
Sbjct: 526 SI 527


>gi|81429216|ref|YP_396217.1| transcription-repair coupling factor [Lactobacillus sakei subsp.
           sakei 23K]
 gi|78610859|emb|CAI55911.1| Transcription-repair coupling factor (TRCF) [Lactobacillus sakei
           subsp. sakei 23K]
          Length = 1173

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I   +D   L +PV +   +
Sbjct: 498 KPGDYVVHVNHGIGEYVGMETLEVDGVHQDYITI-LYRDNGKLFIPVTQLDMV 549


>gi|83942375|ref|ZP_00954836.1| transcription-repair coupling factor [Sulfitobacter sp. EE-36]
 gi|83846468|gb|EAP84344.1| transcription-repair coupling factor [Sulfitobacter sp. EE-36]
          Length = 1162

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HGVG    ++    AG   E  ++ + +    L +PV       
Sbjct: 479 TETQSLSPGDLVVHVDHGVGRYLGMEVVTAAGAAHECLLLEYAESS-KLYLPVENIE--- 534

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   K+
Sbjct: 535 ---LLSRYGHDEGLLDKLGGGAWQSKKAKLKERIREMADKL 572


>gi|332522484|ref|ZP_08398736.1| transcription-repair coupling factor [Streptococcus porcinus str.
           Jelinkova 176]
 gi|332313748|gb|EGJ26733.1| transcription-repair coupling factor [Streptococcus porcinus str.
           Jelinkova 176]
          Length = 1166

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 22/115 (19%), Positives = 47/115 (40%), Gaps = 17/115 (14%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+  HG+G    I+  ++ G+  ++  I +      + +PV +     + K   A 
Sbjct: 491 GDYVVHNVHGIGRFLGIETIKLQGIHRDYVTIQYQNSD-RISLPVEQIES--LSKYVSAD 547

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
             E  +  +             R Q+   K+ S  +  IA+   DL R  ++  +
Sbjct: 548 GKEPKINKLNDG----------RFQKTKQKV-SKQVEDIAD---DLLRLYAERSQ 588


>gi|290968874|ref|ZP_06560411.1| transcription-repair coupling factor [Megasphaera genomosp. type_1
           str. 28L]
 gi|290781170|gb|EFD93761.1| transcription-repair coupling factor [Megasphaera genomosp. type_1
           str. 28L]
          Length = 1095

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 2/67 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           ++G++IV+ AHG+G    +K  E+ G+  ++  I +    + L VP  +   I  R +  
Sbjct: 426 KSGDYIVHHAHGIGRYVGLKTIEIDGVHRDYLEIHYAGSDI-LYVPTDQLRLIQ-RYIGN 483

Query: 75  AHFVERA 81
              + + 
Sbjct: 484 EGEIPKL 490


>gi|322412921|gb|EFY03828.1| putative transcription-repair coupling factor [Streptococcus
           dysgalactiae subsp. dysgalactiae ATCC 27957]
          Length = 1166

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+  ++ G+  ++  I +      + +PV +   +
Sbjct: 491 GDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPVDQISSL 540


>gi|315165851|gb|EFU09868.1| transcription-repair coupling factor [Enterococcus faecalis TX1302]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|315145387|gb|EFT89403.1| transcription-repair coupling factor [Enterococcus faecalis TX2141]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|312901071|ref|ZP_07760360.1| transcription-repair coupling factor [Enterococcus faecalis TX0470]
 gi|311291817|gb|EFQ70373.1| transcription-repair coupling factor [Enterococcus faecalis TX0470]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|255971757|ref|ZP_05422343.1| transcription-repair coupling factor [Enterococcus faecalis T1]
 gi|257421547|ref|ZP_05598537.1| transcription-repair coupling factor [Enterococcus faecalis X98]
 gi|255962775|gb|EET95251.1| transcription-repair coupling factor [Enterococcus faecalis T1]
 gi|257163371|gb|EEU93331.1| transcription-repair coupling factor [Enterococcus faecalis X98]
 gi|323479470|gb|ADX78909.1| transcription-repair coupling factor [Enterococcus faecalis 62]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|256956814|ref|ZP_05560985.1| transcription-repair coupling factor [Enterococcus faecalis DS5]
 gi|256960620|ref|ZP_05564791.1| transcription-repair coupling factor [Enterococcus faecalis Merz96]
 gi|257081545|ref|ZP_05575906.1| transcription-repair coupling factor [Enterococcus faecalis E1Sol]
 gi|294779317|ref|ZP_06744720.1| transcription-repair coupling factor [Enterococcus faecalis PC1.1]
 gi|300861968|ref|ZP_07108048.1| transcription-repair coupling factor [Enterococcus faecalis TUSoD
           Ef11]
 gi|256947310|gb|EEU63942.1| transcription-repair coupling factor [Enterococcus faecalis DS5]
 gi|256951116|gb|EEU67748.1| transcription-repair coupling factor [Enterococcus faecalis Merz96]
 gi|256989575|gb|EEU76877.1| transcription-repair coupling factor [Enterococcus faecalis E1Sol]
 gi|294453603|gb|EFG22002.1| transcription-repair coupling factor [Enterococcus faecalis PC1.1]
 gi|300848493|gb|EFK76250.1| transcription-repair coupling factor [Enterococcus faecalis TUSoD
           Ef11]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|29374898|ref|NP_814051.1| transcription-repair coupling factor [Enterococcus faecalis V583]
 gi|227555903|ref|ZP_03985950.1| transcription-repair coupling factor [Enterococcus faecalis HH22]
 gi|29342356|gb|AAO80122.1| transcription-repair coupling factor [Enterococcus faecalis V583]
 gi|227174960|gb|EEI55932.1| transcription-repair coupling factor [Enterococcus faecalis HH22]
 gi|315573564|gb|EFU85755.1| transcription-repair coupling factor [Enterococcus faecalis
           TX0309B]
 gi|315582088|gb|EFU94279.1| transcription-repair coupling factor [Enterococcus faecalis
           TX0309A]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|327534054|gb|AEA92888.1| transcription-repair coupling factor [Enterococcus faecalis OG1RF]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|315172643|gb|EFU16660.1| transcription-repair coupling factor [Enterococcus faecalis TX1346]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|315158594|gb|EFU02611.1| transcription-repair coupling factor [Enterococcus faecalis TX0312]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|315026785|gb|EFT38717.1| transcription-repair coupling factor [Enterococcus faecalis TX2137]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|315274585|ref|ZP_07869461.1| transcription-repair-coupling factor [Listeria marthii FSL S4-120]
 gi|313615787|gb|EFR89039.1| transcription-repair-coupling factor [Listeria marthii FSL S4-120]
          Length = 770

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|312904634|ref|ZP_07763789.1| transcription-repair coupling factor [Enterococcus faecalis TX0635]
 gi|310631986|gb|EFQ15269.1| transcription-repair coupling factor [Enterococcus faecalis TX0635]
 gi|315160777|gb|EFU04794.1| transcription-repair coupling factor [Enterococcus faecalis TX0645]
 gi|315579376|gb|EFU91567.1| transcription-repair coupling factor [Enterococcus faecalis TX0630]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|307274221|ref|ZP_07555429.1| transcription-repair coupling factor [Enterococcus faecalis TX0855]
 gi|306509183|gb|EFM78245.1| transcription-repair coupling factor [Enterococcus faecalis TX0855]
 gi|315151127|gb|EFT95143.1| transcription-repair coupling factor [Enterococcus faecalis TX0012]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|307278656|ref|ZP_07559726.1| transcription-repair coupling factor [Enterococcus faecalis TX0860]
 gi|306504716|gb|EFM73916.1| transcription-repair coupling factor [Enterococcus faecalis TX0860]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|293382707|ref|ZP_06628632.1| transcription-repair coupling factor [Enterococcus faecalis R712]
 gi|293388111|ref|ZP_06632638.1| transcription-repair coupling factor [Enterococcus faecalis S613]
 gi|307268510|ref|ZP_07549885.1| transcription-repair coupling factor [Enterococcus faecalis TX4248]
 gi|312908603|ref|ZP_07767545.1| transcription-repair coupling factor [Enterococcus faecalis DAPTO
           512]
 gi|312909249|ref|ZP_07768106.1| transcription-repair coupling factor [Enterococcus faecalis DAPTO
           516]
 gi|291079867|gb|EFE17231.1| transcription-repair coupling factor [Enterococcus faecalis R712]
 gi|291082487|gb|EFE19450.1| transcription-repair coupling factor [Enterococcus faecalis S613]
 gi|306515171|gb|EFM83711.1| transcription-repair coupling factor [Enterococcus faecalis TX4248]
 gi|310625390|gb|EFQ08673.1| transcription-repair coupling factor [Enterococcus faecalis DAPTO
           512]
 gi|311290491|gb|EFQ69047.1| transcription-repair coupling factor [Enterococcus faecalis DAPTO
           516]
 gi|315032977|gb|EFT44909.1| transcription-repair coupling factor [Enterococcus faecalis TX0017]
 gi|315036610|gb|EFT48542.1| transcription-repair coupling factor [Enterococcus faecalis TX0027]
 gi|315147120|gb|EFT91136.1| transcription-repair coupling factor [Enterococcus faecalis TX4244]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|257417623|ref|ZP_05594617.1| transcription-repair coupling factor [Enterococcus faecalis
           AR01/DG]
 gi|257159451|gb|EEU89411.1| transcription-repair coupling factor [Enterococcus faecalis
           ARO1/DG]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|257088020|ref|ZP_05582381.1| transcription-repair coupling factor [Enterococcus faecalis D6]
 gi|256996050|gb|EEU83352.1| transcription-repair coupling factor [Enterococcus faecalis D6]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|257078484|ref|ZP_05572845.1| transcription-repair coupling factor [Enterococcus faecalis JH1]
 gi|256986514|gb|EEU73816.1| transcription-repair coupling factor [Enterococcus faecalis JH1]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|256964180|ref|ZP_05568351.1| transcription-repair coupling factor [Enterococcus faecalis
           HIP11704]
 gi|256954676|gb|EEU71308.1| transcription-repair coupling factor [Enterococcus faecalis
           HIP11704]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|256855211|ref|ZP_05560572.1| transcription-repair coupling factor [Enterococcus faecalis T8]
 gi|256709724|gb|EEU24771.1| transcription-repair coupling factor [Enterococcus faecalis T8]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|256762052|ref|ZP_05502632.1| transcription-repair coupling factor [Enterococcus faecalis T3]
 gi|256683303|gb|EEU22998.1| transcription-repair coupling factor [Enterococcus faecalis T3]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|256618332|ref|ZP_05475178.1| transcription-repair coupling factor [Enterococcus faecalis ATCC
           4200]
 gi|256597859|gb|EEU17035.1| transcription-repair coupling factor [Enterococcus faecalis ATCC
           4200]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|255974757|ref|ZP_05425343.1| transcription-repair coupling factor [Enterococcus faecalis T2]
 gi|255967629|gb|EET98251.1| transcription-repair coupling factor [Enterococcus faecalis T2]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|229546913|ref|ZP_04435638.1| transcription-repair coupling factor [Enterococcus faecalis TX1322]
 gi|312952657|ref|ZP_07771521.1| transcription-repair coupling factor [Enterococcus faecalis TX0102]
 gi|229307841|gb|EEN73828.1| transcription-repair coupling factor [Enterococcus faecalis TX1322]
 gi|310629445|gb|EFQ12728.1| transcription-repair coupling factor [Enterococcus faecalis TX0102]
 gi|315153559|gb|EFT97575.1| transcription-repair coupling factor [Enterococcus faecalis TX0031]
 gi|315156261|gb|EFU00278.1| transcription-repair coupling factor [Enterococcus faecalis TX0043]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|229550502|ref|ZP_04439227.1| transcription-repair coupling factor [Enterococcus faecalis ATCC
           29200]
 gi|307286964|ref|ZP_07567039.1| transcription-repair coupling factor [Enterococcus faecalis TX0109]
 gi|307290197|ref|ZP_07570115.1| transcription-repair coupling factor [Enterococcus faecalis TX0411]
 gi|229304359|gb|EEN70355.1| transcription-repair coupling factor [Enterococcus faecalis ATCC
           29200]
 gi|306498753|gb|EFM68252.1| transcription-repair coupling factor [Enterococcus faecalis TX0411]
 gi|306501910|gb|EFM71199.1| transcription-repair coupling factor [Enterococcus faecalis TX0109]
 gi|315028825|gb|EFT40757.1| transcription-repair coupling factor [Enterococcus faecalis TX4000]
 gi|315168150|gb|EFU12167.1| transcription-repair coupling factor [Enterococcus faecalis TX1341]
 gi|315171410|gb|EFU15427.1| transcription-repair coupling factor [Enterococcus faecalis TX1342]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|227520043|ref|ZP_03950092.1| transcription-repair coupling factor [Enterococcus faecalis TX0104]
 gi|227072591|gb|EEI10554.1| transcription-repair coupling factor [Enterococcus faecalis TX0104]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|164688875|ref|ZP_02212903.1| hypothetical protein CLOBAR_02523 [Clostridium bartlettii DSM
           16795]
 gi|164602079|gb|EDQ95544.1| hypothetical protein CLOBAR_02523 [Clostridium bartlettii DSM
           16795]
          Length = 1131

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G  T I++  V G+K ++  I +      L VP+ +   +
Sbjct: 494 KIGDYVVHENSGIGRYTGIEQISVNGIKKDYLKIIYQGGD-NLYVPIDQMDKV 545


>gi|194467674|ref|ZP_03073661.1| transcription-repair coupling factor [Lactobacillus reuteri 100-23]
 gi|194454710|gb|EDX43607.1| transcription-repair coupling factor [Lactobacillus reuteri 100-23]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  + IK  EV  +  ++ +I + +D   + VPV +   +
Sbjct: 501 KPGDYVVHVNHGIGIFSGIKTMEVDHVHQDYMIINY-RDNAQIYVPVTQLNLV 552


>gi|307276446|ref|ZP_07557569.1| transcription-repair coupling factor [Enterococcus faecalis TX2134]
 gi|306506926|gb|EFM76073.1| transcription-repair coupling factor [Enterococcus faecalis TX2134]
          Length = 1189

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 560


>gi|257418651|ref|ZP_05595645.1| transcription-repair coupling factor [Enterococcus faecalis T11]
 gi|257160479|gb|EEU90439.1| transcription-repair coupling factor [Enterococcus faecalis T11]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|184152907|ref|YP_001841248.1| transcription-repair coupling factor [Lactobacillus reuteri JCM
           1112]
 gi|183224251|dbj|BAG24768.1| transcription-repair coupling factor [Lactobacillus reuteri JCM
           1112]
          Length = 1178

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  + IK  EV  +  ++ +I + +D   + VPV +   +
Sbjct: 500 KPGDYVVHVNHGIGIFSGIKTMEVDHVHQDYMIINY-RDNAQIYVPVTQLNLV 551


>gi|148543499|ref|YP_001270869.1| transcription-repair coupling factor [Lactobacillus reuteri DSM
           20016]
 gi|227363648|ref|ZP_03847762.1| transcription-repair coupling factor [Lactobacillus reuteri MM2-3]
 gi|325681843|ref|ZP_08161362.1| transcription-repair coupling factor [Lactobacillus reuteri MM4-1A]
 gi|148530533|gb|ABQ82532.1| transcription-repair coupling factor [Lactobacillus reuteri DSM
           20016]
 gi|227071317|gb|EEI09626.1| transcription-repair coupling factor [Lactobacillus reuteri MM2-3]
 gi|324978934|gb|EGC15882.1| transcription-repair coupling factor [Lactobacillus reuteri MM4-1A]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G  + IK  EV  +  ++ +I + +D   + VPV +   +
Sbjct: 501 KPGDYVVHVNHGIGIFSGIKTMEVDHVHQDYMIINY-RDNAQIYVPVTQLNLV 552


>gi|285808213|gb|ADC35747.1| transcription-repair coupling factor [uncultured bacterium 293]
          Length = 1139

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           +  + G+ +V+  HG+G    ++  +V G  +EF V+A+      LKVPV 
Sbjct: 466 RDLKIGDLVVHQDHGIGRFEGLQTLDVGGTSVEFMVLAYQGGD-KLKVPVE 515


>gi|257088697|ref|ZP_05583058.1| transcription-repair coupling factor [Enterococcus faecalis CH188]
 gi|256997509|gb|EEU84029.1| transcription-repair coupling factor [Enterococcus faecalis CH188]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|257084193|ref|ZP_05578554.1| transcription-repair coupling factor [Enterococcus faecalis Fly1]
 gi|256992223|gb|EEU79525.1| transcription-repair coupling factor [Enterococcus faecalis Fly1]
          Length = 1179

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|237734333|ref|ZP_04564814.1| transcription-repair coupling factor [Mollicutes bacterium D7]
 gi|229382563|gb|EEO32654.1| transcription-repair coupling factor [Coprobacillus sp. D7]
          Length = 1144

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 26/99 (26%), Positives = 47/99 (47%), Gaps = 8/99 (8%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  HG+G    IK  EV G   ++  +A+  D   L +PV +     +RK
Sbjct: 477 QELNIGDYVVHDNHGIGQYLGIKTLEVQGFHKDYLYVAYAGDD-TLYIPVEQFKM--IRK 533

Query: 72  LSEAHF-VERALKLVRGKARVKRTMWSRRAQ--EYDAKI 107
            S     V +  KL  G ++ ++T    R++  +   K+
Sbjct: 534 YSSNEGKVPKINKL--GGSQWQKTKAKARSKVDDIADKL 570


>gi|183984436|ref|YP_001852727.1| transcription-repair coupling factor Mfd (TrcF) [Mycobacterium
           marinum M]
 gi|183177762|gb|ACC42872.1| transcription-repair coupling factor Mfd (TrcF) [Mycobacterium
           marinum M]
          Length = 1222

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++          G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K      
Sbjct: 502 LAAKRRNTVDPLALTAGDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGSD 561

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 562 KLYVPMDSLDQL 573


>gi|167755583|ref|ZP_02427710.1| hypothetical protein CLORAM_01097 [Clostridium ramosum DSM 1402]
 gi|167704522|gb|EDS19101.1| hypothetical protein CLORAM_01097 [Clostridium ramosum DSM 1402]
          Length = 1144

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 26/99 (26%), Positives = 47/99 (47%), Gaps = 8/99 (8%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  HG+G    IK  EV G   ++  +A+  D   L +PV +     +RK
Sbjct: 477 QELNIGDYVVHDNHGIGQYLGIKTLEVQGFHKDYLYVAYAGDD-TLYIPVEQFKM--IRK 533

Query: 72  LSEAHF-VERALKLVRGKARVKRTMWSRRAQ--EYDAKI 107
            S     V +  KL  G ++ ++T    R++  +   K+
Sbjct: 534 YSSNEGKVPKINKL--GGSQWQKTKAKARSKVDDIADKL 570


>gi|83953596|ref|ZP_00962317.1| transcription-repair coupling factor [Sulfitobacter sp. NAS-14.1]
 gi|83841541|gb|EAP80710.1| transcription-repair coupling factor [Sulfitobacter sp. NAS-14.1]
          Length = 1162

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HGVG    ++    AG   E  ++ + +    L +PV       
Sbjct: 479 TETQSLSPGDLVVHVDHGVGRYLGMEVVTAAGAAHECLLLEYAESS-KLYLPVENIE--- 534

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   K+
Sbjct: 535 ---LLSRYGHDEGLLDKLGGGAWQSKKAKLKERIREMADKL 572


>gi|326692375|ref|ZP_08229380.1| transcription-repair coupling factor [Leuconostoc argentinum KCTC
           3773]
          Length = 1176

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++   V G K ++  IA+ K+   + +PV +   I
Sbjct: 495 NVGDYVVHVNHGIGRYEGLQTMTVDGGKQDYLTIAYQKNA-KIFIPVTQLNLI 546


>gi|163746248|ref|ZP_02153606.1| transcription-repair coupling factor [Oceanibulbus indolifex
           HEL-45]
 gi|161380133|gb|EDQ04544.1| transcription-repair coupling factor [Oceanibulbus indolifex
           HEL-45]
          Length = 1156

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 39/101 (38%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  V+ + + +  L +PV       
Sbjct: 471 TEAQSLSPGDLVVHVDHGIGRYHGMEVVTAAGAAHECLVLEYAE-QSKLYLPVENIE--- 526

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   K+
Sbjct: 527 ---LLSRYGHDEGLLDKLGGGAWQSKKAKLKERIREMADKL 564


>gi|313894846|ref|ZP_07828406.1| transcription-repair coupling factor [Selenomonas sp. oral taxon
           137 str. F0430]
 gi|312976527|gb|EFR41982.1| transcription-repair coupling factor [Selenomonas sp. oral taxon
           137 str. F0430]
          Length = 1094

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
            G+++V+ +HG+G    ++  EVAG+  ++  I +  D   L VP  + 
Sbjct: 430 PGDYVVHVSHGIGKYLGVETLEVAGVHRDYLHIQYGGDD-KLFVPTDQV 477


>gi|152965035|ref|YP_001360819.1| transcription-repair coupling factor [Kineococcus radiotolerans
           SRS30216]
 gi|151359552|gb|ABS02555.1| transcription-repair coupling factor [Kineococcus radiotolerans
           SRS30216]
          Length = 1193

 Score = 45.1 bits (106), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           R G+ +V+  HGVG   E+ ++ + G   E+ V+ +   K       L VP      +
Sbjct: 505 RPGDFVVHEQHGVGRFVEMVQRTIQGATREYLVLEYAPSKRGQPGDRLFVPTDTLDQV 562


>gi|320530140|ref|ZP_08031210.1| transcription-repair coupling factor [Selenomonas artemidis F0399]
 gi|320137573|gb|EFW29485.1| transcription-repair coupling factor [Selenomonas artemidis F0399]
          Length = 1094

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
            G+++V+ +HG+G    ++  EVAG+  ++  I +  D   L VP  + 
Sbjct: 430 PGDYVVHVSHGIGKYLGVETLEVAGVHRDYLHIQYGGDD-KLFVPTDQV 477


>gi|94989515|ref|YP_597615.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS10270]
 gi|94543023|gb|ABF33071.1| Transcription-repair coupling factor [Streptococcus pyogenes
           MGAS10270]
          Length = 1167

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|94987637|ref|YP_595738.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS9429]
 gi|94991503|ref|YP_599602.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS2096]
 gi|94541145|gb|ABF31194.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS9429]
 gi|94545011|gb|ABF35058.1| Transcription-repair coupling factor [Streptococcus pyogenes
           MGAS2096]
          Length = 1167

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|71902673|ref|YP_279476.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS6180]
 gi|71801768|gb|AAX71121.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS6180]
          Length = 1167

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|19745206|ref|NP_606342.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS8232]
 gi|19747295|gb|AAL96841.1| putative transcription-repair coupling factor [Streptococcus
           pyogenes MGAS8232]
          Length = 1167

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|194333600|ref|YP_002015460.1| transcription-repair coupling factor [Prosthecochloris aestuarii
           DSM 271]
 gi|194311418|gb|ACF45813.1| transcription-repair coupling factor [Prosthecochloris aestuarii
           DSM 271]
          Length = 1120

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 34/165 (20%), Positives = 67/165 (40%), Gaps = 26/165 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+HIV+  +G+G    ++  +V   + E  ++ +DK    L V      +IG+  LS+
Sbjct: 414 NVGDHIVHEDYGIGIFKALETIQVGNSEQECVLVEYDKGD-QLYV---NVQNIGL--LSK 467

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA-EVVRDLHRTDSQPEKSY 133
               E +L  +   +R+  + W  R      K+    L  IA E+++   +    P  ++
Sbjct: 468 YSAAEGSLPSL---SRLGSSKWKAR----KDKVKK-RLRDIASELIKLYAKRKMTPGFAF 519

Query: 134 SERQLYESALNRMVREIAAVNSISEP----EAINLIEVNLSSKSS 174
            +        +   RE  A     E     +AI  ++ ++ S   
Sbjct: 520 GQ-------DSIFQREFEASFIFDETPDQLKAIEEVKKDMQSPFP 557


>gi|220930453|ref|YP_002507362.1| transcription-repair coupling factor [Clostridium cellulolyticum
           H10]
 gi|220000781|gb|ACL77382.1| transcription-repair coupling factor [Clostridium cellulolyticum
           H10]
          Length = 1174

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 23/124 (18%), Positives = 50/124 (40%), Gaps = 19/124 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +V+ AHG+G    I+   V  +K ++  I + +    L +P  +   +  + +  
Sbjct: 505 NIGDFVVHQAHGIGQYIGIENLSVGEVKRDYLKIRYQEGDF-LYIPTNQLDLLQ-KYIGS 562

Query: 75  AHFVERALKLVRGKARVKRTMWSR---RAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
                R         ++  T W++   R +E   ++        AE+++   +  S    
Sbjct: 563 EGKTPRV-------NKLGGTEWAKTKSRVKESLQQLA-------AELIKLYAQRQSAKGH 608

Query: 132 SYSE 135
           S+SE
Sbjct: 609 SFSE 612


>gi|89054813|ref|YP_510264.1| transcription-repair coupling factor [Jannaschia sp. CCS1]
 gi|88864362|gb|ABD55239.1| transcription-repair coupling factor [Jannaschia sp. CCS1]
          Length = 1153

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 42/117 (35%), Gaps = 13/117 (11%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ IV+  HGVG    ++    AG   E   + +      L +PV       
Sbjct: 479 TEAQSLSPGDLIVHVDHGVGRYKGLETVTAAGAPHECIALEYAGGD-RLFLPVENIEL-- 535

Query: 69  MRKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              LS     +  L  + G A + K+     R +    K+    +   AE  R+L +
Sbjct: 536 ---LSRYGHDDGLLDKLGGGAWQAKKARLKERIRLIADKL----IRIAAE--RELRK 583


>gi|50913352|ref|YP_059324.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS10394]
 gi|50902426|gb|AAT86141.1| Transcription-repair coupling factor [Streptococcus pyogenes
           MGAS10394]
          Length = 1167

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|326778864|ref|ZP_08238129.1| transcription-repair coupling factor [Streptomyces cf. griseus
           XylebKG-1]
 gi|326659197|gb|EGE44043.1| transcription-repair coupling factor [Streptomyces cf. griseus
           XylebKG-1]
          Length = 1177

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 487 MPARRRKTIDPLTLEVGDYIVHEQHGVGRYVEMVQRTVQGATREYLLVEYAPAKRGQPGD 546

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 547 --RLYIPTDQLEQV 558


>gi|294677347|ref|YP_003577962.1| transcription-repair coupling factor [Rhodobacter capsulatus SB
           1003]
 gi|294476167|gb|ADE85555.1| transcription-repair coupling factor [Rhodobacter capsulatus SB
           1003]
          Length = 1148

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 41/124 (33%), Gaps = 22/124 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HGVG    ++     G   +  ++ +      L +PV       
Sbjct: 466 TEAQSLSPGDLVVHVDHGVGRYKGLETVTALGAPHDCVLLEYAGGD-RLYLPVENIE--- 521

Query: 69  MRKLSEAHFVER-ALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
              L   +  E   L  + G A      W    Q   AK+    +  IA+    L R  +
Sbjct: 522 ---LLSRYGHEEGLLDKLGGGA------W----QAKKAKLKE-RIRQIAD---RLMRIAA 564

Query: 128 QPEK 131
           +   
Sbjct: 565 ERLL 568


>gi|118619716|ref|YP_908048.1| transcription-repair coupling factor Mfd (TrcF) [Mycobacterium
           ulcerans Agy99]
 gi|118571826|gb|ABL06577.1| transcription-repair coupling factor Mfd (TrcF) [Mycobacterium
           ulcerans Agy99]
          Length = 1222

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 30/72 (41%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK-----DKM 55
           +  +++          G+ +V+  HG+G   E+ E+ V G + E+ V+ +          
Sbjct: 502 LAAKRRNTVDPLALTAGDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASARRGGGSD 561

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 562 KLYVPMDSLDQL 573


>gi|309389992|gb|ADO77872.1| transcription-repair coupling factor [Halanaerobium praevalens DSM
           2228]
          Length = 1160

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           ++G+++V+  HG+G    +K  E+     ++ V+ +  +   L VP  K   +
Sbjct: 498 KSGDYVVHENHGIGKYLGVKTLEIQNKHKDYLVLKYAGED-KLYVPTEKIDLV 549


>gi|300214981|gb|ADJ79397.1| Transcription-repair coupling factor [Lactobacillus salivarius CECT
           5713]
          Length = 908

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 23/123 (18%), Positives = 51/123 (41%), Gaps = 27/123 (21%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    +K  EV G   ++  I   +D   L +PV             
Sbjct: 231 KKGDYVVHVNHGIGRYIGMKTLEVGGHHHDYMTI-LYQDDAKLFIPVS------------ 277

Query: 75  AHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDS 127
              +++  K V  +++  R        W++  +    K     +  IA+ + DL+ + ++
Sbjct: 278 --QLDKIQKYVSSESKTPRVNKLGGSEWAKTKRRVANK-----IEDIADELVDLYAKREA 330

Query: 128 QPE 130
           +  
Sbjct: 331 EKG 333


>gi|319945976|ref|ZP_08020225.1| transcription-repair coupling factor [Streptococcus australis ATCC
           700641]
 gi|319747784|gb|EFW00029.1| transcription-repair coupling factor [Streptococcus australis ATCC
           700641]
          Length = 1170

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    ++  E++G+  ++  I +      + +PV +  
Sbjct: 495 GDYVVHQVHGIGQYLGLETIEISGVHRDYVSIQYQNGD-RISIPVDQIQ 542


>gi|297569280|ref|YP_003690624.1| transcription-repair coupling factor [Desulfurivibrio alkaliphilus
           AHT2]
 gi|296925195|gb|ADH86005.1| transcription-repair coupling factor [Desulfurivibrio alkaliphilus
           AHT2]
          Length = 1179

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
             GE +V+  HG+G    +K   + G+  ++  I +  D   L +PV +   +G
Sbjct: 493 NPGELVVHRRHGIGIYQGLKPIAINGITNDYLTIRYRGDD-KLFIPVDQINSVG 545


>gi|257460753|ref|ZP_05625854.1| transcription-repair-coupling factor [Campylobacter gracilis
           RM3268]
 gi|257442084|gb|EEV17226.1| transcription-repair-coupling factor [Campylobacter gracilis
           RM3268]
          Length = 986

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 27/116 (23%), Positives = 47/116 (40%), Gaps = 11/116 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +V+  HG+     ++  EV G   EF  + ++     L +PV     I  R ++ 
Sbjct: 348 NVGDFVVHEDHGIAKFNGLELIEVMGHSKEFVSLLYEGGD-KLLLPVEYLNKID-RYVAS 405

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA---EVVRDLHRTDS 127
              V      +    R   +    R +E    I S ++IA+A   E+VR L   + 
Sbjct: 406 GGAVS-----LDHLGRASFSKIKERVREKLFAIAS-NIIALAAKRELVRGLVIKNE 455


>gi|94993402|ref|YP_601500.1| transcription-repair coupling factor [Streptococcus pyogenes
           MGAS10750]
 gi|94546910|gb|ABF36956.1| Transcription-repair coupling factor [Streptococcus pyogenes
           MGAS10750]
          Length = 1167

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|56808860|ref|ZP_00366571.1| COG1197: Transcription-repair coupling factor (superfamily II
           helicase) [Streptococcus pyogenes M49 591]
          Length = 1167

 Score = 44.7 bits (105), Expect = 0.005,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|307295470|ref|ZP_07575306.1| transcription-repair coupling factor [Sphingobium chlorophenolicum
           L-1]
 gi|306878509|gb|EFN09729.1| transcription-repair coupling factor [Sphingobium chlorophenolicum
           L-1]
          Length = 1157

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 27/125 (21%), Positives = 46/125 (36%), Gaps = 19/125 (15%)

Query: 1   MTFQQKRDAMRQGF-------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +  + KR      F         G+ +V+  HG+G    + +  VA    +   + +   
Sbjct: 469 LVRRAKRKKNADAFLQELATLSPGDLVVHMDHGIGRYEGLTQIPVAKAAHDCVALEYAGG 528

Query: 54  KMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GD 111
              L VPV     +  R  S++  V   L  + G+A      W RR      +I    G+
Sbjct: 529 D-KLYVPVENLEVLS-RYGSDSEGVS--LDKLGGEA------WQRRKARMKERIREIAGE 578

Query: 112 LIAIA 116
           L+  A
Sbjct: 579 LLKTA 583


>gi|291445280|ref|ZP_06584670.1| transcriptional-repair coupling factor [Streptomyces roseosporus
           NRRL 15998]
 gi|291348227|gb|EFE75131.1| transcriptional-repair coupling factor [Streptomyces roseosporus
           NRRL 15998]
          Length = 1184

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 494 MPARRRKTIDPLTLEVGDYIVHEQHGVGRYVEMVQRTVQGATREYLLVEYAPAKRGQPGD 553

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 554 --RLYIPTDQLEQV 565


>gi|254469399|ref|ZP_05082804.1| transcription-repair coupling factor [Pseudovibrio sp. JE062]
 gi|211961234|gb|EEA96429.1| transcription-repair coupling factor [Pseudovibrio sp. JE062]
          Length = 1162

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 44/123 (35%), Gaps = 18/123 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
                   G+ +V+  HG+G    +K  E  G   +   + +      L +PV     + 
Sbjct: 488 TEASALSPGDLVVHVEHGIGRFIGLKTIEAVGAPHDCLELQYAGSD-KLYLPVENIELL- 545

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R  SE   V+  L  + G A      W  R     AK+    ++ IA+    L +  ++
Sbjct: 546 TRYGSEDQEVQ--LDKLGGGA------WQAR----KAKMKK-RILEIAD---GLIKIAAE 589

Query: 129 PEK 131
              
Sbjct: 590 RAL 592


>gi|209558593|ref|YP_002285065.1| Transcription-repair coupling factor [Streptococcus pyogenes NZ131]
 gi|209539794|gb|ACI60370.1| Transcription-repair coupling factor [Streptococcus pyogenes NZ131]
          Length = 1139

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  ++ G+  ++  I +      + +P+ +   +
Sbjct: 462 VGDYVVHNVHGIGRFLGIETIQIQGIHRDYVTIQYQNSD-RISLPIDQIGSL 512


>gi|225574874|ref|ZP_03783484.1| hypothetical protein RUMHYD_02952 [Blautia hydrogenotrophica DSM
           10507]
 gi|225037897|gb|EEG48143.1| hypothetical protein RUMHYD_02952 [Blautia hydrogenotrophica DSM
           10507]
          Length = 172

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 30/167 (17%), Positives = 57/167 (34%), Gaps = 20/167 (11%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKE-QEVAGMK--LEFFVIAFDKDKMCLKVPVGKAIDIGM 69
            F  G  IVY   GV  + EI     + G      ++ ++  +    + +PV    D+ M
Sbjct: 1   MFEKGACIVYGNTGVCRVEEIGPLSNIRGSHPGKIYYKLSPIRTGGTIYIPVDS--DMFM 58

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQE----YDAKINSGDLIAIAEVV------ 119
           R +      +    + R     +R   SR  +     Y A + +     +  ++      
Sbjct: 59  RPVMTREEADAL--IWRMPKICERVCSSRDQRVLNEHYKASLRTHSCEELVRLIKSVYVK 116

Query: 120 -RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
            R L +   +  K+  E +  + A   +  E+     I   E    I
Sbjct: 117 NRRLIKNGKKAGKTDLEYR--KKAEMLLYEELGVALGIPFEEVKEYI 161


>gi|182438215|ref|YP_001825934.1| putative transcriptional-repair coupling factor [Streptomyces
           griseus subsp. griseus NBRC 13350]
 gi|178466731|dbj|BAG21251.1| putative transcriptional-repair coupling factor [Streptomyces
           griseus subsp. griseus NBRC 13350]
          Length = 1177

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 487 MPARRRKTIDPLTLEVGDYIVHEQHGVGRYVEMVQRTVQGATREYLLVEYAPAKRGQPGD 546

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 547 --RLYIPTDQLEQV 558


>gi|239941833|ref|ZP_04693770.1| putative transcriptional-repair coupling factor [Streptomyces
           roseosporus NRRL 15998]
 gi|239988293|ref|ZP_04708957.1| putative transcriptional-repair coupling factor [Streptomyces
           roseosporus NRRL 11379]
          Length = 1177

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 487 MPARRRKTIDPLTLEVGDYIVHEQHGVGRYVEMVQRTVQGATREYLLVEYAPAKRGQPGD 546

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 547 --RLYIPTDQLEQV 558


>gi|329941162|ref|ZP_08290441.1| transcriptional-repair coupling factor [Streptomyces
           griseoaurantiacus M045]
 gi|329299693|gb|EGG43592.1| transcriptional-repair coupling factor [Streptomyces
           griseoaurantiacus M045]
          Length = 1176

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 486 MPARRRKTIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 546 --RLYIPTDQLEQI 557


>gi|154147968|ref|YP_001406057.1| transcription-repair coupling factor [Campylobacter hominis ATCC
           BAA-381]
 gi|153803977|gb|ABS50984.1| transcription-repair coupling factor [Campylobacter hominis ATCC
           BAA-381]
          Length = 986

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 38/93 (40%), Gaps = 7/93 (7%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K        + G+ +V+  +GV     ++  EV G K EF V+ +      L +PV   
Sbjct: 339 RKSSLAVDELQIGDFVVHENYGVAKFAGLELIEVLGSKSEFVVLEYFGGD-KLLLPVQNL 397

Query: 65  IDIGMRKLSEA-HFVERA----LKLVRGKARVK 92
             I  R ++     +++        ++ K R K
Sbjct: 398 NLID-RYIASGVATLDKLGKTGFAKIKEKVREK 429


>gi|313625455|gb|EFR95204.1| transcription-repair coupling factor [Listeria innocua FSL J1-023]
          Length = 899

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|313621017|gb|EFR92140.1| transcription-repair coupling factor [Listeria innocua FSL S4-378]
          Length = 899

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|325676609|ref|ZP_08156287.1| transcription-repair coupling factor [Rhodococcus equi ATCC 33707]
 gi|325552787|gb|EGD22471.1| transcription-repair coupling factor [Rhodococcus equi ATCC 33707]
          Length = 1225

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++          G+ +V+  HG+G   E+ E+ + G + E+ VI +   K      
Sbjct: 514 MPAKRRNQVDPLALTAGDMVVHDQHGIGRFVEMVERTIGGARREYLVIEYAASKRGHPGD 573

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 574 RLFVPMESLDQL 585


>gi|302519736|ref|ZP_07272078.1| transcription-repair coupling factor [Streptomyces sp. SPB78]
 gi|302428631|gb|EFL00447.1| transcription-repair coupling factor [Streptomyces sp. SPB78]
          Length = 1178

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 487 MPVRRRKSIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 546

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 547 --RLYIPTDQLEQI 558


>gi|256787262|ref|ZP_05525693.1| transcriptional-repair coupling factor [Streptomyces lividans TK24]
 gi|289771157|ref|ZP_06530535.1| transcription-repair coupling factor [Streptomyces lividans TK24]
 gi|289701356|gb|EFD68785.1| transcription-repair coupling factor [Streptomyces lividans TK24]
          Length = 1184

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 494 MPARRRKTIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 553

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 554 --RLYIPTDQLEQI 565


>gi|254819273|ref|ZP_05224274.1| hypothetical protein MintA_05066 [Mycobacterium intracellulare ATCC
           13950]
          Length = 1200

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 9/76 (11%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++          G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K      
Sbjct: 484 LAAKRRNTVDPLALTAGDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASSKNRGGAA 543

Query: 56  ----CLKVPVGKAIDI 67
                L VP+     +
Sbjct: 544 KNTDKLYVPMDSLDQL 559


>gi|312138702|ref|YP_004006038.1| transcription repair coupling factor mfd [Rhodococcus equi 103S]
 gi|311888041|emb|CBH47353.1| transcription repair coupling factor Mfd [Rhodococcus equi 103S]
          Length = 1228

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++          G+ +V+  HG+G   E+ E+ + G + E+ VI +   K      
Sbjct: 517 MPAKRRNQVDPLALTAGDMVVHDQHGIGRFVEMVERTIGGARREYLVIEYAASKRGHPGD 576

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 577 RLFVPMESLDQL 588


>gi|318060504|ref|ZP_07979227.1| transcription-repair coupling factor [Streptomyces sp. SA3_actG]
 gi|318077247|ref|ZP_07984579.1| transcription-repair coupling factor [Streptomyces sp. SA3_actF]
          Length = 1178

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 487 MPVRRRKSIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 546

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 547 --RLYIPTDQLEQI 558


>gi|289422646|ref|ZP_06424487.1| transcription-repair coupling factor [Peptostreptococcus anaerobius
           653-L]
 gi|289156946|gb|EFD05570.1| transcription-repair coupling factor [Peptostreptococcus anaerobius
           653-L]
          Length = 1133

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
              + G+++V+   GVG  T I++  V G+K ++  I +      L VP+ +   +
Sbjct: 491 MELKLGDYVVHENSGVGKYTGIEQVSVNGIKRDYIKIIYKGGD-NLYVPIDQMDKV 545


>gi|21221548|ref|NP_627327.1| transcriptional-repair coupling factor [Streptomyces coelicolor
           A3(2)]
 gi|10241792|emb|CAC09550.1| putative transcriptional-repair coupling factor [Streptomyces
           coelicolor A3(2)]
          Length = 1184

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 494 MPARRRKTIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 553

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 554 --RLYIPTDQLEQI 565


>gi|4090863|gb|AAC98900.1| transcription-repair coupling factor [Listeria monocytogenes]
          Length = 1190

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 513 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 564


>gi|289432962|ref|YP_003462835.1| transcription-repair coupling factor [Dehalococcoides sp. GT]
 gi|288946682|gb|ADC74379.1| transcription-repair coupling factor [Dehalococcoides sp. GT]
          Length = 1148

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 42/120 (35%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + GE +V+  HGV   + +      GM  E+ ++ +      L VP  +   +  R +  
Sbjct: 485 KPGEFVVHIDHGVALFSGVSHMNRDGMDKEYLILQYAGGD-KLYVPTDQMDRVN-RFIGS 542

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                          R+    W +RA+E      S      A   R+L    ++ E +  
Sbjct: 543 GDEPPSL-------HRLGTQEW-QRAKEK----ASESAEETA---RELLEIYAKRELASG 587


>gi|168213408|ref|ZP_02639033.1| transcription-repair coupling factor [Clostridium perfringens CPE
           str. F4969]
 gi|170715029|gb|EDT27211.1| transcription-repair coupling factor [Clostridium perfringens CPE
           str. F4969]
          Length = 1168

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 502 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 553


>gi|169343325|ref|ZP_02864335.1| transcription-repair coupling factor [Clostridium perfringens C
           str. JGS1495]
 gi|169298623|gb|EDS80704.1| transcription-repair coupling factor [Clostridium perfringens C
           str. JGS1495]
          Length = 1168

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 502 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 553


>gi|110799729|ref|YP_697172.1| transcription-repair coupling factor [Clostridium perfringens ATCC
           13124]
 gi|110674376|gb|ABG83363.1| transcription-repair coupling factor [Clostridium perfringens ATCC
           13124]
          Length = 1162

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 496 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 547


>gi|84497836|ref|ZP_00996633.1| putative transcriptional-repair coupling factor [Janibacter sp.
           HTCC2649]
 gi|84381336|gb|EAP97219.1| putative transcriptional-repair coupling factor [Janibacter sp.
           HTCC2649]
          Length = 1204

 Score = 44.7 bits (105), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 30/74 (40%), Gaps = 7/74 (9%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        + G+ +V+  HGVG   E+ ++ V G   E+ V+ +          
Sbjct: 504 MPSRRRNQVDPLQLKPGDFVVHEQHGVGKFVEMMQRTVQGATREYLVLEYAPGTRGKHSQ 563

Query: 56  --CLKVPVGKAIDI 67
              L VP  +   I
Sbjct: 564 PDRLFVPTDQLDQI 577


>gi|295101119|emb|CBK98664.1| transcription-repair coupling factor [Faecalibacterium prausnitzii
           L2-6]
          Length = 1161

 Score = 44.7 bits (105), Expect = 0.007,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 9/88 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+ +HG+G    I+  EV G   ++  I +    + L VPV +   +  R  + 
Sbjct: 488 KPGDYVVHQSHGIGMYAGIQRLEVQGAIKDYLKIQYSGSDV-LYVPVTQLDLLS-RYTAP 545

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQ 101
               +  L  + G      T W R RA+
Sbjct: 546 GDEEKVKLAKLGG------TEWQRTRAK 567


>gi|182420518|ref|ZP_02643226.2| transcription-repair coupling factor [Clostridium perfringens NCTC
           8239]
 gi|182380350|gb|EDT77829.1| transcription-repair coupling factor [Clostridium perfringens NCTC
           8239]
          Length = 1168

 Score = 44.7 bits (105), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 502 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 553


>gi|270308451|ref|YP_003330509.1| transcription-repair coupling factor (superfamily II helicase)
           [Dehalococcoides sp. VS]
 gi|270154343|gb|ACZ62181.1| transcription-repair coupling factor (superfamily II helicase)
           [Dehalococcoides sp. VS]
          Length = 1154

 Score = 44.7 bits (105), Expect = 0.007,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 39/101 (38%), Gaps = 14/101 (13%)

Query: 6   KRDAMRQG----FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           KR + R+G     + GE +V+  HGV   + +      GM  E+ ++ +      L VP 
Sbjct: 478 KRPSARKGVVLDIKPGEFVVHIDHGVALFSGVSHMNRDGMDKEYLILQYAGGD-KLYVPT 536

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQE 102
            +   +  R +                 R+    W +RA+E
Sbjct: 537 DQMDRVN-RFIGSGDEPPSL-------HRLGTQEW-QRAKE 568


>gi|149914914|ref|ZP_01903443.1| transcription-repair coupling factor [Roseobacter sp. AzwK-3b]
 gi|149811102|gb|EDM70939.1| transcription-repair coupling factor [Roseobacter sp. AzwK-3b]
          Length = 1155

 Score = 44.7 bits (105), Expect = 0.007,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 44/118 (37%), Gaps = 15/118 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HGVG    ++    AG   E  ++ + +    L +PV       
Sbjct: 471 TEAQSLSPGDLVVHVDHGVGRYQGLEVITAAGAAHECLLLEYAEGS-KLYLPVENIE--- 526

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              L      E   L  + G A + K+     R +E   ++    +   AE  R+L R
Sbjct: 527 ---LLSRFGHEEGLLDKLGGGAWQAKKARLKERIREMADRL----IRIAAE--RELRR 575


>gi|182624347|ref|ZP_02952132.1| transcription-repair coupling factor [Clostridium perfringens D
           str. JGS1721]
 gi|177910565|gb|EDT72938.1| transcription-repair coupling factor [Clostridium perfringens D
           str. JGS1721]
          Length = 1168

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 502 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 553


>gi|170763931|ref|ZP_02635347.2| transcription-repair coupling factor [Clostridium perfringens B
           str. ATCC 3626]
 gi|170764087|ref|ZP_02631749.2| transcription-repair coupling factor [Clostridium perfringens E
           str. JGS1987]
 gi|170662722|gb|EDT15405.1| transcription-repair coupling factor [Clostridium perfringens E
           str. JGS1987]
 gi|170712080|gb|EDT24262.1| transcription-repair coupling factor [Clostridium perfringens B
           str. ATCC 3626]
          Length = 1168

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 502 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 553


>gi|160914796|ref|ZP_02077010.1| hypothetical protein EUBDOL_00803 [Eubacterium dolichum DSM 3991]
 gi|158433336|gb|EDP11625.1| hypothetical protein EUBDOL_00803 [Eubacterium dolichum DSM 3991]
          Length = 1143

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 22/98 (22%), Positives = 40/98 (40%), Gaps = 9/98 (9%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  HG+G    I  +E+ G+  +F  IA+  D + L VP+ +     +RK
Sbjct: 476 QELNVGDYVVHHQHGIGKYLGIVNKEIDGIHKDFLHIAYKGDDV-LLVPLEQFQL--IRK 532

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS 109
                     L  +          W +  ++   KI  
Sbjct: 533 FVSKEGAVPKLNKLGSGE------WEKTKRKVSEKIAQ 564


>gi|110803113|ref|YP_699740.1| transcription-repair coupling factor [Clostridium perfringens
           SM101]
 gi|110683614|gb|ABG86984.1| transcription-repair coupling factor [Clostridium perfringens
           SM101]
          Length = 1162

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 496 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 547


>gi|18311466|ref|NP_563400.1| transcription-repair coupling factor [Clostridium perfringens str.
           13]
 gi|18146150|dbj|BAB82190.1| transcription-repair coupling factor [Clostridium perfringens str.
           13]
          Length = 1162

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   G+G    IK+ EV G K ++  I + K    L VPV +   +
Sbjct: 496 KPGDYVVHVNSGIGVYKGIKQIEVQGHKRDYLDIEYSKGD-KLYVPVEQLDLV 547


>gi|326202452|ref|ZP_08192321.1| transcription-repair coupling factor [Clostridium papyrosolvens DSM
           2782]
 gi|325987570|gb|EGD48397.1| transcription-repair coupling factor [Clostridium papyrosolvens DSM
           2782]
          Length = 1174

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+ +V+ AHG+G    I++  V  +K ++  I + +    L +P  +  
Sbjct: 505 NVGDFVVHQAHGIGQYIGIEKLSVGEIKRDYLKIRYQEGDF-LYIPTNQLD 554


>gi|254486916|ref|ZP_05100121.1| transcription-repair coupling factor [Roseobacter sp. GAI101]
 gi|214043785|gb|EEB84423.1| transcription-repair coupling factor [Roseobacter sp. GAI101]
          Length = 1174

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 45/118 (38%), Gaps = 15/118 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + ++   L +PV       
Sbjct: 491 TETQSLTPGDLVVHVDHGIGRYLGMEVITAAGAAHECLLLEYAENS-KLYLPVENIE--- 546

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              L   +  +   L  + G A + K+     R +E   K+    +   AE  R L R
Sbjct: 547 ---LLSKYGHDEGLLDKLGGGAWQSKKARLKERIREMADKL----IRIAAE--RALRR 595


>gi|147669732|ref|YP_001214550.1| transcription-repair coupling factor [Dehalococcoides sp. BAV1]
 gi|146270680|gb|ABQ17672.1| transcription-repair coupling factor [Dehalococcoides sp. BAV1]
          Length = 1148

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 42/120 (35%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + GE +V+  HGV   + +      GM  E+ ++ +      L VP  +   +  R +  
Sbjct: 485 KPGEFVVHIDHGVALFSGVSHMNRDGMDKEYLILQYAGGD-KLYVPTDQMDRVN-RFIGS 542

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                          R+    W +RA+E      S      A   R+L    ++ E +  
Sbjct: 543 GDEPPSL-------HRLGTQEW-QRAKEK----ASESAEETA---RELLEIYAKRELASG 587


>gi|139472894|ref|YP_001127609.1| transcription-repair coupling factor [Streptococcus pyogenes str.
           Manfredo]
 gi|134271140|emb|CAM29350.1| putative transcription-repair coupling factor [Streptococcus
           pyogenes str. Manfredo]
          Length = 1167

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 10/52 (19%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  +V G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQVQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|91977093|ref|YP_569752.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           BisB5]
 gi|91683549|gb|ABE39851.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           BisB5]
          Length = 1172

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 24/102 (23%), Positives = 43/102 (42%), Gaps = 12/102 (11%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    ++  EV G   +   + +  +   L +PV     +  R  S+  
Sbjct: 503 GDIVVHVEHGIGRFIGLQTLEVGGAPHDCVELHYA-NDTKLFLPVENIELLS-RYGSDGT 560

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
            VE  L  + G      + W  R  +   +I    G+LI +A
Sbjct: 561 NVE--LDKLGG------SGWQARKAKLKNRIRQIAGELIKVA 594


>gi|307244035|ref|ZP_07526154.1| transcription-repair coupling factor [Peptostreptococcus stomatis
           DSM 17678]
 gi|306492559|gb|EFM64593.1| transcription-repair coupling factor [Peptostreptococcus stomatis
           DSM 17678]
          Length = 1134

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+   GVG  T I++  V  +K ++  I +      L VP+ +   +
Sbjct: 494 KVGDYVVHENSGVGKYTGIEQITVNNIKRDYLKIVYQGGD-NLYVPIDQMDKV 545


>gi|188584709|ref|YP_001916254.1| transcription-repair coupling factor [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|179349396|gb|ACB83666.1| transcription-repair coupling factor [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 1196

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +  +  +++V+  HG+G    IK  EV G+  ++  I +  +   L VP  +  +I
Sbjct: 511 RELQVEDYVVHEKHGIGKYMGIKTLEVGGLYKDYLHIKYAGNDS-LYVPTEQIDEI 565


>gi|315501932|ref|YP_004080819.1| transcription-repair coupling factor [Micromonospora sp. L5]
 gi|315408551|gb|ADU06668.1| transcription-repair coupling factor [Micromonospora sp. L5]
          Length = 1218

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        + G+ +V+  HG+G   E+ ++ V G   E+ VI +   K      
Sbjct: 517 MPSRRRNTIDPLELKAGDFVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSKRGQPGD 576

Query: 56  CLKVPVGKAIDI 67
            L VP  +   +
Sbjct: 577 RLFVPTDQLDQL 588


>gi|260575079|ref|ZP_05843080.1| transcription-repair coupling factor [Rhodobacter sp. SW2]
 gi|259022701|gb|EEW25996.1| transcription-repair coupling factor [Rhodobacter sp. SW2]
          Length = 1147

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 26/124 (20%), Positives = 42/124 (33%), Gaps = 22/124 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HGVG    ++     G   E   + + ++   L +PV       
Sbjct: 472 AEVNSLSPGDLVVHVEHGVGRFRGLETIMALGAPHECLALEYAENA-RLYLPVENIE--- 527

Query: 69  MRKLSEAHFVER-ALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
              L   +  E   L  + G A      W    Q   AK+    +  IAE    L R  +
Sbjct: 528 ---LLSRYGHEEGLLDRLGGGA------W----QAKKAKLKD-RIREIAE---RLMRIAA 570

Query: 128 QPEK 131
           +   
Sbjct: 571 ERHL 574


>gi|255520464|ref|ZP_05387701.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           J1-175]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|254829305|ref|ZP_05233992.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           N3-165]
 gi|258601718|gb|EEW15043.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           N3-165]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|46906446|ref|YP_012835.1| transcription-repair coupling factor [Listeria monocytogenes
           serotype 4b str. F2365]
 gi|226222843|ref|YP_002756950.1| transcription-repair coupling factor [Listeria monocytogenes
           Clip81459]
 gi|254825872|ref|ZP_05230873.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           J1-194]
 gi|254854444|ref|ZP_05243792.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           R2-503]
 gi|254933054|ref|ZP_05266413.1| transcription-repair coupling factor [Listeria monocytogenes
           HPB2262]
 gi|300766347|ref|ZP_07076306.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           N1-017]
 gi|46879710|gb|AAT03012.1| transcription-repair coupling factor [Listeria monocytogenes
           serotype 4b str. F2365]
 gi|225875305|emb|CAS04002.1| transcription-repair coupling factor [Listeria monocytogenes
           serotype 4b str. CLIP 80459]
 gi|258607844|gb|EEW20452.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           R2-503]
 gi|293584612|gb|EFF96644.1| transcription-repair coupling factor [Listeria monocytogenes
           HPB2262]
 gi|293595111|gb|EFG02872.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           J1-194]
 gi|300512946|gb|EFK40034.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           N1-017]
 gi|332310623|gb|EGJ23718.1| Transcription-repair-coupling factor [Listeria monocytogenes str.
           Scott A]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|328467970|gb|EGF38997.1| transcription-repair coupling factor [Listeria monocytogenes 1816]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|302865387|ref|YP_003834024.1| transcription-repair coupling factor [Micromonospora aurantiaca
           ATCC 27029]
 gi|302568246|gb|ADL44448.1| transcription-repair coupling factor [Micromonospora aurantiaca
           ATCC 27029]
          Length = 1218

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        + G+ +V+  HG+G   E+ ++ V G   E+ VI +   K      
Sbjct: 517 MPSRRRNTIDPLELKAGDFVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSKRGQPGD 576

Query: 56  CLKVPVGKAIDI 67
            L VP  +   +
Sbjct: 577 RLFVPTDQLDQL 588


>gi|116871596|ref|YP_848377.1| transcription-repair coupling factor [Listeria welshimeri serovar
           6b str. SLCC5334]
 gi|116740474|emb|CAK19594.1| transcription-repair coupling factor [Listeria welshimeri serovar
           6b str. SLCC5334]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|16799323|ref|NP_469591.1| transcription-repair coupling factor [Listeria innocua Clip11262]
 gi|16412675|emb|CAC95479.1| transcription-repair coupling factor [Listeria innocua Clip11262]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|47093156|ref|ZP_00230931.1| transcription-repair coupling factor [Listeria monocytogenes str.
           4b H7858]
 gi|47018463|gb|EAL09221.1| transcription-repair coupling factor [Listeria monocytogenes str.
           4b H7858]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|306826404|ref|ZP_07459718.1| transcription-repair coupling factor [Streptococcus pyogenes ATCC
           10782]
 gi|304431399|gb|EFM34394.1| transcription-repair coupling factor [Streptococcus pyogenes ATCC
           10782]
          Length = 1167

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 10/52 (19%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I+  +V G+  ++  I +      + +P+ +   +
Sbjct: 490 VGDYVVHNVHGIGRFLGIETIQVQGIHRDYVTIQYQNSD-RISLPIDQIGSL 540


>gi|85705340|ref|ZP_01036439.1| transcription-repair coupling factor [Roseovarius sp. 217]
 gi|85670213|gb|EAQ25075.1| transcription-repair coupling factor [Roseovarius sp. 217]
          Length = 1150

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 44/118 (37%), Gaps = 15/118 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  V+ + +    L +PV       
Sbjct: 470 TEAQSLSIGDLVVHVDHGIGRYLGLEVVTAAGAAHECLVLEYAESS-KLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              L   +  E   L  + G A + K+     R +E   ++    +   AE  R L R
Sbjct: 526 ---LLSKYGHEEGFLDRLGGGAWQAKKARLKERIREMADRL----IRVAAE--RALRR 574


>gi|47096207|ref|ZP_00233806.1| transcription-repair coupling factor [Listeria monocytogenes str.
           1/2a F6854]
 gi|224500335|ref|ZP_03668684.1| transcription-repair coupling factor [Listeria monocytogenes
           Finland 1988]
 gi|254901001|ref|ZP_05260925.1| transcription-repair coupling factor [Listeria monocytogenes J0161]
 gi|254913931|ref|ZP_05263943.1| transcription-repair coupling factor [Listeria monocytogenes J2818]
 gi|47015455|gb|EAL06389.1| transcription-repair coupling factor [Listeria monocytogenes str.
           1/2a F6854]
 gi|293591949|gb|EFG00284.1| transcription-repair coupling factor [Listeria monocytogenes J2818]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|316934177|ref|YP_004109159.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           DX-1]
 gi|315601891|gb|ADU44426.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           DX-1]
          Length = 1172

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 24/104 (23%), Positives = 44/104 (42%), Gaps = 12/104 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            TG+ +V+  HG+G    ++  +V G   +   + +  +   L +PV     +  R  S+
Sbjct: 501 STGDIVVHVEHGIGRFVGLQTLQVGGAPHDCVELHYA-NDTKLFLPVENIELLS-RYGSD 558

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
              VE  L  + G      + W  R  +   +I    G+LI +A
Sbjct: 559 GTTVE--LDKLGG------SGWQARKAKLKNRIRQIAGELIKVA 594


>gi|290894278|ref|ZP_06557245.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           J2-071]
 gi|290556162|gb|EFD89709.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           J2-071]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|217965700|ref|YP_002351378.1| transcription-repair coupling factor [Listeria monocytogenes HCC23]
 gi|217334970|gb|ACK40764.1| transcription-repair coupling factor [Listeria monocytogenes HCC23]
 gi|307569753|emb|CAR82932.1| transcription-repair coupling factor [Listeria monocytogenes L99]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|254832465|ref|ZP_05237120.1| transcription-repair coupling factor [Listeria monocytogenes
           10403S]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|295838353|ref|ZP_06825286.1| transcription-repair coupling factor [Streptomyces sp. SPB74]
 gi|295826975|gb|EDY42784.2| transcription-repair coupling factor [Streptomyces sp. SPB74]
          Length = 1108

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 490 MPVRRRKSIDPLTLETGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 549

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 550 --RLYIPTDQLEQI 561


>gi|16802260|ref|NP_463745.1| transcription-repair coupling factor [Listeria monocytogenes EGD-e]
 gi|224503466|ref|ZP_03671773.1| transcription-repair coupling factor [Listeria monocytogenes FSL
           R2-561]
 gi|284803047|ref|YP_003414912.1| transcription-repair coupling factor [Listeria monocytogenes
           08-5578]
 gi|284996188|ref|YP_003417956.1| transcription-repair coupling factor [Listeria monocytogenes
           08-5923]
 gi|16409579|emb|CAD00741.1| transcription-repair coupling factor [Listeria monocytogenes EGD-e]
 gi|284058609|gb|ADB69550.1| transcription-repair coupling factor [Listeria monocytogenes
           08-5578]
 gi|284061655|gb|ADB72594.1| transcription-repair coupling factor [Listeria monocytogenes
           08-5923]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|308271395|emb|CBX28003.1| hypothetical protein N47_G33270 [uncultured Desulfobacterium sp.]
          Length = 1171

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 31/123 (25%), Positives = 53/123 (43%), Gaps = 24/123 (19%)

Query: 3   FQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
             ++  +M   F   + G+ +V+  HG+G    I +  V G   +F +I   KD   L +
Sbjct: 490 SARRPASMIIAFEDLKKGDLVVHNDHGIGQYEGIAKLTVDGSTNDFLLI-LYKDDDRLYL 548

Query: 60  PVGKAIDI----GMRKLSEAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKINSGDL 112
           PV K   +    G+ ++         L  + GKA      W R   RA++   KI  G+L
Sbjct: 549 PVDKMNMVFKYMGVDEIVP------VLDKMGGKA------WDRVKERAKKSAEKIA-GEL 595

Query: 113 IAI 115
           + +
Sbjct: 596 LKL 598


>gi|46205180|ref|ZP_00048899.2| COG1197: Transcription-repair coupling factor (superfamily II
           helicase) [Magnetospirillum magnetotacticum MS-1]
          Length = 312

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 25/111 (22%), Positives = 42/111 (37%), Gaps = 21/111 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    +K    AG   +   + +      L +PV       +  
Sbjct: 193 QALQPGDLVVHADHGIGRFVGLKTVTAAGAPHDCLELQYAGG--LLLLPVENIE---LLT 247

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
              +   E AL  + G A      W  R     AK+       +G+LI +A
Sbjct: 248 RYGSEDSEVALDRLGGGA------WQAR----KAKMKRRILEMAGELIKVA 288


>gi|315640551|ref|ZP_07895659.1| transcription-repair coupling factor [Enterococcus italicus DSM
           15952]
 gi|315483755|gb|EFU74243.1| transcription-repair coupling factor [Enterococcus italicus DSM
           15952]
          Length = 1179

 Score = 44.4 bits (104), Expect = 0.007,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I   ++   L +PV +   I
Sbjct: 497 KTGDYVVHENHGIGKYIGMETLEVDGVHQDYLTI-IYQNDDKLFIPVTQLNMI 548


>gi|255527537|ref|ZP_05394404.1| peptidase M16 domain protein [Clostridium carboxidivorans P7]
 gi|296187923|ref|ZP_06856315.1| peptidase M16 inactive domain protein [Clostridium carboxidivorans
           P7]
 gi|255508775|gb|EET85148.1| peptidase M16 domain protein [Clostridium carboxidivorans P7]
 gi|296047049|gb|EFG86491.1| peptidase M16 inactive domain protein [Clostridium carboxidivorans
           P7]
          Length = 407

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 24/104 (23%), Positives = 47/104 (45%), Gaps = 10/104 (9%)

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL---HRTDSQP 129
           + A  V++A+ L+  K R  +   ++R      KI +  L    ++ R L          
Sbjct: 304 TSAENVDKAINLINEKIREIK---NKRGYFNTEKIKA--LSKNIKLKRQLKLERAIQLCK 358

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
           E S  E  +Y+ A   + +E+  + +I+E + I +I   L++ S
Sbjct: 359 ELSTYE-IMYDDAEK-LYKEVEGLENINEEKIIEVINKVLNNPS 400


>gi|210632828|ref|ZP_03297561.1| hypothetical protein COLSTE_01465 [Collinsella stercoris DSM 13279]
 gi|210159387|gb|EEA90358.1| hypothetical protein COLSTE_01465 [Collinsella stercoris DSM 13279]
          Length = 167

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 29/168 (17%), Positives = 54/168 (32%), Gaps = 26/168 (15%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC---LKVPVGKAIDIGM 69
            F  G+H+++P  GV T+T   E           +++  K       L  P+ +     +
Sbjct: 1   MFHVGQHVIHPGQGVCTVTGFTE----DAVHPMILLS-AKSGHTETHLMYPLAQQDR--L 53

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDA-----KINSGDLIAIAEVVRDLHR 124
             +      E    L+ G A +    ++ R    +      ++  G       V + +  
Sbjct: 54  HAVISREDAE---DLLGGYADLDVDTFTERNSSLEETHFKQQLKLGAP-ETVRVAKTMRA 109

Query: 125 T------DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
                    +   SY  R + + A  R V E A    + E       E
Sbjct: 110 RISEAEAHGKKPSSYYTR-VLKEARRRSVEEFAVALHVDEDAVEERFE 156


>gi|227891598|ref|ZP_04009403.1| transcription-repair coupling factor [Lactobacillus salivarius ATCC
           11741]
 gi|227866745|gb|EEJ74166.1| transcription-repair coupling factor [Lactobacillus salivarius ATCC
           11741]
          Length = 1174

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 22/123 (17%), Positives = 51/123 (41%), Gaps = 27/123 (21%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    ++  EV G   ++  I   +D   L +PV             
Sbjct: 497 KKGDYVVHVNHGIGRYMGMQTLEVGGHHHDYMTI-LYQDDAKLFIPVS------------ 543

Query: 75  AHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDS 127
              +++  K V  +++  R        W++  +    K     +  IA+ + DL+ + ++
Sbjct: 544 --QLDKIQKYVSSESKTPRVNKLGGSEWAKTKRRVANK-----IEDIADELVDLYAKREA 596

Query: 128 QPE 130
           +  
Sbjct: 597 EKG 599


>gi|90962332|ref|YP_536248.1| transcription-repair coupling factor [Lactobacillus salivarius
           UCC118]
 gi|90821526|gb|ABE00165.1| Transcription-repair coupling factor [Lactobacillus salivarius
           UCC118]
          Length = 1174

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 22/123 (17%), Positives = 51/123 (41%), Gaps = 27/123 (21%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    ++  EV G   ++  I   +D   L +PV             
Sbjct: 497 KKGDYVVHVNHGIGRYMGMQTLEVGGHHHDYMTI-LYQDDAKLFIPVS------------ 543

Query: 75  AHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDS 127
              +++  K V  +++  R        W++  +    K     +  IA+ + DL+ + ++
Sbjct: 544 --QLDKIQKYVSSESKTPRVNKLGGSEWAKTKRRVANK-----IEDIADELVDLYAKREA 596

Query: 128 QPE 130
           +  
Sbjct: 597 EKG 599


>gi|289433569|ref|YP_003463441.1| transcription-repair coupling factor [Listeria seeligeri serovar
           1/2b str. SLCC3954]
 gi|289169813|emb|CBH26351.1| transcription-repair coupling factor [Listeria seeligeri serovar
           1/2b str. SLCC3954]
          Length = 1178

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 502 KVGDYVVHINHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 553


>gi|255262960|ref|ZP_05342302.1| transcription-repair coupling factor [Thalassiobium sp. R2A62]
 gi|255105295|gb|EET47969.1| transcription-repair coupling factor [Thalassiobium sp. R2A62]
          Length = 1151

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 27/124 (21%), Positives = 45/124 (36%), Gaps = 22/124 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HGVG    ++    AG   E  ++ + + +  L +PV       
Sbjct: 472 TETQSLTPGDLVVHVDHGVGRFRGLEVVTAAGAAHECLLLEYAE-QSKLYLPVENIE--- 527

Query: 69  MRKLSEAHFVER-ALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
              L   +  +   L  + G A      W    Q   AK+    +  IAE    L R  +
Sbjct: 528 ---LLSKYGHDEGLLDKLGGGA------W----QAKKAKLKE-RIRQIAE---RLIRVAA 570

Query: 128 QPEK 131
           + E 
Sbjct: 571 EREL 574


>gi|67458759|ref|YP_246383.1| transcription-repair coupling factor [Rickettsia felis URRWXCal2]
 gi|75536784|sp|Q4UMJ0|MFD_RICFE RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|67004292|gb|AAY61218.1| Transcription-repair coupling factor [Rickettsia felis URRWXCal2]
          Length = 1142

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 49/118 (41%), Gaps = 20/118 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV          + + +
Sbjct: 460 GEFVVHKDHGIGQFLKLEALEIKGKLHDFLKILYAGND-KLYIPVENIE------VIKKY 512

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             + A        ++  + W +R++    K+       I E+   L +  ++ + + S
Sbjct: 513 GNDNA-----ELDKLGSSSW-QRSKA---KLK----NRIKEIALHLIQIAAKRKLNSS 557


>gi|301300308|ref|ZP_07206515.1| transcription-repair coupling factor [Lactobacillus salivarius
           ACS-116-V-Col5a]
 gi|300852081|gb|EFK79758.1| transcription-repair coupling factor [Lactobacillus salivarius
           ACS-116-V-Col5a]
          Length = 1174

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 22/123 (17%), Positives = 51/123 (41%), Gaps = 27/123 (21%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    ++  EV G   ++  I   +D   L +PV             
Sbjct: 497 KKGDYVVHVNHGIGRYMGMQTLEVGGHHHDYMTI-LYQDDAKLFIPVS------------ 543

Query: 75  AHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDS 127
              +++  K V  +++  R        W++  +    K     +  IA+ + DL+ + ++
Sbjct: 544 --QLDKIQKYVSSESKTPRVNKLGGSEWAKTKRRVANK-----IEDIADELVDLYAKREA 596

Query: 128 QPE 130
           +  
Sbjct: 597 EKG 599


>gi|227512317|ref|ZP_03942366.1| transcription-repair coupling factor [Lactobacillus buchneri ATCC
           11577]
 gi|227084492|gb|EEI19804.1| transcription-repair coupling factor [Lactobacillus buchneri ATCC
           11577]
          Length = 1168

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    +K  EV G   ++  I++ +D   L +PV +   I
Sbjct: 488 KPGDYVVHVNHGIGRYEGMKTMEVDGKHQDYLTISY-RDSAKLFIPVTQLNMI 539


>gi|227522403|ref|ZP_03952452.1| transcription-repair coupling factor [Lactobacillus hilgardii ATCC
           8290]
 gi|227090461|gb|EEI25773.1| transcription-repair coupling factor [Lactobacillus hilgardii ATCC
           8290]
          Length = 1168

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    +K  EV G   ++  I++ +D   L +PV +   I
Sbjct: 488 KPGDYVVHVNHGIGRYEGMKTMEVDGKHQDYLTISY-RDSAKLFIPVTQLNMI 539


>gi|152991203|ref|YP_001356925.1| transcription-repair coupling factor [Nitratiruptor sp. SB155-2]
 gi|151423064|dbj|BAF70568.1| transcription-repair coupling factor [Nitratiruptor sp. SB155-2]
          Length = 976

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 27/122 (22%), Positives = 51/122 (41%), Gaps = 17/122 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G ++V+  HG+G    +K  E+ G K +F  + +      L VPV     +  R +++
Sbjct: 343 QPGSYVVHEQHGIGIFKGLKAIEILGAKRDFVELEYAGGD-KLLVPVENLDVLS-RYIAD 400

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +  V    KL            S+   +  AK+    L  IA    D+ +  +Q E +  
Sbjct: 401 SGSVAVVDKLG-----------SQSFAKLKAKVKE-RLFEIAA---DIVKIAAQRELTPG 445

Query: 135 ER 136
           ++
Sbjct: 446 KK 447


>gi|333026450|ref|ZP_08454514.1| putative transcriptional-repair coupling factor [Streptomyces sp.
           Tu6071]
 gi|332746302|gb|EGJ76743.1| putative transcriptional-repair coupling factor [Streptomyces sp.
           Tu6071]
          Length = 1181

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        TG++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 490 MPVRRRKSIDPLTLETGDYIVHVQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 549

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 550 --RLYIPTDQLEQI 561


>gi|90424109|ref|YP_532479.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           BisB18]
 gi|90106123|gb|ABD88160.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           BisB18]
          Length = 1172

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 25/115 (21%), Positives = 45/115 (39%), Gaps = 18/115 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    ++  EV G   +   + +  D   L +PV     +  R  S+  
Sbjct: 503 GDLVVHVEHGIGRFVGLQTLEVGGAPHDCLELHYAADT-KLFLPVENIELLS-RYGSDHA 560

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
            VE  L  + G      + W  R     AK+       I E+  +L +  ++   
Sbjct: 561 HVE--LDRLGG------SGWQAR----KAKLK----NRIREMAGELIKIAAERHL 599


>gi|309808765|ref|ZP_07702651.1| putative transcription-repair coupling factor [Lactobacillus iners
           LactinV 01V1-a]
 gi|308168001|gb|EFO70133.1| putative transcription-repair coupling factor [Lactobacillus iners
           LactinV 01V1-a]
          Length = 708

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGQKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|118471657|ref|YP_889663.1| transcription-repair coupling factor [Mycobacterium smegmatis str.
           MC2 155]
 gi|118172944|gb|ABK73840.1| transcription-repair coupling factor [Mycobacterium smegmatis str.
           MC2 155]
          Length = 1215

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K       L VP+     +
Sbjct: 518 GDLVVHDQHGIGKFVEMTERVVGGARREYLVLEYASSKRGGGTDKLYVPMDSLDQL 573


>gi|330465805|ref|YP_004403548.1| transcription-repair coupling factor [Verrucosispora maris
           AB-18-032]
 gi|328808776|gb|AEB42948.1| transcription-repair coupling factor [Verrucosispora maris
           AB-18-032]
          Length = 1232

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  +++        R G+H+V+  HG+G   E+ ++ V G   E+ VI +   K      
Sbjct: 535 MPSRRRNTIDPLELRAGDHVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSKRGQPGD 594

Query: 56  CLKVPVGKAIDI 67
            L VP  +   +
Sbjct: 595 RLFVPTDQLDQL 606


>gi|227509305|ref|ZP_03939354.1| transcription-repair coupling factor [Lactobacillus brevis subsp.
           gravesensis ATCC 27305]
 gi|227191235|gb|EEI71302.1| transcription-repair coupling factor [Lactobacillus brevis subsp.
           gravesensis ATCC 27305]
          Length = 1168

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    +K  EV G   ++  I++ +D   L +PV +   I
Sbjct: 488 KPGDYVVHVNHGIGRYEGMKTMEVDGKHQDYLTISY-RDSAKLFIPVTQLNMI 539


>gi|313112804|ref|ZP_07798451.1| transcription-repair coupling factor [Faecalibacterium cf.
           prausnitzii KLE1255]
 gi|310624874|gb|EFQ08182.1| transcription-repair coupling factor [Faecalibacterium cf.
           prausnitzii KLE1255]
          Length = 1157

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 7/70 (10%)

Query: 2   TFQQKRDAMRQGF------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
              +KR   R         + G+++V+ +HG+G    I+  EV G   ++  + +    +
Sbjct: 470 AETKKRKKNRNALSSLSDIKPGDYVVHQSHGIGMYAGIQRLEVQGATKDYLKVQYSGSDV 529

Query: 56  CLKVPVGKAI 65
            L VPV +  
Sbjct: 530 -LYVPVTQLD 538


>gi|242309312|ref|ZP_04808467.1| transcription-repair coupling factor [Helicobacter pullorum MIT
           98-5489]
 gi|239524353|gb|EEQ64219.1| transcription-repair coupling factor [Helicobacter pullorum MIT
           98-5489]
          Length = 1008

 Score = 44.4 bits (104), Expect = 0.008,   Method: Composition-based stats.
 Identities = 18/100 (18%), Positives = 43/100 (43%), Gaps = 11/100 (11%)

Query: 2   TFQQKRDAMR---QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
           T Q+K+ A +      + G+++V+  +GV     I +  + G   +F  + +  +   L 
Sbjct: 358 TKQKKKFANKILIDELKVGDYVVHIDYGVALFNGIVQANIFGATRDFIELKYLGED-KLL 416

Query: 59  VPVGKAIDIGMRKLSEAH--FVERA----LKLVRGKARVK 92
           +PV     I  R +++     +++        ++ K + K
Sbjct: 417 LPVENLDRID-RYIADGGIPILDKLGKGSFARLKEKVKEK 455


>gi|89068292|ref|ZP_01155702.1| transcription-repair coupling factor [Oceanicola granulosus
           HTCC2516]
 gi|89046209|gb|EAR52267.1| transcription-repair coupling factor [Oceanicola granulosus
           HTCC2516]
          Length = 1151

 Score = 44.4 bits (104), Expect = 0.009,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HGVG    ++    AG   E  V+ + +    L +PV       
Sbjct: 475 TETQSLGPGDLVVHVDHGVGRYRGLEVITAAGAAHECLVLEYAEGA-KLYLPVENIE--- 530

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   ++
Sbjct: 531 ---LLSRYGHEEGLLDRLGGGAWQAKKARLKERIREMAERL 568


>gi|311898036|dbj|BAJ30444.1| putative transcription-repair-coupling factor [Kitasatospora setae
           KM-6054]
          Length = 1202

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  +++          G+++V+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 506 MPSRRRNAIDPLALAAGDYVVHEQHGVGRYVEMVQRTVQGATREYLVLEYAPAKRGHPGD 565

Query: 54  KMCLKVPVGKAIDI 67
              L VP  +   +
Sbjct: 566 --RLFVPTDQLDQV 577


>gi|328956571|ref|YP_004373957.1| transcription-repair coupling factor [Carnobacterium sp. 17-4]
 gi|328672895|gb|AEB28941.1| transcription-repair coupling factor [Carnobacterium sp. 17-4]
          Length = 1173

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
             G+++V+  HG+G  T ++  E+ G+  ++  I   KD   L +PV
Sbjct: 499 NPGDYVVHVNHGIGKYTGMETLEIDGIHQDYMSI-IYKDDAKLFIPV 544


>gi|126729844|ref|ZP_01745657.1| transcription-repair coupling factor [Sagittula stellata E-37]
 gi|126709963|gb|EBA09016.1| transcription-repair coupling factor [Sagittula stellata E-37]
          Length = 1159

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 478 TEHQSLSPGDLVVHVDHGIGRYMGMEVITAAGSPHECLLLQYAE-DAKLYLPVENIE--- 533

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   ++
Sbjct: 534 ---LLSKYGHDEGLLDRLGGGAWQAKKAKLKERIREMADRL 571


>gi|87199999|ref|YP_497256.1| transcription-repair coupling factor [Novosphingobium
           aromaticivorans DSM 12444]
 gi|87135680|gb|ABD26422.1| transcription-repair coupling factor [Novosphingobium
           aromaticivorans DSM 12444]
          Length = 1164

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 24/127 (18%), Positives = 43/127 (33%), Gaps = 20/127 (15%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    ++   V     +   + +      L +PV     + 
Sbjct: 484 AELSALTPGDLVVHMDHGIGRYIGLEAVAVGASPHDCVQLEYAGGD-KLYIPVENLDVLS 542

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRR-AQEYDAKINSGDLIAIAEVVRDLHRTDS 127
            R  S+A  V   L  + G+A      W RR A+  +  +         E+   L  T +
Sbjct: 543 -RYGSDAEGVS--LDKLGGEA------WQRRKARMRERIL---------EMAGQLMATAA 584

Query: 128 QPEKSYS 134
                  
Sbjct: 585 HRALRQG 591


>gi|254293942|ref|YP_003059965.1| transcription-repair coupling factor [Hirschia baltica ATCC 49814]
 gi|254042473|gb|ACT59268.1| transcription-repair coupling factor [Hirschia baltica ATCC 49814]
          Length = 1152

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 26/129 (20%), Positives = 47/129 (36%), Gaps = 20/129 (15%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ IV+  HGVG    ++  +V     +   + +      + +PV     I 
Sbjct: 478 AEAAALSPGDMIVHIDHGVGRYEGLQTVDVGSAPHDCLELVYAGGD-KILLPVENIELIS 536

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMW-SRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
            R    A   E ++  + G        W SR+A+     +         E+  DL R  +
Sbjct: 537 -RY--GADSGEGSMDKLGG------AGWQSRKAKAKKNIM---------EMAGDLIRIAA 578

Query: 128 QPEKSYSER 136
           + E   +E+
Sbjct: 579 EREMRKAEK 587


>gi|256751659|ref|ZP_05492534.1| transcription factor CarD [Thermoanaerobacter ethanolicus CCSD1]
 gi|256749468|gb|EEU62497.1| transcription factor CarD [Thermoanaerobacter ethanolicus CCSD1]
          Length = 765

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +      L VPV +   +
Sbjct: 502 EIGSYVVHVNYGIGKYEGIEKIKVDGIVRDYLKIIYAGGD-TLFVPVEQLDLV 553


>gi|315301109|ref|ZP_07872401.1| transcription-repair coupling factor [Listeria ivanovii FSL
          F6-596]
 gi|313630521|gb|EFR98362.1| transcription-repair coupling factor [Listeria ivanovii FSL
          F6-596]
          Length = 237

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
          + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 20 KVGDYVVHINHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 71


>gi|88607738|ref|YP_504735.1| transcription-repair coupling factor [Anaplasma phagocytophilum HZ]
 gi|88598801|gb|ABD44271.1| transcription-repair coupling factor [Anaplasma phagocytophilum HZ]
          Length = 1139

 Score = 44.0 bits (103), Expect = 0.009,   Method: Composition-based stats.
 Identities = 30/171 (17%), Positives = 59/171 (34%), Gaps = 23/171 (13%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +           G+ +V+  +GVG    ++   V G   +F  I +  D   L VPV   
Sbjct: 455 RTVTNNASELTIGDVVVHKDYGVGIFIALRTLTVCGSCHDFVEIKYRNDD-KLFVPVEDT 513

Query: 65  IDIGMRKLSEAHFV--ERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL 122
                  L   + +  +  L  +        + W     +   K+    +  IA   + L
Sbjct: 514 ------DLITKYGINTDVVLDRL------GSSAW----HDKQNKLKK-RIDDIA---KTL 553

Query: 123 HRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKS 173
              ++  + +   R L  S      +E   V +  + +AI  +E +L+   
Sbjct: 554 LHAEAMRKLADGSRFLPSSLYIDFCKECPYVETEDQLKAIADVENDLARGK 604


>gi|325678530|ref|ZP_08158141.1| transcription-repair coupling factor [Ruminococcus albus 8]
 gi|324109749|gb|EGC03954.1| transcription-repair coupling factor [Ruminococcus albus 8]
          Length = 1153

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 22/106 (20%), Positives = 42/106 (39%), Gaps = 16/106 (15%)

Query: 1   MTFQQKRDAMRQGFRT--------GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK 52
           MT ++K+   + G           G+ +V+  +G+G    I+  E  G+K ++  I +  
Sbjct: 467 MTTKRKKPKHKAGEEIKALSDIHTGDLVVHSMYGIGKFQGIRNIETNGVKKDYITINYAG 526

Query: 53  DKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSR 98
             + L VPV +   +  R +         L  +        T W+R
Sbjct: 527 TDV-LYVPVTQLDLVS-RYVGPGEDGGIKLNKLN------STEWTR 564


>gi|94267602|ref|ZP_01290937.1| Transcription factor CarD [delta proteobacterium MLMS-1]
 gi|93451931|gb|EAT02653.1| Transcription factor CarD [delta proteobacterium MLMS-1]
          Length = 613

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 21/126 (16%), Positives = 51/126 (40%), Gaps = 25/126 (19%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG-MRKLS 73
             G+ +V+  HG+G    +   E+ G+  ++  I +      L +PV +   +G  + L+
Sbjct: 480 NPGDPVVHRRHGIGIYRGLVPIELDGITNDYLEIHYRGAD-KLYIPVDQLNSVGKYKGLA 538

Query: 74  EAH-FVERALKL--VRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           +    +++      +  + +VK+ +W                    +V RDL +  ++ +
Sbjct: 539 DQEPTLDKLGDNSWLATRQKVKKAVW--------------------QVARDLLKLYAKRQ 578

Query: 131 KSYSER 136
            +   R
Sbjct: 579 LAEGNR 584


>gi|312874973|ref|ZP_07734992.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           2053A-b]
 gi|311089718|gb|EFQ48143.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           2053A-b]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGQKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|329920532|ref|ZP_08277264.1| transcription-repair coupling factor [Lactobacillus iners SPIN
           1401G]
 gi|328936208|gb|EGG32661.1| transcription-repair coupling factor [Lactobacillus iners SPIN
           1401G]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGQKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|312872569|ref|ZP_07732637.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           2062A-h1]
 gi|311091931|gb|EFQ50307.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           2062A-h1]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGQKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|229824545|ref|ZP_04450614.1| hypothetical protein GCWU000282_01889 [Catonella morbi ATCC 51271]
 gi|229785916|gb|EEP22030.1| hypothetical protein GCWU000282_01889 [Catonella morbi ATCC 51271]
          Length = 1183

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 24/50 (48%), Gaps = 1/50 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
             G+++V+  HG+G    +   E+ G+  +   +   +D   + +PV + 
Sbjct: 500 EVGDYVVHVHHGIGQFRGMDTIEMNGIHKDLLSV-VYQDDSRILIPVDQI 548


>gi|163793172|ref|ZP_02187148.1| Transcription-repair coupling factor [alpha proteobacterium BAL199]
 gi|159181818|gb|EDP66330.1| Transcription-repair coupling factor [alpha proteobacterium BAL199]
          Length = 1162

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    +   E+ G   +   + +      L VPV    
Sbjct: 497 GDFVVHAEHGIGQYIGLDTLEIGGAPHDCLRLVYAGGD-KLFVPVENID 544


>gi|85373850|ref|YP_457912.1| transcription-repair coupling factor [Erythrobacter litoralis
           HTCC2594]
 gi|84786933|gb|ABC63115.1| transcription-repair coupling factor [Erythrobacter litoralis
           HTCC2594]
          Length = 1162

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 46/123 (37%), Gaps = 18/123 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A  Q    G+ +V+  HG+G    ++   V   + +  ++ +      L +PV     + 
Sbjct: 479 AELQALTRGDLVVHVEHGIGKYLGLEPIAVGKSQHDCVMLEYRGGD-KLYIPVENIDVLS 537

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R  S    V   L  + G+A      W RR  +   +I         E+  +L +T +Q
Sbjct: 538 -RYGSSEEAV--MLDKLGGEA------WQRRRAQLRERIR--------EIAGELMKTAAQ 580

Query: 129 PEK 131
              
Sbjct: 581 RAL 583


>gi|163731753|ref|ZP_02139200.1| transcription-repair coupling factor [Roseobacter litoralis Och
           149]
 gi|161395207|gb|EDQ19529.1| transcription-repair coupling factor [Roseobacter litoralis Och
           149]
          Length = 1154

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ IV+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 471 TETQSLSPGDLIVHVDHGIGRYRGLEVITAAGAAHECILLEYAESS-KLYLPVENIE--- 526

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   K+
Sbjct: 527 ---LLSKYGHEEGLLDRLGGGAWQAKKARLKERIREIAEKL 564


>gi|108801209|ref|YP_641406.1| transcription-repair coupling factor [Mycobacterium sp. MCS]
 gi|119870360|ref|YP_940312.1| transcription-repair coupling factor [Mycobacterium sp. KMS]
 gi|108771628|gb|ABG10350.1| transcription-repair coupling factor [Mycobacterium sp. MCS]
 gi|119696449|gb|ABL93522.1| transcription-repair coupling factor [Mycobacterium sp. KMS]
          Length = 1211

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K       L VP+     +
Sbjct: 518 GDLVVHDQHGIGRFVEMTERVVGGARREYLVLEYASSKRGGGSDRLYVPMDSLDQL 573


>gi|84687524|ref|ZP_01015400.1| transcription-repair coupling factor [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84664433|gb|EAQ10921.1| transcription-repair coupling factor [Rhodobacterales bacterium
           HTCC2654]
          Length = 1153

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 37/101 (36%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    GE IV+  HGVG    ++     G   +  ++ +      L +PV       
Sbjct: 473 TEHQSLSPGELIVHVDHGVGIYRGLETITALGAPHDCVLLEYAGGD-RLYLPVENIE--- 528

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E+  L  + G A + K+     R +E   K+
Sbjct: 529 ---LLSKYGHEQGLLDKLGGGAWQAKKARLKERIREVADKL 566


>gi|126437189|ref|YP_001072880.1| transcription-repair coupling factor [Mycobacterium sp. JLS]
 gi|126236989|gb|ABO00390.1| transcription-repair coupling factor [Mycobacterium sp. JLS]
          Length = 1211

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K       L VP+     +
Sbjct: 518 GDLVVHDQHGIGRFVEMTERVVGGARREYLVLEYASSKRGGGSDRLYVPMDSLDQL 573


>gi|186685547|ref|YP_001868743.1| transcription-repair coupling factor [Nostoc punctiforme PCC 73102]
 gi|186467999|gb|ACC83800.1| transcription-repair coupling factor [Nostoc punctiforme PCC 73102]
          Length = 1170

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           R G+++V+  HGVG   +++   +     ++ V+ +    + +      A  +G
Sbjct: 501 RPGDYVVHRNHGVGKFVKLESLTINDETRDYLVVQYADGLLRV-----AADQVG 549


>gi|320537605|ref|ZP_08037541.1| transcription-repair coupling factor [Treponema phagedenis F0421]
 gi|320145523|gb|EFW37203.1| transcription-repair coupling factor [Treponema phagedenis F0421]
          Length = 1148

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 19/113 (16%), Positives = 45/113 (39%), Gaps = 14/113 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  +G+G    I+     G + ++  +    ++  + +P+ +A  +  R +  
Sbjct: 486 NPGDYVVHVNYGIGLFKGIERVRSGGTERDYINL-LYANEETVFIPIEQANLVQ-RYIGN 543

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
                R L ++  K+      W  R      K+    +  IA  + DL+    
Sbjct: 544 EGEAPR-LDILGSKS------WENR----KNKVKK-SVEDIANKLIDLYSRRK 584


>gi|307324345|ref|ZP_07603553.1| transcription-repair coupling factor [Streptomyces violaceusniger
           Tu 4113]
 gi|306890076|gb|EFN21054.1| transcription-repair coupling factor [Streptomyces violaceusniger
           Tu 4113]
          Length = 1236

 Score = 44.0 bits (103), Expect = 0.010,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G+ IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 546 MPARRRKTIDPLTLEAGDFIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 605

Query: 54  KMCLKVPVGKAIDI 67
              L VP  +   +
Sbjct: 606 --RLFVPTDQLEQV 617


>gi|259500996|ref|ZP_05743898.1| transcription-repair-coupling factor [Lactobacillus iners DSM
           13335]
 gi|302190555|ref|ZP_07266809.1| transcription-repair coupling factor [Lactobacillus iners AB-1]
 gi|259167690|gb|EEW52185.1| transcription-repair-coupling factor [Lactobacillus iners DSM
           13335]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGQKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|313891693|ref|ZP_07825300.1| transcription-repair coupling factor [Dialister microaerophilus
           UPII 345-E]
 gi|313119971|gb|EFR43156.1| transcription-repair coupling factor [Dialister microaerophilus
           UPII 345-E]
          Length = 1126

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V  +HG+G    +   E+ G+  ++  I +  D   L +P+ K   +
Sbjct: 454 KVGDYVVQRSHGIGKYIGVNTIEIDGIHRDYVTIQYAGDD-KLYLPMEKIRTL 505


>gi|297559048|ref|YP_003678022.1| transcription-repair coupling factor [Nocardiopsis dassonvillei
           subsp. dassonvillei DSM 43111]
 gi|296843496|gb|ADH65516.1| transcription-repair coupling factor [Nocardiopsis dassonvillei
           subsp. dassonvillei DSM 43111]
          Length = 1201

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 50/122 (40%), Gaps = 17/122 (13%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           M  +++        + G+++V+  HGVG   E+  ++V G   E+ +I +          
Sbjct: 504 MPSRRRGTVDPLQLKPGDYVVHEQHGVGRYLEMVSRQVQGATREYLLIEYAPS------- 556

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTM----WSR---RAQEYDAKINSGDLI 113
             K    G R       +    + V G+A     M    WS+   RA++   +I  GDLI
Sbjct: 557 --KRGQPGDRLFVPTEQLGEVTRYVGGEAPTLSKMGGAEWSKAKSRARKVVREIA-GDLI 613

Query: 114 AI 115
            +
Sbjct: 614 RL 615


>gi|29830092|ref|NP_824726.1| transcriptional-repair coupling factor [Streptomyces avermitilis
           MA-4680]
 gi|29607202|dbj|BAC71261.1| putative transcriptional-repair coupling factor [Streptomyces
           avermitilis MA-4680]
          Length = 1176

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 486 MPARRRKTIDPLTLEAGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 546 --RLYIPTDQLEQI 557


>gi|294011405|ref|YP_003544865.1| transcription-repair coupling factor [Sphingobium japonicum UT26S]
 gi|292674735|dbj|BAI96253.1| transcription-repair coupling factor [Sphingobium japonicum UT26S]
          Length = 1154

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 25/117 (21%), Positives = 44/117 (37%), Gaps = 18/117 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +V+  HG+G    + +  VA    +   + +      L VPV     +  R  SE
Sbjct: 486 SPGDLVVHMDHGIGRYEGLTQIPVAKAAHDCVALEYAGGD-KLYVPVENLEVLS-RYGSE 543

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
           +  V   L  + G+A      W RR      +I         E+  +L +T ++   
Sbjct: 544 SEGVS--LDKLGGEA------WQRRKARMKERIR--------EIAGELLKTAAERAL 584


>gi|111022724|ref|YP_705696.1| transcription repair coupling factor [Rhodococcus jostii RHA1]
 gi|110822254|gb|ABG97538.1| transcription repair coupling factor [Rhodococcus jostii RHA1]
          Length = 1215

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ + G + E+ VI +   K       L VP+     +
Sbjct: 528 GDMVVHDQHGIGRFVEMVERTIGGARREYLVIEYAASKRGHPGDRLFVPMESLDQL 583


>gi|315653944|ref|ZP_07906860.1| transcriptional repair coupling factor [Lactobacillus iners ATCC
           55195]
 gi|315488640|gb|EFU78286.1| transcriptional repair coupling factor [Lactobacillus iners ATCC
           55195]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|258612325|ref|ZP_05711832.1| transcription-repair coupling factor [Listeria monocytogenes
          F6900]
 gi|258610889|gb|EEW23497.1| transcription-repair coupling factor [Listeria monocytogenes
          F6900]
          Length = 709

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
          + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 32 KVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 83


>gi|329122093|ref|ZP_08250701.1| transcription-repair-coupling factor [Dialister micraerophilus DSM
           19965]
 gi|327466900|gb|EGF12416.1| transcription-repair-coupling factor [Dialister micraerophilus DSM
           19965]
          Length = 1132

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V  +HG+G    +   E+ G+  ++  I +  D   L +P+ K   +
Sbjct: 460 KVGDYVVQRSHGIGKYIGVNTIEIDGIHRDYVTIQYAGDD-KLYLPMEKIRTL 511


>gi|312871549|ref|ZP_07731642.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           3008A-a]
 gi|311092944|gb|EFQ51295.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           3008A-a]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|297157723|gb|ADI07435.1| transcription-repair coupling factor [Streptomyces bingchenggensis
           BCW-1]
          Length = 1200

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++       + G+ IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 486 MPARRRKTIDPLSLQAGDFIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L VP  +   I
Sbjct: 546 --RLFVPTDQLEQI 557


>gi|309804680|ref|ZP_07698745.1| transcription-repair coupling factor [Lactobacillus iners LactinV
           09V1-c]
 gi|308166072|gb|EFO68290.1| transcription-repair coupling factor [Lactobacillus iners LactinV
           09V1-c]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|289568998|ref|ZP_06449225.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis T17]
 gi|289542752|gb|EFD46400.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis T17]
          Length = 697

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 521 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 579


>gi|325913119|ref|ZP_08175489.1| transcription-repair coupling factor [Lactobacillus iners UPII
           60-B]
 gi|325477540|gb|EGC80682.1| transcription-repair coupling factor [Lactobacillus iners UPII
           60-B]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|313635134|gb|EFS01462.1| transcription-repair coupling factor [Listeria seeligeri FSL
           N1-067]
          Length = 746

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++  ++ G+  ++ ++ +  +   L +PV +   +
Sbjct: 70  KVGDYVVHINHGIARYVGMETLDINGVHKDYLLLVYQGED-KLFIPVDQLDLV 121


>gi|309809624|ref|ZP_07703481.1| transcription-repair coupling factor [Lactobacillus iners SPIN
           2503V10-D]
 gi|308170105|gb|EFO72141.1| transcription-repair coupling factor [Lactobacillus iners SPIN
           2503V10-D]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|309803761|ref|ZP_07697847.1| transcription-repair coupling factor [Lactobacillus iners LactinV
           11V1-d]
 gi|308164170|gb|EFO66431.1| transcription-repair coupling factor [Lactobacillus iners LactinV
           11V1-d]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|226365233|ref|YP_002783016.1| transcription-repair coupling factor [Rhodococcus opacus B4]
 gi|226243723|dbj|BAH54071.1| transcription-repair coupling factor [Rhodococcus opacus B4]
          Length = 1215

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ + G + E+ VI +   K       L VP+     +
Sbjct: 528 GDMVVHDQHGIGRFVEMVERTIGGARREYLVIEYAASKRGHPGDRLFVPMESLDQL 583


>gi|254511931|ref|ZP_05123998.1| transcription-repair coupling factor [Rhodobacteraceae bacterium
           KLH11]
 gi|221535642|gb|EEE38630.1| transcription-repair coupling factor [Rhodobacteraceae bacterium
           KLH11]
          Length = 1151

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 20/101 (19%), Positives = 39/101 (38%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + + +  L +PV       
Sbjct: 471 TETQSLSPGDLVVHVDHGIGRYQGMEVVTAAGAAHECLLLEYAE-QSKLYLPVENIE--- 526

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   K+
Sbjct: 527 ---LLSKYGHDEGLLDRLGGGAWQAKKAKLKERIREMADKL 564


>gi|167039252|ref|YP_001662237.1| transcription-repair coupling factor [Thermoanaerobacter sp. X514]
 gi|300913892|ref|ZP_07131209.1| transcription-repair coupling factor [Thermoanaerobacter sp. X561]
 gi|307725423|ref|YP_003905174.1| transcription-repair coupling factor [Thermoanaerobacter sp. X513]
 gi|166853492|gb|ABY91901.1| transcription-repair coupling factor [Thermoanaerobacter sp. X514]
 gi|300890577|gb|EFK85722.1| transcription-repair coupling factor [Thermoanaerobacter sp. X561]
 gi|307582484|gb|ADN55883.1| transcription-repair coupling factor [Thermoanaerobacter sp. X513]
          Length = 1165

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +      L VPV +   +
Sbjct: 502 EIGSYVVHVNYGIGKYEGIEKIKVDGIVRDYLKIIYAGGD-TLFVPVEQLDLV 553


>gi|328955733|ref|YP_004373066.1| hypothetical protein Corgl_1145 [Coriobacterium glomerans PW2]
 gi|328456057|gb|AEB07251.1| hypothetical protein Corgl_1145 [Coriobacterium glomerans PW2]
          Length = 170

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 30/177 (16%), Positives = 58/177 (32%), Gaps = 22/177 (12%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV--PVGKAIDIGMR 70
            FR GEH+++P  GV TIT   E           ++   +     ++  P+ ++  +   
Sbjct: 1   MFRIGEHVIHPGQGVCTITGFDE----AAPNPMIILESKQGHARTRMKYPLSQSDRLH-- 54

Query: 71  KLSEAHFVERALKLVRGKARVKRT--MWSRRAQEYDAKINSGDLIAIAEVVRDLHRT--- 125
                   ER ++          T    S     +   +  G +     V + +      
Sbjct: 55  ATVSREEAERVMENYDAIECDSFTERNSSLEESHFKQLLKQG-VPETLRVAKTMRLRIME 113

Query: 126 --DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINL------IEVNLSSKSS 174
                 + S    ++ + A  R V E+A    +SE +          I+  L   S+
Sbjct: 114 AESRDKKPSSYYTRVLKEAHRRSVEELAVALGVSESDIERRFAGVADIDEFLDPSSN 170


>gi|325912458|ref|ZP_08174853.1| transcription-repair coupling factor [Lactobacillus iners UPII
           143-D]
 gi|325475800|gb|EGC78971.1| transcription-repair coupling factor [Lactobacillus iners UPII
           143-D]
          Length = 1110

 Score = 44.0 bits (103), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|297545520|ref|YP_003677822.1| transcription-repair coupling factor [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
 gi|296843295|gb|ADH61811.1| transcription-repair coupling factor [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
          Length = 1163

 Score = 43.6 bits (102), Expect = 0.011,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +      L VPV +   +
Sbjct: 502 EVGSYVVHVNYGIGKYEGIEKIKVDGIIRDYLKIIYAGGD-TLFVPVEQLDLV 553


>gi|117924949|ref|YP_865566.1| transcription-repair coupling factor [Magnetococcus sp. MC-1]
 gi|117608705|gb|ABK44160.1| transcription-repair coupling factor [Magnetococcus sp. MC-1]
          Length = 1198

 Score = 43.6 bits (102), Expect = 0.011,   Method: Composition-based stats.
 Identities = 34/164 (20%), Positives = 66/164 (40%), Gaps = 26/164 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+ +V+  HGVG    +   EV  +K +F +I +      L VPV     +G  K S 
Sbjct: 519 NEGDAVVHVDHGVGRFGGLVSLEVGQLKNDFLLIIYADGD-KLYVPVENLDRVG--KHSS 575

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
              V+  L  + GK       W++ RA+          ++ +AE   +L    +Q E + 
Sbjct: 576 GEEVQ--LDKLGGKR------WAKTRAKARKK------ILEMAE---ELVAIQAQREATQ 618

Query: 134 SERQLY---ESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
               +Y   ++             ++ + +AI  +  +++S  +
Sbjct: 619 G--VVYSGPDALYQEFASTFPFEETVDQAKAIEAVLEDMASPKA 660


>gi|167036600|ref|YP_001664178.1| transcription-repair coupling factor [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|320115027|ref|YP_004185186.1| transcription-repair coupling factor [Thermoanaerobacter brockii
           subsp. finnii Ako-1]
 gi|166855434|gb|ABY93842.1| transcription-repair coupling factor [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|319928118|gb|ADV78803.1| transcription-repair coupling factor [Thermoanaerobacter brockii
           subsp. finnii Ako-1]
          Length = 1165

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +      L VPV +   +
Sbjct: 502 EIGSYVVHVNYGIGKYEGIEKIKVDGIVRDYLKIIYAGGD-TLFVPVEQLDLV 553


>gi|290959824|ref|YP_003491006.1| transcriptional-repair coupling factor [Streptomyces scabiei 87.22]
 gi|260649350|emb|CBG72465.1| putative transcriptional-repair coupling factor [Streptomyces
           scabiei 87.22]
          Length = 1177

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 486 MPARRRKTIDPLTLEAGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 546 --RLYIPTDQLEQI 557


>gi|289757102|ref|ZP_06516480.1| LOW QUALITY PROTEIN: transcription-repair coupling factor Mfd
           [Mycobacterium tuberculosis T85]
 gi|289712666|gb|EFD76678.1| LOW QUALITY PROTEIN: transcription-repair coupling factor Mfd
           [Mycobacterium tuberculosis T85]
          Length = 849

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 136 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 194


>gi|289579379|ref|YP_003478006.1| transcription-repair coupling factor [Thermoanaerobacter italicus
           Ab9]
 gi|289529092|gb|ADD03444.1| transcription-repair coupling factor [Thermoanaerobacter italicus
           Ab9]
          Length = 1163

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +      L VPV +   +
Sbjct: 502 EVGSYVVHVNYGIGKYEGIEKIKVDGIIRDYLKIIYAGGD-TLFVPVEQLDLV 553


>gi|309807000|ref|ZP_07700982.1| transcription-repair coupling factor [Lactobacillus iners LactinV
           03V1-b]
 gi|308166620|gb|EFO68817.1| transcription-repair coupling factor [Lactobacillus iners LactinV
           03V1-b]
          Length = 1110

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|312874291|ref|ZP_07734323.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           2052A-d]
 gi|311090164|gb|EFQ48576.1| transcription-repair coupling factor [Lactobacillus iners LEAF
           2052A-d]
          Length = 1110

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HG+G    IK  E  G K ++  I +      L VP  +   +
Sbjct: 436 QELNPGDYVVHINHGIGIFEGIKTLESNGKKGDYITITYRNHD-QLFVPADQLGVV 490


>gi|293400065|ref|ZP_06644211.1| transcription-repair coupling factor [Erysipelotrichaceae bacterium
           5_2_54FAA]
 gi|291306465|gb|EFE47708.1| transcription-repair coupling factor [Erysipelotrichaceae bacterium
           5_2_54FAA]
          Length = 1149

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 31/165 (18%), Positives = 62/165 (37%), Gaps = 20/165 (12%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  HG+G    I  +EV G+  +F  IA+  D + L VP+ +     +RK
Sbjct: 477 QELHIGDYVVHNQHGIGKYLGIVNKEVDGIHKDFLHIAYKGDDV-LLVPLEQFQL--IRK 533

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP-- 129
                     L  +          W     E   K  S  +  +A+ +  L+    +   
Sbjct: 534 FVSKEGAAPKLNKLGSGE------W-----EKTKKKVSAKIAELADRLIHLYANRDEHIG 582

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                +  + +   +    E+     I + +A+  I+ ++ S   
Sbjct: 583 HAFAKDTAMQKEFEDDFDYELT----IDQAKAVKEIKSDMESSKP 623


>gi|297200238|ref|ZP_06917635.1| transcription-repair coupling factor [Streptomyces sviceus ATCC
           29083]
 gi|197717008|gb|EDY61042.1| transcription-repair coupling factor [Streptomyces sviceus ATCC
           29083]
          Length = 1190

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 500 MPARRRKTIDPLTLEAGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 559

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 560 --RLYIPTDQLEQI 571


>gi|148255539|ref|YP_001240124.1| transcription repair coupling factor [Bradyrhizobium sp. BTAi1]
 gi|146407712|gb|ABQ36218.1| transcription-repair coupling factor [Bradyrhizobium sp. BTAi1]
          Length = 1171

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 12/103 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HG+G    ++  EVAG   +   + +  +   L +PV     +  R  S+ 
Sbjct: 501 IGDIVVHVDHGIGRFVGLQTLEVAGAPHDCLELRYAGET-KLYLPVENIELLS-RYGSDQ 558

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
             VE  L  + G      + W  R  +   +I    G+LI IA
Sbjct: 559 TSVE--LDKLGG------SGWQTRKAKLKNRIREMAGELIKIA 593


>gi|326390842|ref|ZP_08212394.1| transcription-repair coupling factor [Thermoanaerobacter
           ethanolicus JW 200]
 gi|325993101|gb|EGD51541.1| transcription-repair coupling factor [Thermoanaerobacter
           ethanolicus JW 200]
          Length = 1169

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +      L VPV +   +
Sbjct: 502 EVGSYVVHVNYGIGKYEGIEKIKVDGIIRDYLKIIYAGGD-TLFVPVEQLDLV 553


>gi|307265094|ref|ZP_07546654.1| transcription-repair coupling factor [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|306919892|gb|EFN50106.1| transcription-repair coupling factor [Thermoanaerobacter wiegelii
           Rt8.B1]
          Length = 1169

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +      L VPV +   +
Sbjct: 502 EVGSYVVHVNYGIGKYEGIEKIKVDGIIRDYLKIIYAGGD-TLFVPVEQLDLV 553


>gi|257871350|ref|ZP_05651003.1| transcription-repair coupling factor [Enterococcus gallinarum EG2]
 gi|257805514|gb|EEV34336.1| transcription-repair coupling factor [Enterococcus gallinarum EG2]
          Length = 1173

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 497 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 548


>gi|302560241|ref|ZP_07312583.1| transcription-repair coupling factor [Streptomyces griseoflavus
           Tu4000]
 gi|302477859|gb|EFL40952.1| transcription-repair coupling factor [Streptomyces griseoflavus
           Tu4000]
          Length = 1187

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G+HIV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 496 MPARRRKTIDPLTLEAGDHIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 555

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 556 --RLYIPTDQLEQI 567


>gi|257438137|ref|ZP_05613892.1| transcription-repair coupling factor [Faecalibacterium prausnitzii
           A2-165]
 gi|257199468|gb|EEU97752.1| transcription-repair coupling factor [Faecalibacterium prausnitzii
           A2-165]
          Length = 1155

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           + G+++V+ +HG+G    I+  EV G   ++  I +    + L VPV +  
Sbjct: 489 KPGDYVVHQSHGIGMYAGIQRLEVQGAIKDYLKIQYSGSDV-LYVPVTQLD 538


>gi|218710049|ref|YP_002417670.1| transcription-repair coupling factor [Vibrio splendidus LGP32]
 gi|218323068|emb|CAV19245.1| transcription-repair coupling factor [Vibrio splendidus LGP32]
          Length = 1153

 Score = 43.6 bits (102), Expect = 0.012,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     IG
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVASLNLIG 533


>gi|332186186|ref|ZP_08387932.1| transcription-repair coupling factor [Sphingomonas sp. S17]
 gi|332014001|gb|EGI56060.1| transcription-repair coupling factor [Sphingomonas sp. S17]
          Length = 1155

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 27/142 (19%), Positives = 47/142 (33%), Gaps = 25/142 (17%)

Query: 1   MTFQQKRDAMRQGF-------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +  +QKR      F         G+ +V+  HG+G    +    V     +   +++   
Sbjct: 468 LVRRQKRRKSADAFLAELATLSPGDLVVHSDHGIGRYEGLTSIPVGKSPHDCVALSYAGG 527

Query: 54  KMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLI 113
              L VPV     +  R  S        L  + G+A      W RR  +   +I      
Sbjct: 528 D-KLYVPVENLEVL-TRYGSGEDGAT--LDRLGGEA------WQRRKSKMKERIR----- 572

Query: 114 AIAEVVRDLHRTDSQPEKSYSE 135
              E+  +L  T ++      E
Sbjct: 573 ---EIAGELIATAAERALRPGE 591


>gi|126736472|ref|ZP_01752213.1| transcription-repair coupling factor [Roseobacter sp. CCS2]
 gi|126714010|gb|EBA10880.1| transcription-repair coupling factor [Roseobacter sp. CCS2]
          Length = 1148

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 27/124 (21%), Positives = 44/124 (35%), Gaps = 22/124 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           +       G+ +V+  HGVG  T ++     G   E  ++ + +    L +PV       
Sbjct: 470 SEANSLSPGDLVVHVDHGVGRYTGMEVVTALGAAHECLLLEYAE-DSKLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
              L   +  E   L  + G A      W    Q   AK+    +  IAE    L R  +
Sbjct: 526 ---LLSKYGHETGLLDKLGGGA------W----QAKKAKLKE-RIRQIAE---RLIRVAA 568

Query: 128 QPEK 131
           + E 
Sbjct: 569 EREL 572


>gi|73748965|ref|YP_308204.1| transcription-repair coupling factor [Dehalococcoides sp. CBDB1]
 gi|73660681|emb|CAI83288.1| transcription-repair coupling factor [Dehalococcoides sp. CBDB1]
          Length = 1148

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 42/120 (35%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + GE +V+  HGV   + +      GM  E+ ++ +      L VP  +   +  R +  
Sbjct: 485 KPGEFVVHIDHGVALFSGVSHMNRDGMDKEYLILQYAGGD-KLYVPADQMDRVN-RFIGS 542

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                          R+    W +RA+E      S      A   R+L    ++ E +  
Sbjct: 543 GDEPPSL-------HRLGTQEW-QRAKEK----ASESAEETA---RELLEIYAKRELASG 587


>gi|84386598|ref|ZP_00989624.1| transcription-repair coupling factor [Vibrio splendidus 12B01]
 gi|84378404|gb|EAP95261.1| transcription-repair coupling factor [Vibrio splendidus 12B01]
          Length = 1153

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     IG
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVASLNLIG 533


>gi|320547719|ref|ZP_08042004.1| transcription-repair coupling factor [Streptococcus equinus ATCC
           9812]
 gi|320447794|gb|EFW88552.1| transcription-repair coupling factor [Streptococcus equinus ATCC
           9812]
          Length = 1165

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+++V+  HG+G    I+   + G+  ++  I + +    + +PV +   +
Sbjct: 491 GDYVVHHVHGIGKFLGIETIAIHGVHRDYLTIQY-QGSSTISLPVEQIESL 540


>gi|237803178|ref|YP_002888372.1| transcription-repair coupling factor [Chlamydia trachomatis
           B/Jali20/OT]
 gi|231274412|emb|CAX11207.1| transcription-repair coupling factor [Chlamydia trachomatis
           B/Jali20/OT]
          Length = 1079

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G        W RR++E   K
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSEK 515


>gi|76789489|ref|YP_328575.1| transcription-repair coupling factor [Chlamydia trachomatis
           A/HAR-13]
 gi|237805099|ref|YP_002889253.1| transcription-repair coupling factor [Chlamydia trachomatis
           B/TZ1A828/OT]
 gi|255311580|ref|ZP_05354150.1| transcription-repair coupling factor [Chlamydia trachomatis 6276]
 gi|255317881|ref|ZP_05359127.1| transcription-repair coupling factor [Chlamydia trachomatis 6276s]
 gi|76168019|gb|AAX51027.1| transcription-repair coupling factor [Chlamydia trachomatis
           A/HAR-13]
 gi|231273399|emb|CAX10314.1| transcription-repair coupling factor [Chlamydia trachomatis
           B/TZ1A828/OT]
          Length = 1079

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G        W RR++E   K
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSEK 515


>gi|15605481|ref|NP_220267.1| transcription-repair coupling factor [Chlamydia trachomatis
           D/UW-3/CX]
 gi|3329208|gb|AAC68343.1| Transcription-Repair Coupling [Chlamydia trachomatis D/UW-3/CX]
 gi|296437224|gb|ADH19394.1| transcription-repair coupling factor [Chlamydia trachomatis
           G/11222]
 gi|297748878|gb|ADI51424.1| Transcription-repair coupling factor [Chlamydia trachomatis D-EC]
 gi|297749758|gb|ADI52436.1| Transcription-repair coupling factor [Chlamydia trachomatis D-LC]
          Length = 1079

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G        W RR++E   K
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSEK 515


>gi|306845910|ref|ZP_07478478.1| transcription-repair coupling factor [Brucella sp. BO1]
 gi|306273802|gb|EFM55640.1| transcription-repair coupling factor [Brucella sp. BO1]
          Length = 1170

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|239930800|ref|ZP_04687753.1| transcriptional-repair coupling factor [Streptomyces ghanaensis
           ATCC 14672]
 gi|291439165|ref|ZP_06578555.1| transcriptional-repair coupling factor [Streptomyces ghanaensis
           ATCC 14672]
 gi|291342060|gb|EFE69016.1| transcriptional-repair coupling factor [Streptomyces ghanaensis
           ATCC 14672]
          Length = 1185

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G+HIV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 494 MPARRRKTIDPLTLEAGDHIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 553

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 554 --RLYIPTDQLEQI 565


>gi|261367666|ref|ZP_05980549.1| transcription-repair coupling factor [Subdoligranulum variabile DSM
           15176]
 gi|282570458|gb|EFB75993.1| transcription-repair coupling factor [Subdoligranulum variabile DSM
           15176]
          Length = 1153

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 7/70 (10%)

Query: 2   TFQQKRDAMRQGFR------TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           T Q+K+   +           G+ +V+  HG+G    I+   V G+  ++  I +DK  +
Sbjct: 468 TAQKKKKRNKDALNSLSEISPGDLVVHQNHGIGRYAGIQRMAVQGVTKDYLRIEYDKKDV 527

Query: 56  CLKVPVGKAI 65
            L VPV +  
Sbjct: 528 -LYVPVTQLD 536


>gi|118589910|ref|ZP_01547314.1| Mfd, transcription-repair coupling factor [Stappia aggregata IAM
           12614]
 gi|118437407|gb|EAV44044.1| Mfd, transcription-repair coupling factor [Stappia aggregata IAM
           12614]
          Length = 1161

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 27/123 (21%), Positives = 45/123 (36%), Gaps = 18/123 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
               G   G+ +V+  HG+G    +K  E  G   +   + +      L +PV     + 
Sbjct: 488 TEATGLSEGDLVVHVDHGIGRFIGLKTIEAVGAPHDCLELQYAGGD-KLYLPVENIELLS 546

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R  SE    +  L  + G A      W  R     AK+    ++ IA+    L +T +Q
Sbjct: 547 -RYGSEDQEAQ--LDKLGGGA------WQAR----KAKLKK-RILEIAD---GLIKTAAQ 589

Query: 129 PEK 131
              
Sbjct: 590 RAL 592


>gi|294629781|ref|ZP_06708341.1| transcription-repair coupling factor [Streptomyces sp. e14]
 gi|292833114|gb|EFF91463.1| transcription-repair coupling factor [Streptomyces sp. e14]
          Length = 1184

 Score = 43.6 bits (102), Expect = 0.013,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 493 MPARRRKTIDPLTLEAGDYIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 552

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 553 --RLYIPTDQLEQI 564


>gi|260427548|ref|ZP_05781527.1| transcription-repair coupling factor [Citreicella sp. SE45]
 gi|260422040|gb|EEX15291.1| transcription-repair coupling factor [Citreicella sp. SE45]
          Length = 1160

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 480 TETQSLSPGDLVVHVDHGIGRYQGMEVITAAGAAHECLLLEYAEGA-RLYLPVENIE--- 535

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   K+
Sbjct: 536 ---LLSRYGHEEGLLDRLGGGAWQAKKARLKERIREMADKL 573


>gi|148980820|ref|ZP_01816230.1| transcription-repair coupling factor [Vibrionales bacterium SWAT-3]
 gi|145961055|gb|EDK26376.1| transcription-repair coupling factor [Vibrionales bacterium SWAT-3]
          Length = 1153

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     IG
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVASLNLIG 533


>gi|332981377|ref|YP_004462818.1| transcription-repair coupling factor [Mahella australiensis 50-1
           BON]
 gi|332699055|gb|AEE95996.1| transcription-repair coupling factor [Mahella australiensis 50-1
           BON]
          Length = 1159

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  +G+G    IK+  V G   ++  I +      L VP  +   +
Sbjct: 490 NIGDYVVHENYGIGQYMGIKKLTVEGKSRDYLFIRYADGD-NLYVPTDRMSLV 541


>gi|300172731|ref|YP_003771896.1| transcription-repair coupling factor [Leuconostoc gasicomitatum LMG
           18811]
 gi|299887109|emb|CBL91077.1| transcription-repair coupling factor [Leuconostoc gasicomitatum LMG
           18811]
          Length = 1172

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++   V G K ++  IA+ K+   + +PV +   I
Sbjct: 492 NVGDYVVHINHGIGRYEGLQTMTVDGGKQDYLSIAYQKNA-KIFIPVTQLNLI 543


>gi|13235409|emb|CAC33609.1| Mfd protein [Rickettsia montanensis]
          Length = 1121

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 46/118 (38%), Gaps = 20/118 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  HG+G    ++  E+ G   +F  I +  +   L +PV          + + +
Sbjct: 460 GEFVVHKDHGIGQFLRLEALEIKGKPHDFLKILYAGND-KLYIPVESIE------VIKKY 512

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             + A        ++    W +R++    K     +  IA     L +  ++ + S S
Sbjct: 513 GNDNA-----ELDKLGSVSW-QRSKAKLKK----RIKEIAL---HLIQIAAKRKLSSS 557


>gi|218752691|ref|ZP_03531487.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis GM 1503]
 gi|289761156|ref|ZP_06520534.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis GM 1503]
 gi|289708662|gb|EFD72678.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis GM 1503]
          Length = 1234

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 521 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 579


>gi|215429881|ref|ZP_03427800.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis EAS054]
 gi|260200049|ref|ZP_05767540.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis T46]
 gi|289442441|ref|ZP_06432185.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis T46]
 gi|289753081|ref|ZP_06512459.1| transcription-repair coupling factor Mfd [Mycobacterium
           tuberculosis EAS054]
 gi|289415360|gb|EFD12600.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis T46]
 gi|289693668|gb|EFD61097.1| transcription-repair coupling factor Mfd [Mycobacterium
           tuberculosis EAS054]
          Length = 1234

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 521 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 579


>gi|260204238|ref|ZP_05771729.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis K85]
 gi|289573660|ref|ZP_06453887.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis K85]
 gi|289538091|gb|EFD42669.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis K85]
          Length = 1234

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 521 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 579


>gi|146340719|ref|YP_001205767.1| transcription repair coupling factor [Bradyrhizobium sp. ORS278]
 gi|146193525|emb|CAL77541.1| transcription repair coupling factor [Bradyrhizobium sp. ORS278]
          Length = 1172

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 12/103 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HG+G    ++  EVAG   +   + +  +   L +PV     +  R  S+ 
Sbjct: 502 IGDIVVHVDHGIGRFVGLQTLEVAGAPHDCLELRYAGET-KLYLPVENIELLS-RYGSDQ 559

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIA 116
             VE  L  + G      + W  R  +   +I    G+LI IA
Sbjct: 560 TNVE--LDKLGG------SGWQTRKAKLKNRIREMAGELIKIA 594


>gi|62317564|ref|YP_223417.1| transcription-repair coupling factor [Brucella abortus bv. 1 str.
           9-941]
 gi|189022818|ref|YP_001932559.1| Mfd, transcription-repair coupling factor [Brucella abortus S19]
 gi|237817111|ref|ZP_04596103.1| transcription-repair coupling factor [Brucella abortus str. 2308 A]
 gi|254691061|ref|ZP_05154315.1| Mfd, transcription-repair coupling factor [Brucella abortus bv. 6
           str. 870]
 gi|254698846|ref|ZP_05160674.1| Mfd, transcription-repair coupling factor [Brucella abortus bv. 2
           str. 86/8/59]
 gi|254732293|ref|ZP_05190871.1| Mfd, transcription-repair coupling factor [Brucella abortus bv. 4
           str. 292]
 gi|256256246|ref|ZP_05461782.1| Mfd, transcription-repair coupling factor [Brucella abortus bv. 9
           str. C68]
 gi|260544801|ref|ZP_05820622.1| conserved hypothetical protein [Brucella abortus NCTC 8038]
 gi|260756658|ref|ZP_05869006.1| transcription-repair coupling factor [Brucella abortus bv. 6 str.
           870]
 gi|260760089|ref|ZP_05872437.1| transcription-repair coupling factor [Brucella abortus bv. 4 str.
           292]
 gi|260763327|ref|ZP_05875659.1| transcription-repair coupling factor [Brucella abortus bv. 2 str.
           86/8/59]
 gi|260882475|ref|ZP_05894089.1| transcription-repair coupling factor [Brucella abortus bv. 9 str.
           C68]
 gi|297249604|ref|ZP_06933305.1| transcription-repair coupling factor [Brucella abortus bv. 5 str.
           B3196]
 gi|62197757|gb|AAX76056.1| Mfd, transcription-repair coupling factor [Brucella abortus bv. 1
           str. 9-941]
 gi|189021392|gb|ACD74113.1| Mfd, transcription-repair coupling factor [Brucella abortus S19]
 gi|237787924|gb|EEP62140.1| transcription-repair coupling factor [Brucella abortus str. 2308 A]
 gi|260098072|gb|EEW81946.1| conserved hypothetical protein [Brucella abortus NCTC 8038]
 gi|260670407|gb|EEX57347.1| transcription-repair coupling factor [Brucella abortus bv. 4 str.
           292]
 gi|260673748|gb|EEX60569.1| transcription-repair coupling factor [Brucella abortus bv. 2 str.
           86/8/59]
 gi|260676766|gb|EEX63587.1| transcription-repair coupling factor [Brucella abortus bv. 6 str.
           870]
 gi|260872003|gb|EEX79072.1| transcription-repair coupling factor [Brucella abortus bv. 9 str.
           C68]
 gi|297173473|gb|EFH32837.1| transcription-repair coupling factor [Brucella abortus bv. 5 str.
           B3196]
          Length = 1170

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|17989033|ref|NP_541666.1| transcription-repair coupling factor [Brucella melitensis bv. 1
           str. 16M]
 gi|17984874|gb|AAL53930.1| transcription-repair coupling factor [Brucella melitensis bv. 1
           str. 16M]
          Length = 1170

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|15806542|ref|NP_295255.1| transcription-repair coupling factor [Deinococcus radiodurans R1]
 gi|6459293|gb|AAF11095.1|AE001997_1 transcription-repair coupling factor [Deinococcus radiodurans R1]
          Length = 1054

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 18/107 (16%), Positives = 46/107 (42%), Gaps = 12/107 (11%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           G   G+ +++P HG+G    ++ ++V G+  ++  I + +    L VP+ +   +  R  
Sbjct: 374 GLSVGDFLIHPEHGIGQFLGLETRKVLGVTRDYLNIGY-RGGSRLSVPIEQLPILR-RHP 431

Query: 73  SEAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKINSGDLIAIA 116
                  +        +   +  W+R   +A++   ++ +  L+  A
Sbjct: 432 GTTDDPPQL-------SSFDKKDWARAKEKARKNAEEVAAKLLVQYA 471


>gi|83269545|ref|YP_418836.1| transcription repair coupling factor [Brucella melitensis biovar
           Abortus 2308]
 gi|82939819|emb|CAJ12827.1| DEAD/DEAH box helicase:Helicase, C-terminal:ATP/GTP-binding site
           motif A (P-loop):Haem peroxidase:Transcription-repair
           coupli [Brucella melitensis biovar Abortus 2308]
          Length = 1122

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 458 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 513

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 514 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 542


>gi|15608160|ref|NP_215536.1| transcription-repair coupling factor Mfd (TRCF) [Mycobacterium
           tuberculosis H37Rv]
 gi|15840448|ref|NP_335485.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           CDC1551]
 gi|31792211|ref|NP_854704.1| transcription-repair coupling factor Mfd (TRCF) [Mycobacterium
           bovis AF2122/97]
 gi|121636949|ref|YP_977172.1| putative transcription-repair coupling factor mfd [Mycobacterium
           bovis BCG str. Pasteur 1173P2]
 gi|148660802|ref|YP_001282325.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           H37Ra]
 gi|148822229|ref|YP_001286983.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis F11]
 gi|167968120|ref|ZP_02550397.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis H37Ra]
 gi|215402835|ref|ZP_03415016.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis 02_1987]
 gi|224989421|ref|YP_002644108.1| putative transcription-repair coupling factor [Mycobacterium bovis
           BCG str. Tokyo 172]
 gi|253799950|ref|YP_003032951.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis KZN 1435]
 gi|254363936|ref|ZP_04979982.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis str. Haarlem]
 gi|260185931|ref|ZP_05763405.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis CPHL_A]
 gi|289446601|ref|ZP_06436345.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis CPHL_A]
 gi|289744756|ref|ZP_06504134.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis 02_1987]
 gi|297633546|ref|ZP_06951326.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           KZN 4207]
 gi|297730531|ref|ZP_06959649.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           KZN R506]
 gi|306775155|ref|ZP_07413492.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu001]
 gi|306781930|ref|ZP_07420267.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu002]
 gi|306783715|ref|ZP_07422037.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu003]
 gi|306788070|ref|ZP_07426392.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu004]
 gi|306792403|ref|ZP_07430705.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu005]
 gi|306796806|ref|ZP_07435108.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu006]
 gi|306802692|ref|ZP_07439360.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu008]
 gi|306806871|ref|ZP_07443539.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu007]
 gi|306967072|ref|ZP_07479733.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu009]
 gi|306971262|ref|ZP_07483923.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu010]
 gi|307078991|ref|ZP_07488161.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu011]
 gi|307083551|ref|ZP_07492664.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu012]
 gi|313657860|ref|ZP_07814740.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           KZN V2475]
 gi|54037787|sp|P64327|MFD_MYCBO RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|54041091|sp|P64326|MFD_MYCTU RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|3261715|emb|CAB06859.1| PROBABLE TRANSCRIPTION-REPAIR COUPLING FACTOR MFD (TRCF)
           [Mycobacterium tuberculosis H37Rv]
 gi|13880619|gb|AAK45299.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           CDC1551]
 gi|31617799|emb|CAD93908.1| PROBABLE TRANSCRIPTION-REPAIR COUPLING FACTOR MFD (TRCF)
           [Mycobacterium bovis AF2122/97]
 gi|121492596|emb|CAL71064.1| Probable transcription-repair coupling factor mfd [Mycobacterium
           bovis BCG str. Pasteur 1173P2]
 gi|134149450|gb|EBA41495.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis str. Haarlem]
 gi|148504954|gb|ABQ72763.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           H37Ra]
 gi|148720756|gb|ABR05381.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis F11]
 gi|224772534|dbj|BAH25340.1| putative transcription-repair coupling factor [Mycobacterium bovis
           BCG str. Tokyo 172]
 gi|253321453|gb|ACT26056.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis KZN 1435]
 gi|289419559|gb|EFD16760.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis CPHL_A]
 gi|289685284|gb|EFD52772.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis 02_1987]
 gi|308216305|gb|EFO75704.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu001]
 gi|308325321|gb|EFP14172.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu002]
 gi|308331498|gb|EFP20349.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu003]
 gi|308335304|gb|EFP24155.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu004]
 gi|308339112|gb|EFP27963.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu005]
 gi|308342784|gb|EFP31635.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu006]
 gi|308346693|gb|EFP35544.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu007]
 gi|308350608|gb|EFP39459.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu008]
 gi|308355241|gb|EFP44092.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu009]
 gi|308359196|gb|EFP48047.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu010]
 gi|308363098|gb|EFP51949.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu011]
 gi|308366762|gb|EFP55613.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis SUMu012]
 gi|323720520|gb|EGB29602.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis CDC1551A]
 gi|326904753|gb|EGE51686.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis W-148]
 gi|328459693|gb|AEB05116.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis KZN 4207]
          Length = 1234

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 521 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 579


>gi|254550004|ref|ZP_05140451.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis '98-R604 INH-RIF-EM']
          Length = 1234

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 521 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 579


>gi|215410623|ref|ZP_03419431.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis 94_M4241A]
 gi|298524516|ref|ZP_07011925.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           94_M4241A]
 gi|298494310|gb|EFI29604.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           94_M4241A]
          Length = 1234

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 521 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 579


>gi|215426299|ref|ZP_03424218.1| transcription-repair coupling factor mfd [Mycobacterium
           tuberculosis T92]
 gi|289749550|ref|ZP_06508928.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           T92]
 gi|289690137|gb|EFD57566.1| transcription-repair coupling factor [Mycobacterium tuberculosis
           T92]
          Length = 571

 Score = 43.6 bits (102), Expect = 0.014,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 378 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 436


>gi|294853624|ref|ZP_06794296.1| transcription-repair coupling factor [Brucella sp. NVSL 07-0026]
 gi|294819279|gb|EFG36279.1| transcription-repair coupling factor [Brucella sp. NVSL 07-0026]
          Length = 1170

 Score = 43.6 bits (102), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|256043474|ref|ZP_05446403.1| transcription-repair coupling factor [Brucella melitensis bv. 1
           str. Rev.1]
 gi|260564670|ref|ZP_05835155.1| conserved hypothetical protein [Brucella melitensis bv. 1 str. 16M]
 gi|265989892|ref|ZP_06102449.1| transcription-repair coupling factor [Brucella melitensis bv. 1
           str. Rev.1]
 gi|260152313|gb|EEW87406.1| conserved hypothetical protein [Brucella melitensis bv. 1 str. 16M]
 gi|263000561|gb|EEZ13251.1| transcription-repair coupling factor [Brucella melitensis bv. 1
           str. Rev.1]
          Length = 1170

 Score = 43.6 bits (102), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|299820651|ref|ZP_07052540.1| transcription-repair coupling factor [Listeria grayi DSM 20601]
 gi|299817672|gb|EFI84907.1| transcription-repair coupling factor [Listeria grayi DSM 20601]
          Length = 1186

 Score = 43.6 bits (102), Expect = 0.015,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+     ++   + G+  ++  + +  +   L VPV +   I
Sbjct: 509 KVGDYVVHINHGIARYVGMETLNIGGVHKDYLNLIYQGED-KLFVPVDQLEMI 560


>gi|15834748|ref|NP_296507.1| transcription-repair coupling factor [Chlamydia muridarum Nigg]
 gi|270284915|ref|ZP_06194309.1| transcription-repair coupling factor [Chlamydia muridarum Nigg]
 gi|270288942|ref|ZP_06195244.1| transcription-repair coupling factor [Chlamydia muridarum Weiss]
 gi|7190159|gb|AAF39002.1| transcription-repair coupling factor [Chlamydia muridarum Nigg]
          Length = 1080

 Score = 43.6 bits (102), Expect = 0.015,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G        W RR++E   K
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSEK 515


>gi|256157728|ref|ZP_05455646.1| transcription-repair coupling factor [Brucella ceti M490/95/1]
 gi|256253301|ref|ZP_05458837.1| transcription-repair coupling factor [Brucella ceti B1/94]
 gi|261220415|ref|ZP_05934696.1| transcription-repair coupling factor [Brucella ceti B1/94]
 gi|265996234|ref|ZP_06108791.1| transcription-repair coupling factor [Brucella ceti M490/95/1]
 gi|260918999|gb|EEX85652.1| transcription-repair coupling factor [Brucella ceti B1/94]
 gi|262550531|gb|EEZ06692.1| transcription-repair coupling factor [Brucella ceti M490/95/1]
          Length = 1170

 Score = 43.6 bits (102), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|254720434|ref|ZP_05182245.1| transcription-repair coupling factor [Brucella sp. 83/13]
 gi|265985454|ref|ZP_06098189.1| transcription-repair coupling factor [Brucella sp. 83/13]
 gi|306838989|ref|ZP_07471810.1| transcription-repair coupling factor [Brucella sp. NF 2653]
 gi|264664046|gb|EEZ34307.1| transcription-repair coupling factor [Brucella sp. 83/13]
 gi|306405895|gb|EFM62153.1| transcription-repair coupling factor [Brucella sp. NF 2653]
          Length = 1171

 Score = 43.6 bits (102), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 507 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 562

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 563 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 591


>gi|153952805|ref|YP_001393570.1| hypothetical protein CKL_0152 [Clostridium kluyveri DSM 555]
 gi|146345686|gb|EDK32222.1| Mfd [Clostridium kluyveri DSM 555]
          Length = 1173

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 3   FQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
             +K  +  + F   + G+ IV+  HG+G    IK+ E+ G K ++  + ++ +   L V
Sbjct: 490 TNKKGTSKIKSFTELKPGDFIVHVNHGIGVYKGIKQLELQGHKKDYLELVYECED-KLYV 548

Query: 60  PVGKAIDI 67
           PV +   +
Sbjct: 549 PVEQLDMV 556


>gi|306841773|ref|ZP_07474459.1| transcription-repair coupling factor [Brucella sp. BO2]
 gi|306288178|gb|EFM59565.1| transcription-repair coupling factor [Brucella sp. BO2]
          Length = 1170

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|254695633|ref|ZP_05157461.1| transcription-repair coupling factor [Brucella abortus bv. 3 str.
           Tulya]
 gi|254699816|ref|ZP_05161644.1| transcription-repair coupling factor [Brucella suis bv. 5 str. 513]
 gi|261216031|ref|ZP_05930312.1| transcription-repair coupling factor [Brucella abortus bv. 3 str.
           Tulya]
 gi|261750288|ref|ZP_05993997.1| transcription-repair coupling factor [Brucella suis bv. 5 str. 513]
 gi|260917638|gb|EEX84499.1| transcription-repair coupling factor [Brucella abortus bv. 3 str.
           Tulya]
 gi|261740041|gb|EEY27967.1| transcription-repair coupling factor [Brucella suis bv. 5 str. 513]
          Length = 1170

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|225629075|ref|ZP_03787108.1| transcription-repair coupling factor [Brucella ceti str. Cudo]
 gi|254705928|ref|ZP_05167756.1| transcription-repair coupling factor [Brucella pinnipedialis
           M163/99/10]
 gi|254711152|ref|ZP_05172963.1| transcription-repair coupling factor [Brucella pinnipedialis B2/94]
 gi|254712390|ref|ZP_05174201.1| transcription-repair coupling factor [Brucella ceti M644/93/1]
 gi|254715462|ref|ZP_05177273.1| transcription-repair coupling factor [Brucella ceti M13/05/1]
 gi|256029533|ref|ZP_05443147.1| transcription-repair coupling factor [Brucella pinnipedialis
           M292/94/1]
 gi|260167377|ref|ZP_05754188.1| transcription-repair coupling factor [Brucella sp. F5/99]
 gi|261217195|ref|ZP_05931476.1| transcription-repair coupling factor [Brucella ceti M13/05/1]
 gi|261313356|ref|ZP_05952553.1| transcription-repair coupling factor [Brucella pinnipedialis
           M163/99/10]
 gi|261318744|ref|ZP_05957941.1| transcription-repair coupling factor [Brucella pinnipedialis B2/94]
 gi|261320066|ref|ZP_05959263.1| transcription-repair coupling factor [Brucella ceti M644/93/1]
 gi|261756785|ref|ZP_06000494.1| transcription repair coupling factor [Brucella sp. F5/99]
 gi|265986542|ref|ZP_06099099.1| transcription-repair coupling factor [Brucella pinnipedialis
           M292/94/1]
 gi|225615571|gb|EEH12620.1| transcription-repair coupling factor [Brucella ceti str. Cudo]
 gi|260922284|gb|EEX88852.1| transcription-repair coupling factor [Brucella ceti M13/05/1]
 gi|261292756|gb|EEX96252.1| transcription-repair coupling factor [Brucella ceti M644/93/1]
 gi|261297967|gb|EEY01464.1| transcription-repair coupling factor [Brucella pinnipedialis B2/94]
 gi|261302382|gb|EEY05879.1| transcription-repair coupling factor [Brucella pinnipedialis
           M163/99/10]
 gi|261736769|gb|EEY24765.1| transcription repair coupling factor [Brucella sp. F5/99]
 gi|264658739|gb|EEZ29000.1| transcription-repair coupling factor [Brucella pinnipedialis
           M292/94/1]
          Length = 1170

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|256015355|ref|YP_003105364.1| transcription-repair coupling factor [Brucella microti CCM 4915]
 gi|255998015|gb|ACU49702.1| transcription-repair coupling factor [Brucella microti CCM 4915]
          Length = 1122

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 458 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 513

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 514 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 542


>gi|225686365|ref|YP_002734337.1| transcription-repair coupling factor [Brucella melitensis ATCC
           23457]
 gi|256262494|ref|ZP_05465026.1| transcription-repair coupling factor Mfd [Brucella melitensis bv. 2
           str. 63/9]
 gi|225642470|gb|ACO02383.1| transcription-repair coupling factor [Brucella melitensis ATCC
           23457]
 gi|263092231|gb|EEZ16528.1| transcription-repair coupling factor Mfd [Brucella melitensis bv. 2
           str. 63/9]
 gi|326410736|gb|ADZ67800.1| transcription-repair coupling factor [Brucella melitensis M28]
 gi|326554029|gb|ADZ88668.1| transcription-repair coupling factor [Brucella melitensis M5-90]
          Length = 1170

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|219853470|ref|YP_002470592.1| hypothetical protein CKR_0127 [Clostridium kluyveri NBRC 12016]
 gi|219567194|dbj|BAH05178.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 1183

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 3   FQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
             +K  +  + F   + G+ IV+  HG+G    IK+ E+ G K ++  + ++ +   L V
Sbjct: 500 TNKKGTSKIKSFTELKPGDFIVHVNHGIGVYKGIKQLELQGHKKDYLELVYECED-KLYV 558

Query: 60  PVGKAIDI 67
           PV +   +
Sbjct: 559 PVEQLDMV 566


>gi|220932952|ref|YP_002509860.1| transcription-repair coupling factor [Halothermothrix orenii H 168]
 gi|219994262|gb|ACL70865.1| transcription-repair coupling factor [Halothermothrix orenii H 168]
          Length = 1170

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+++V+  HG+G    +K   V G   ++ V+ +  +   L VP  +
Sbjct: 504 QVGDYVVHENHGIGKYLGVKTLAVQGQHKDYLVLKYAGED-KLYVPTDQ 551


>gi|182677886|ref|YP_001832032.1| transcription-repair coupling factor [Beijerinckia indica subsp.
           indica ATCC 9039]
 gi|182633769|gb|ACB94543.1| transcription-repair coupling factor [Beijerinckia indica subsp.
           indica ATCC 9039]
          Length = 1173

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 26/102 (25%), Positives = 47/102 (46%), Gaps = 8/102 (7%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    ++  E AG++ +   + + +    L +PV     +  R  SE
Sbjct: 503 QAGDLVVHVEHGIGRFIGLQTIEAAGVRHDCLELHYAEGT-KLFLPVENLELLS-RYGSE 560

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
              V   L  + G A  KR     R + +  ++ SG LI +A
Sbjct: 561 ESDVP--LDRLGGGAWQKR---KARMRRHILEMASG-LIKVA 596


>gi|169628250|ref|YP_001701899.1| transcription-repair coupling factor [Mycobacterium abscessus ATCC
           19977]
 gi|169240217|emb|CAM61245.1| Probable transcription-repair coupling factor (TrcF) [Mycobacterium
           abscessus]
          Length = 1216

 Score = 43.2 bits (101), Expect = 0.015,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 9/60 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM---------CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +   K           L VP+     +
Sbjct: 520 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASGKRGAAAGGQSDRLYVPMDSLDQL 579


>gi|239833942|ref|ZP_04682270.1| transcription-repair coupling factor [Ochrobactrum intermedium LMG
           3301]
 gi|239822005|gb|EEQ93574.1| transcription-repair coupling factor [Ochrobactrum intermedium LMG
           3301]
          Length = 1171

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 45/122 (36%), Gaps = 25/122 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
             +  L  + G A      W  R     AK+    L+ IA     L +         +ER
Sbjct: 562 GSDAVLDKLGGGA------WQMR----KAKLKK-RLLEIA---GQLIQI-------AAER 600

Query: 137 QL 138
           Q+
Sbjct: 601 QM 602


>gi|225016418|ref|ZP_03705610.1| hypothetical protein CLOSTMETH_00321 [Clostridium methylpentosum
           DSM 5476]
 gi|224950803|gb|EEG32012.1| hypothetical protein CLOSTMETH_00321 [Clostridium methylpentosum
           DSM 5476]
          Length = 1152

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+ +HG+G    I    + G+  ++  I +    + L VPV +   +
Sbjct: 492 NVGDFVVHVSHGIGVFEGIANLNLQGVSKDYIKIKYKGSDV-LYVPVTQLDMV 543


>gi|320352705|ref|YP_004194044.1| transcription-repair coupling factor [Desulfobulbus propionicus DSM
           2032]
 gi|320121207|gb|ADW16753.1| transcription-repair coupling factor [Desulfobulbus propionicus DSM
           2032]
          Length = 1177

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           Q +    +    G+ +V+  HG+G    +   E++G + +F  IAF  D   L VPV +
Sbjct: 490 QGQPVQIEQLAEGDVVVHRDHGIGVFQGLVNMEISGQRGDFLQIAFRDDD-KLYVPVDR 547


>gi|282866318|ref|ZP_06275364.1| transcription-repair coupling factor [Streptomyces sp. ACTE]
 gi|282558904|gb|EFB64460.1| transcription-repair coupling factor [Streptomyces sp. ACTE]
          Length = 1176

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++       + G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 486 MPARRRKSIDPLTLQAGDYIVHEQHGVGRYIEMVQRTVQGATREYLLVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 546 --RLYIPTDQLEQV 557


>gi|326387814|ref|ZP_08209420.1| transcription-repair coupling factor [Novosphingobium
           nitrogenifigens DSM 19370]
 gi|326207860|gb|EGD58671.1| transcription-repair coupling factor [Novosphingobium
           nitrogenifigens DSM 19370]
          Length = 1161

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 26/127 (20%), Positives = 45/127 (35%), Gaps = 18/127 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    ++   V     +   + +      L +PV     + 
Sbjct: 480 AELSALNPGDLVVHMEHGIGRYDGLEAINVGNSPHDCVQLTYAGGD-KLYIPVENLDVLS 538

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R   E+  V  AL  + G+A  KR     R +E            I E+   L  T +Q
Sbjct: 539 -RYGHESDGV--ALDRLGGEAWQKR---KARLRE-----------RILEMAGQLMATAAQ 581

Query: 129 PEKSYSE 135
                ++
Sbjct: 582 RALRQAD 588


>gi|139439093|ref|ZP_01772545.1| Hypothetical protein COLAER_01552 [Collinsella aerofaciens ATCC
           25986]
 gi|133775440|gb|EBA39260.1| Hypothetical protein COLAER_01552 [Collinsella aerofaciens ATCC
           25986]
          Length = 161

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 25/155 (16%), Positives = 47/155 (30%), Gaps = 18/155 (11%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC--LKVPVGKAIDIGMR 70
            F  G+H+++P  GV T+   ++           ++   +      L  PV +A    + 
Sbjct: 1   MFSIGQHVIHPGQGVCTVVGFRD----DTPQPMLLLETKQGHAQTILMYPVAQADR--LH 54

Query: 71  KLSEAHFVERALKLVRGKARVKRT--MWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                   E  L           T    S     +  ++  G       V + +     Q
Sbjct: 55  AAISQQDAEHLLSHYDELECDTFTERNSSLEETHFKQQLKLGAP-ETVRVAKTMMHRIRQ 113

Query: 129 ------PEKSYSERQLYESALNRMVREIAAVNSIS 157
                    SY  R + + A  R + E A    ++
Sbjct: 114 AEEADKKPSSYYMR-VLKEAKRRSIEEFAVALGVT 147


>gi|126737697|ref|ZP_01753427.1| transcription-repair coupling factor [Roseobacter sp. SK209-2-6]
 gi|126721090|gb|EBA17794.1| transcription-repair coupling factor [Roseobacter sp. SK209-2-6]
          Length = 1158

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 475 TETQSLSPGDLVVHVDHGIGRYRGLEVVTAAGAAHECILLEYAE-DSKLYLPVENIE--- 530

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   ++
Sbjct: 531 ---LLSKYGHDEGLLDRLGGGAWQAKKAKLKERIREMADRL 568


>gi|319779214|ref|YP_004130127.1| Transcription-repair coupling factor [Taylorella equigenitalis
           MCE9]
 gi|317109238|gb|ADU91984.1| Transcription-repair coupling factor [Taylorella equigenitalis
           MCE9]
          Length = 1158

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ IV+  HG+G    +   EV G  +E   I ++     L VPV 
Sbjct: 487 QVGDPIVHAQHGIGRYQGLVHLEVNGETVEMLQINYE-GDTKLYVPVS 533


>gi|311743167|ref|ZP_07716975.1| transcription-repair coupling factor [Aeromicrobium marinum DSM
           15272]
 gi|311313847|gb|EFQ83756.1| transcription-repair coupling factor [Aeromicrobium marinum DSM
           15272]
          Length = 1169

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           M  ++++         G+H+V+  HGVG   E+  + V G   E+ VI +   K      
Sbjct: 486 MPTRRRKQVDPLELSPGDHVVHEQHGVGRYVELVNRVVQGAAREYLVIEYGSSKRGQPAD 545

Query: 56  CLKVPVGKAIDI 67
            L +P+ +   I
Sbjct: 546 RLFLPMDQLDQI 557


>gi|222152152|ref|YP_002561312.1| transcription-repair coupling factor [Macrococcus caseolyticus
           JCSC5402]
 gi|222121281|dbj|BAH18616.1| transcription-repair coupling factor [Macrococcus caseolyticus
           JCSC5402]
          Length = 1166

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+++V+  HGVG    ++   V  +  ++  I +      L VPV +   +
Sbjct: 493 QELNIGDYVVHTHHGVGRYLGVETLLVNKLHKDYIKIQYKGTD-QLFVPVDQMSQV 547


>gi|170017776|ref|YP_001728695.1| transcription-repair coupling factor [Leuconostoc citreum KM20]
 gi|169804633|gb|ACA83251.1| Transcription-repair coupling factor [Leuconostoc citreum KM20]
          Length = 1178

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++   V G K ++  IA+ K+   + +PV +   I
Sbjct: 495 NVGDYVVHINHGIGRYEGLQTITVDGGKQDYLSIAYQKNA-KIFIPVTQLNLI 546


>gi|145222538|ref|YP_001133216.1| transcription-repair coupling factor [Mycobacterium gilvum PYR-GCK]
 gi|145215024|gb|ABP44428.1| transcription-repair coupling factor [Mycobacterium gilvum PYR-GCK]
          Length = 1198

 Score = 43.2 bits (101), Expect = 0.016,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ + G + E+ V+ +   K       L VP+     +
Sbjct: 519 GDLVVHDQHGIGRFVEMTERVIGGARREYLVLEYASAKRGGGADRLYVPMDSLDQL 574


>gi|254774025|ref|ZP_05215541.1| hypothetical protein MaviaA2_05024 [Mycobacterium avium subsp.
           avium ATCC 25291]
          Length = 1201

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 30/72 (41%), Gaps = 5/72 (6%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM----- 55
           +  +++          G+ +V+  HG+G   E+ E+   G + E+ V+ +   K      
Sbjct: 487 LAAKRRNTVDPLALTAGDLVVHDQHGIGRFVEMTERTGGGARREYLVLEYASSKRGGGSD 546

Query: 56  CLKVPVGKAIDI 67
            L VP+     +
Sbjct: 547 KLYVPMDSLDQL 558


>gi|120405727|ref|YP_955556.1| transcription-repair coupling factor [Mycobacterium vanbaalenii
           PYR-1]
 gi|119958545|gb|ABM15550.1| transcription-repair coupling factor [Mycobacterium vanbaalenii
           PYR-1]
          Length = 1212

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ + G + E+ V+ +   K       L VP+     +
Sbjct: 520 GDLVVHDQHGIGRFVEMTERVIGGARREYLVLEYASAKRGGGSDRLYVPMDSLDQL 575


>gi|229825975|ref|ZP_04452044.1| hypothetical protein GCWU000182_01339 [Abiotrophia defectiva ATCC
           49176]
 gi|229789717|gb|EEP25831.1| hypothetical protein GCWU000182_01339 [Abiotrophia defectiva ATCC
           49176]
          Length = 1184

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 51/118 (43%), Gaps = 17/118 (14%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++++  HG+G    I++  V G+  ++  + +    + + VP        ++K S A+
Sbjct: 508 GDYVIHENHGIGVYRGIEQFTVEGVTKDYVKVDY-SGDVSIFVPTTNLDV--LQKYSSAN 564

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             +  +  + G+A      W         K  S    +I+E+ RDL    ++ ++   
Sbjct: 565 GAKPKIDKIGGQA------WK--------KTKSKVRQSISEIARDLVELYAKRQQEQG 608


>gi|313888106|ref|ZP_07821780.1| transcription-repair coupling factor [Peptoniphilus harei
           ACS-146-V-Sch2b]
 gi|312845796|gb|EFR33183.1| transcription-repair coupling factor [Peptoniphilus harei
           ACS-146-V-Sch2b]
          Length = 1159

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 24/137 (17%), Positives = 57/137 (41%), Gaps = 33/137 (24%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+ AHGVG     +  EV+G++ ++ +I +  +   L +P+             
Sbjct: 493 QIGDYVVHEAHGVGKYVGTRRLEVSGIQKDYILIEYGGED-KLFLPI------------- 538

Query: 75  AHFVERALKLVRGKARVKRTM------WSR---RAQEYDAKINSGDLIAIAE-VVRDLHR 124
              ++   K V+   R  +        W +   RA++         +  +AE +++    
Sbjct: 539 -EALDSIYKYVQEGNRPPKVNKLNSLDWKKKKARARQ--------SIDDMAEDLIKLYAT 589

Query: 125 TDSQPEKSYSERQLYES 141
            ++    ++SE   Y+ 
Sbjct: 590 RENTKGFAFSEDSQYQR 606


>gi|148557853|ref|YP_001257567.1| transcription-repair coupling factor [Brucella ovis ATCC 25840]
 gi|148369138|gb|ABQ62010.1| transcription-repair coupling factor [Brucella ovis ATCC 25840]
          Length = 1132

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 468 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 523

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 524 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 552


>gi|315442986|ref|YP_004075865.1| transcription-repair coupling factor Mfd [Mycobacterium sp. Spyr1]
 gi|315261289|gb|ADT98030.1| transcription-repair coupling factor Mfd [Mycobacterium sp. Spyr1]
          Length = 1202

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ + G + E+ V+ +   K       L VP+     +
Sbjct: 523 GDLVVHDQHGIGRFVEMTERVIGGARREYLVLEYASAKRGGGSDRLYVPMDSLDQL 578


>gi|317057762|ref|YP_004106229.1| transcription-repair coupling factor [Ruminococcus albus 7]
 gi|315450031|gb|ADU23595.1| transcription-repair coupling factor [Ruminococcus albus 7]
          Length = 1156

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 8/82 (9%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  +G+G    IK  E +G+K ++  I++    + L VPV +   +  R +    
Sbjct: 491 GDLVVHSMYGIGKFMGIKNIETSGVKKDYITISYAGTDV-LYVPVTQLDLVS-RYVGPGE 548

Query: 77  FVERALKLVRGKARVKRTMWSR 98
                L  +        T W+R
Sbjct: 549 DGNIRLNKLN------STEWTR 564


>gi|254465368|ref|ZP_05078779.1| transcription-repair coupling factor [Rhodobacterales bacterium
           Y4I]
 gi|206686276|gb|EDZ46758.1| transcription-repair coupling factor [Rhodobacterales bacterium
           Y4I]
          Length = 1151

 Score = 43.2 bits (101), Expect = 0.017,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 470 TETQSLTPGDLVVHVDHGIGRYKGLEVVTAAGAAHECILLEYAE-ASKLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   K+
Sbjct: 526 ---LLSKYGHEEGLLDRLGGGAWQAKKAKLKERIREMADKL 563


>gi|226307788|ref|YP_002767748.1| transcription-repair coupling factor [Rhodococcus erythropolis PR4]
 gi|226186905|dbj|BAH35009.1| transcription-repair coupling factor [Rhodococcus erythropolis PR4]
          Length = 1229

 Score = 43.2 bits (101), Expect = 0.018,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ + G + E+ VI +   K       L VP+     +
Sbjct: 544 GDMVVHDQHGIGRFVEMVERTIGGARREYLVIEYAPSKRGHPGDRLFVPMESLDQL 599


>gi|310657789|ref|YP_003935510.1| transcription-repair coupling factor [Clostridium sticklandii DSM
           519]
 gi|308824567|emb|CBH20605.1| transcription-repair coupling factor [Clostridium sticklandii]
          Length = 1130

 Score = 43.2 bits (101), Expect = 0.018,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+H+V+  +GVG    I+ ++   ++ ++  I +      L VP+ +   +
Sbjct: 492 KAGDHVVHETYGVGKFVGIESKKFDDIRKDYIKIVYSAGDA-LYVPLSQMDKV 543


>gi|306820709|ref|ZP_07454337.1| transcription-repair coupling factor [Eubacterium yurii subsp.
           margaretiae ATCC 43715]
 gi|304551319|gb|EFM39282.1| transcription-repair coupling factor [Eubacterium yurii subsp.
           margaretiae ATCC 43715]
          Length = 701

 Score = 43.2 bits (101), Expect = 0.018,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  +G+G    I+++E   +K ++  I++      + VP+ +   +
Sbjct: 66  KIGDIVVHEVYGIGKFLGIEQKENNSVKKDYIKISYKDGD-TIYVPISQMDKV 117


>gi|289555197|ref|ZP_06444407.1| LOW QUALITY PROTEIN: transcription-repair coupling factor mfd
           [Mycobacterium tuberculosis KZN 605]
 gi|289439829|gb|EFD22322.1| LOW QUALITY PROTEIN: transcription-repair coupling factor mfd
           [Mycobacterium tuberculosis KZN 605]
          Length = 824

 Score = 43.2 bits (101), Expect = 0.018,   Method: Composition-based stats.
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF--------DKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ V+ +         K+   L VP+     +
Sbjct: 111 GDLVVHDQHGIGRFVEMVERTVGGARREYLVLEYASAKRGGGAKNTDKLYVPMDSLDQL 169


>gi|159044110|ref|YP_001532904.1| transcription repair coupling factor [Dinoroseobacter shibae DFL
           12]
 gi|157911870|gb|ABV93303.1| transcription repair coupling factor [Dinoroseobacter shibae DFL
           12]
          Length = 1160

 Score = 43.2 bits (101), Expect = 0.019,   Method: Composition-based stats.
 Identities = 26/116 (22%), Positives = 42/116 (36%), Gaps = 27/116 (23%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI-------DIGM 69
           G+ +V+  HGVG    ++     G   E  ++ +      L +PV           +IGM
Sbjct: 489 GDLVVHVDHGVGAFKGLETVTAMGAPHECLLLEYAGGD-RLYLPVENIELLSRFGQEIGM 547

Query: 70  RKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
                       L  + G A + K+     R +E   K+    +   AE  R L R
Sbjct: 548 ------------LDKLGGGAWQAKKAKLKERIREMADKL----IRIAAE--RALRR 585


>gi|227499516|ref|ZP_03929623.1| transcription-repair coupling factor [Anaerococcus tetradius ATCC
           35098]
 gi|227218395|gb|EEI83646.1| transcription-repair coupling factor [Anaerococcus tetradius ATCC
           35098]
          Length = 1170

 Score = 43.2 bits (101), Expect = 0.019,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  +G+G    +++ EV  ++ +F VI +      L +PV +   +
Sbjct: 504 EIGDYVVHENNGIGIYKGLEKIEVNNIEKDFIVIEYRASD-RLYIPVDQMNLV 555


>gi|161620641|ref|YP_001594527.1| transcription-repair coupling factor [Brucella canis ATCC 23365]
 gi|260568134|ref|ZP_05838603.1| conserved hypothetical protein [Brucella suis bv. 4 str. 40]
 gi|161337452|gb|ABX63756.1| transcription-repair coupling factor [Brucella canis ATCC 23365]
 gi|260154799|gb|EEW89880.1| conserved hypothetical protein [Brucella suis bv. 4 str. 40]
          Length = 1170

 Score = 43.2 bits (101), Expect = 0.019,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 21/103 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI---GMRKLS 73
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +   G+    
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLSRYGL---- 560

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
                +  L  + G A      W  R     AK+    L+ IA
Sbjct: 561 --EGSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|314949307|ref|ZP_07852650.1| transcription-repair coupling factor [Enterococcus faecium TX0082]
 gi|313644313|gb|EFS08893.1| transcription-repair coupling factor [Enterococcus faecium TX0082]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.019,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|293571071|ref|ZP_06682112.1| transcription-repair coupling factor [Enterococcus faecium E980]
 gi|291608854|gb|EFF38135.1| transcription-repair coupling factor [Enterococcus faecium E980]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.019,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|257888639|ref|ZP_05668292.1| transcription-repair coupling factor [Enterococcus faecium
           1,141,733]
 gi|257824693|gb|EEV51625.1| transcription-repair coupling factor [Enterococcus faecium
           1,141,733]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.019,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|157803549|ref|YP_001492098.1| hypothetical protein A1E_01840 [Rickettsia canadensis str. McKiel]
 gi|157784812|gb|ABV73313.1| hypothetical protein A1E_01840 [Rickettsia canadensis str. McKiel]
          Length = 1119

 Score = 42.8 bits (100), Expect = 0.019,   Method: Composition-based stats.
 Identities = 21/117 (17%), Positives = 47/117 (40%), Gaps = 20/117 (17%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV          + + +
Sbjct: 458 GEFVVHKDHGIGKFLKLEALEIKGKLHDFLKILYAGND-KLYIPVENIE------VIKKY 510

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
             + A        ++    W +R++    K+       I E+   L +  +Q + + 
Sbjct: 511 GNDNA-----ELDKLGSVSW-QRSKA---KLK----NRIKEIALHLIQIAAQRKLNT 554


>gi|254702954|ref|ZP_05164782.1| transcription-repair coupling factor [Brucella suis bv. 3 str. 686]
 gi|261753561|ref|ZP_05997270.1| transcription-repair coupling factor [Brucella suis bv. 3 str. 686]
 gi|261743314|gb|EEY31240.1| transcription-repair coupling factor [Brucella suis bv. 3 str. 686]
          Length = 1170

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 21/103 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI---GMRKLS 73
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +   G+    
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLSRYGL---- 560

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
                +  L  + G A      W  R     AK+    L+ IA
Sbjct: 561 --EGSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|227552670|ref|ZP_03982719.1| transcription-repair coupling factor [Enterococcus faecium TX1330]
 gi|257897406|ref|ZP_05677059.1| transcription-repair coupling factor [Enterococcus faecium Com12]
 gi|293378835|ref|ZP_06624990.1| transcription-repair coupling factor [Enterococcus faecium PC4.1]
 gi|227178199|gb|EEI59171.1| transcription-repair coupling factor [Enterococcus faecium TX1330]
 gi|257833971|gb|EEV60392.1| transcription-repair coupling factor [Enterococcus faecium Com12]
 gi|292642376|gb|EFF60531.1| transcription-repair coupling factor [Enterococcus faecium PC4.1]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|23500323|ref|NP_699763.1| transcription-repair coupling factor [Brucella suis 1330]
 gi|23463936|gb|AAN33768.1| transcription-repair coupling factor [Brucella suis 1330]
          Length = 1122

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 21/103 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI---GMRKLS 73
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +   G+    
Sbjct: 458 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLSRYGL---- 512

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
                +  L  + G A      W  R     AK+    L+ IA
Sbjct: 513 --EGSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 542


>gi|69245443|ref|ZP_00603438.1| Transcription-repair coupling factor [Enterococcus faecium DO]
 gi|257879854|ref|ZP_05659507.1| transcription-repair coupling factor [Enterococcus faecium
           1,230,933]
 gi|257882580|ref|ZP_05662233.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,502]
 gi|257891695|ref|ZP_05671348.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,410]
 gi|257894170|ref|ZP_05673823.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,408]
 gi|258614282|ref|ZP_05712052.1| transcription-repair coupling factor [Enterococcus faecium DO]
 gi|260559527|ref|ZP_05831708.1| transcription-repair coupling factor [Enterococcus faecium C68]
 gi|261206678|ref|ZP_05921376.1| transcription-repair coupling factor [Enterococcus faecium TC 6]
 gi|289565039|ref|ZP_06445493.1| transcription-repair coupling factor [Enterococcus faecium D344SRF]
 gi|293563193|ref|ZP_06677649.1| transcription-repair coupling factor [Enterococcus faecium E1162]
 gi|293570115|ref|ZP_06681195.1| transcription-repair coupling factor [Enterococcus faecium E1071]
 gi|294614900|ref|ZP_06694791.1| transcription-repair coupling factor [Enterococcus faecium E1636]
 gi|294623704|ref|ZP_06702537.1| transcription-repair coupling factor [Enterococcus faecium U0317]
 gi|314938215|ref|ZP_07845515.1| transcription-repair coupling factor [Enterococcus faecium
           TX0133a04]
 gi|314943110|ref|ZP_07849909.1| transcription-repair coupling factor [Enterococcus faecium TX0133C]
 gi|314952240|ref|ZP_07855255.1| transcription-repair coupling factor [Enterococcus faecium TX0133A]
 gi|314992098|ref|ZP_07857548.1| transcription-repair coupling factor [Enterococcus faecium TX0133B]
 gi|314996281|ref|ZP_07861337.1| transcription-repair coupling factor [Enterococcus faecium
           TX0133a01]
 gi|68195825|gb|EAN10261.1| Transcription-repair coupling factor [Enterococcus faecium DO]
 gi|257814082|gb|EEV42840.1| transcription-repair coupling factor [Enterococcus faecium
           1,230,933]
 gi|257818238|gb|EEV45566.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,502]
 gi|257828055|gb|EEV54681.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,410]
 gi|257830549|gb|EEV57156.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,408]
 gi|260074626|gb|EEW62947.1| transcription-repair coupling factor [Enterococcus faecium C68]
 gi|260079171|gb|EEW66864.1| transcription-repair coupling factor [Enterococcus faecium TC 6]
 gi|289163246|gb|EFD11092.1| transcription-repair coupling factor [Enterococcus faecium D344SRF]
 gi|291587487|gb|EFF19371.1| transcription-repair coupling factor [Enterococcus faecium E1071]
 gi|291592186|gb|EFF23804.1| transcription-repair coupling factor [Enterococcus faecium E1636]
 gi|291596919|gb|EFF28137.1| transcription-repair coupling factor [Enterococcus faecium U0317]
 gi|291604843|gb|EFF34321.1| transcription-repair coupling factor [Enterococcus faecium E1162]
 gi|313589525|gb|EFR68370.1| transcription-repair coupling factor [Enterococcus faecium
           TX0133a01]
 gi|313593312|gb|EFR72157.1| transcription-repair coupling factor [Enterococcus faecium TX0133B]
 gi|313595635|gb|EFR74480.1| transcription-repair coupling factor [Enterococcus faecium TX0133A]
 gi|313598169|gb|EFR77014.1| transcription-repair coupling factor [Enterococcus faecium TX0133C]
 gi|313642411|gb|EFS06991.1| transcription-repair coupling factor [Enterococcus faecium
           TX0133a04]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|257899966|ref|ZP_05679619.1| transcription-repair coupling factor [Enterococcus faecium Com15]
 gi|257837878|gb|EEV62952.1| transcription-repair coupling factor [Enterococcus faecium Com15]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|229494982|ref|ZP_04388731.1| transcription-repair coupling factor [Rhodococcus erythropolis
           SK121]
 gi|229318076|gb|EEN83948.1| transcription-repair coupling factor [Rhodococcus erythropolis
           SK121]
          Length = 1208

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ + G + E+ VI +   K       L VP+     +
Sbjct: 523 GDMVVHDQHGIGRFVEMVERTIGGARREYLVIEYAPSKRGHPGDRLFVPMESLDQL 578


>gi|325568171|ref|ZP_08144612.1| transcription-repair coupling factor [Enterococcus casseliflavus
           ATCC 12755]
 gi|325158372|gb|EGC70523.1| transcription-repair coupling factor [Enterococcus casseliflavus
           ATCC 12755]
          Length = 1172

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    ++  EV G+  ++  I +  +   L +PV +   I
Sbjct: 497 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNED-KLFIPVTQLNLI 548


>gi|163844731|ref|YP_001622386.1| transcription-repair coupling factor [Brucella suis ATCC 23445]
 gi|163675454|gb|ABY39564.1| transcription-repair coupling factor [Brucella suis ATCC 23445]
          Length = 1170

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 21/103 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI---GMRKLS 73
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +   G+    
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLSRYGL---- 560

Query: 74  EAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
                +  L  + G A      W  R     AK+    L+ IA
Sbjct: 561 --EGSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|293553692|ref|ZP_06674316.1| transcription-repair coupling factor [Enterococcus faecium E1039]
 gi|291602267|gb|EFF32495.1| transcription-repair coupling factor [Enterococcus faecium E1039]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|294618628|ref|ZP_06698167.1| transcription-repair coupling factor [Enterococcus faecium E1679]
 gi|291595147|gb|EFF26485.1| transcription-repair coupling factor [Enterococcus faecium E1679]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|159036485|ref|YP_001535738.1| transcription-repair coupling factor [Salinispora arenicola
           CNS-205]
 gi|157915320|gb|ABV96747.1| transcription-repair coupling factor [Salinispora arenicola
           CNS-205]
          Length = 1218

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           R G+H+V+  HG+G   E+ ++ V G   E+ VI +   K       L VP  +   +
Sbjct: 531 RAGDHVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSKRGQPGDRLFVPTDQLDQL 588


>gi|84503554|ref|ZP_01001605.1| transcription-repair coupling factor [Oceanicola batsensis
           HTCC2597]
 gi|84388044|gb|EAQ01092.1| transcription-repair coupling factor [Oceanicola batsensis
           HTCC2597]
          Length = 1152

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 15/118 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  V+ + ++   L +PV       
Sbjct: 476 TEAQSLSPGDLVVHVDHGIGRYLGMEVITAAGAAHECLVLEYAEEA-RLYLPVENIE--- 531

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              L   +  E   L  + G A + K+     R +E   ++    +   AE  R L R
Sbjct: 532 ---LLSKYGHEEGLLDRLGGGAWQAKKARLKERIREMADRL----IRIAAE--RALRR 580


>gi|257886022|ref|ZP_05665675.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,501]
 gi|257821878|gb|EEV49008.1| transcription-repair coupling factor [Enterococcus faecium
           1,231,501]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 499 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 550


>gi|163791051|ref|ZP_02185472.1| transcription-repair coupling factor [Carnobacterium sp. AT7]
 gi|159873696|gb|EDP67779.1| transcription-repair coupling factor [Carnobacterium sp. AT7]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.020,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
             G+++V+  HG+G  T ++  E+ G+  ++  I   KD+  L +PV
Sbjct: 499 NPGDYVVHVNHGIGKYTGMETLEINGIYQDYMSI-IYKDEAKLFIPV 544


>gi|313900859|ref|ZP_07834349.1| transcription-repair coupling factor [Clostridium sp. HGF2]
 gi|312954279|gb|EFR35957.1| transcription-repair coupling factor [Clostridium sp. HGF2]
          Length = 1151

 Score = 42.8 bits (100), Expect = 0.021,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 3/78 (3%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  HG+G    I  +++ G+  +F  IA+  D + L VP+ +     +RK
Sbjct: 477 QELNVGDYVVHNQHGIGKYLGIVNKKIDGVHKDFLHIAYKGDDV-LLVPLEQFKL--IRK 533

Query: 72  LSEAHFVERALKLVRGKA 89
                     L  +    
Sbjct: 534 FVSKEGASPKLNKLGSGE 551


>gi|227824817|ref|ZP_03989649.1| transcription-repair coupling factor [Acidaminococcus sp. D21]
 gi|226905316|gb|EEH91234.1| transcription-repair coupling factor [Acidaminococcus sp. D21]
          Length = 1093

 Score = 42.8 bits (100), Expect = 0.021,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 27/55 (49%), Gaps = 4/55 (7%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G+++V+   G+G    ++   + G+  ++  + + +    L VPV     +G+
Sbjct: 430 KAGDYVVHDTQGIGRYLGVETIVIDGIHRDYLKLQYAQGD-KLHVPV---EQVGL 480


>gi|302542946|ref|ZP_07295288.1| transcription-repair coupling factor [Streptomyces hygroscopicus
           ATCC 53653]
 gi|302460564|gb|EFL23657.1| transcription-repair coupling factor [Streptomyces himastatinicus
           ATCC 53653]
          Length = 1177

 Score = 42.8 bits (100), Expect = 0.021,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G+ IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 487 MPARRRKTIDPLTLEAGDFIVHEQHGVGRYIEMVQRTVQGATREYLVVEYAPAKRGQPGD 546

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 547 --RLYIPTDQLEQI 558


>gi|254977126|ref|ZP_05273598.1| transcription-repair coupling factor [Clostridium difficile
           QCD-66c26]
 gi|255094455|ref|ZP_05323933.1| transcription-repair coupling factor [Clostridium difficile CIP
           107932]
 gi|255316206|ref|ZP_05357789.1| transcription-repair coupling factor [Clostridium difficile
           QCD-76w55]
 gi|255518868|ref|ZP_05386544.1| transcription-repair coupling factor [Clostridium difficile
           QCD-97b34]
 gi|255652047|ref|ZP_05398949.1| transcription-repair coupling factor [Clostridium difficile
           QCD-37x79]
 gi|260685021|ref|YP_003216306.1| transcription-repair coupling factor [Clostridium difficile CD196]
 gi|260688679|ref|YP_003219813.1| transcription-repair coupling factor [Clostridium difficile R20291]
 gi|260211184|emb|CBA66656.1| transcription-repair coupling factor [Clostridium difficile CD196]
 gi|260214696|emb|CBE07346.1| transcription-repair coupling factor [Clostridium difficile R20291]
          Length = 1128

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+   GVG  T I++  V  +K ++  I +      L VP+ +   +
Sbjct: 493 SVGDYVVHENSGVGRYTGIEQITVNAIKKDYMKIVYQGGD-NLYVPIDQMDKV 544


>gi|241896607|ref|ZP_04783903.1| transcription-repair coupling factor [Weissella paramesenteroides
           ATCC 33313]
 gi|241870088|gb|EER73839.1| transcription-repair coupling factor [Weissella paramesenteroides
           ATCC 33313]
          Length = 1166

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V   HG+G    ++  E  G+K ++  IA+ K    L +PV +   +
Sbjct: 497 KPGDYVVNVNHGIGIYEGMQTIENRGVKQDYITIAYQKGD-KLFIPVTQLDLV 548


>gi|255657458|ref|ZP_05402867.1| transcription-repair coupling factor [Clostridium difficile
           QCD-23m63]
 gi|296449053|ref|ZP_06890843.1| transcription-repair coupling factor [Clostridium difficile NAP08]
 gi|296879876|ref|ZP_06903849.1| transcription-repair coupling factor [Clostridium difficile NAP07]
 gi|296262146|gb|EFH08951.1| transcription-repair coupling factor [Clostridium difficile NAP08]
 gi|296429165|gb|EFH15039.1| transcription-repair coupling factor [Clostridium difficile NAP07]
          Length = 1128

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+   GVG  T I++  V  +K ++  I +      L VP+ +   +
Sbjct: 493 SVGDYVVHENSGVGRYTGIEQITVNAIKKDYMKIVYQGGD-NLYVPIDQMDKV 544


>gi|126701125|ref|YP_001090022.1| transcription-repair coupling factor [Clostridium difficile 630]
 gi|255102711|ref|ZP_05331688.1| transcription-repair coupling factor [Clostridium difficile
           QCD-63q42]
 gi|255308532|ref|ZP_05352703.1| transcription-repair coupling factor [Clostridium difficile ATCC
           43255]
 gi|115252562|emb|CAJ70405.1| Transcription-repair coupling factor (TRCF ATP-dependent helicase
           mfd) [Clostridium difficile]
          Length = 1128

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+   GVG  T I++  V  +K ++  I +      L VP+ +   +
Sbjct: 493 SVGDYVVHENSGVGRYTGIEQITVNAIKKDYMKIVYQGGD-NLYVPIDQMDKV 544


>gi|145593442|ref|YP_001157739.1| transcription-repair coupling factor [Salinispora tropica CNB-440]
 gi|145302779|gb|ABP53361.1| transcription-repair coupling factor [Salinispora tropica CNB-440]
          Length = 1216

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           R G+H+V+  HG+G   E+ ++ V G   E+ VI +   K       L VP  +   +
Sbjct: 529 RAGDHVVHEQHGIGRYVELVQRTVNGASREYLVIEYAPSKRGQPGDRLFVPTDQLDQL 586


>gi|15902050|ref|NP_357600.1| transcription-repair coupling factor [Streptococcus pneumoniae R6]
 gi|116516151|ref|YP_815427.1| transcription-repair coupling factor [Streptococcus pneumoniae D39]
 gi|15457534|gb|AAK98810.1| Transcription-repair coupling factor [Streptococcus pneumoniae R6]
 gi|116076727|gb|ABJ54447.1| transcription-repair coupling factor [Streptococcus pneumoniae D39]
          Length = 1169

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+  +  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKEIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|169833013|ref|YP_001693440.1| transcription-repair coupling factor [Streptococcus pneumoniae
           Hungary19A-6]
 gi|168995515|gb|ACA36127.1| transcription-repair coupling factor [Streptococcus pneumoniae
           Hungary19A-6]
          Length = 1169

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+  +  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKEIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|168491776|ref|ZP_02715919.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC0288-04]
 gi|183573939|gb|EDT94467.1| transcription-repair coupling factor [Streptococcus pneumoniae
           CDC0288-04]
          Length = 1169

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+  +  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKEIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|148245051|ref|YP_001219745.1| transcription-repair coupling factor [Candidatus Vesicomyosocius
           okutanii HA]
 gi|146326878|dbj|BAF62021.1| transcription-repair coupling factor [Candidatus Vesicomyosocius
           okutanii HA]
          Length = 1145

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           + G+ IV+  +GVG    +K +       +F V+ +  +   L VP+
Sbjct: 480 KIGDAIVHENYGVGRYLGLKTKIFDKQSQDFLVLKYA-NNAKLMVPI 525


>gi|260463949|ref|ZP_05812145.1| transcription-repair coupling factor [Mesorhizobium opportunistum
           WSM2075]
 gi|259030324|gb|EEW31604.1| transcription-repair coupling factor [Mesorhizobium opportunistum
           WSM2075]
          Length = 1165

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 29/130 (22%), Positives = 46/130 (35%), Gaps = 25/130 (19%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    ++  E  G   +   I +  D   L +PV     + 
Sbjct: 491 AEASALSAGDIVVHADHGIGRFIGLRTIEAVGAPHDCLEIHYAGDD-RLFLPVENIELLS 549

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R    +   E  L  + G A      W  R     AK+    L+ +A     L R    
Sbjct: 550 -RY--GSDTAEATLDKLGGGA------WQSR----KAKLKK-RLLDMA---GQLIRI--- 589

Query: 129 PEKSYSERQL 138
                +ERQ+
Sbjct: 590 ----AAERQM 595


>gi|168576116|ref|ZP_02722021.1| transcription-repair coupling factor [Streptococcus pneumoniae
           MLV-016]
 gi|307066642|ref|YP_003875608.1| transcription-repair coupling factor [Streptococcus pneumoniae
           AP200]
 gi|183578032|gb|EDT98560.1| transcription-repair coupling factor [Streptococcus pneumoniae
           MLV-016]
 gi|306408179|gb|ADM83606.1| Transcription-repair coupling factor (superfamily II helicase)
           [Streptococcus pneumoniae AP200]
          Length = 1169

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+  +  ++  + +      + +PV + 
Sbjct: 492 GDYVVHHIHGIGQYLGIETIEIKEIHRDYVSVQYQNGD-QISIPVEQI 538


>gi|148997952|ref|ZP_01825465.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP11-BS70]
 gi|147755962|gb|EDK63005.1| transcription-repair coupling factor [Streptococcus pneumoniae
           SP11-BS70]
          Length = 1118

 Score = 42.8 bits (100), Expect = 0.022,   Method: Composition-based stats.
 Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           G+++V+  HG+G    I+  E+  +  ++  + +      + +PV + 
Sbjct: 441 GDYVVHHIHGIGQYLGIETIEIKEIHRDYVSVQYQNGD-QISIPVEQI 487


>gi|296448068|ref|ZP_06889971.1| transcription-repair coupling factor [Methylosinus trichosporium
           OB3b]
 gi|296254425|gb|EFH01549.1| transcription-repair coupling factor [Methylosinus trichosporium
           OB3b]
          Length = 1173

 Score = 42.8 bits (100), Expect = 0.023,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    ++    AG   +   I +      L +PV    
Sbjct: 504 GDLVVHVDHGIGRFIGLETITAAGAPHDCLEIHYAGGD-KLYLPVENIE 551


>gi|118474341|ref|YP_891912.1| transcription-repair coupling factor [Campylobacter fetus subsp.
           fetus 82-40]
 gi|118413567|gb|ABK81987.1| transcription-repair coupling factor [Campylobacter fetus subsp.
           fetus 82-40]
          Length = 985

 Score = 42.8 bits (100), Expect = 0.023,   Method: Composition-based stats.
 Identities = 19/64 (29%), Positives = 33/64 (51%), Gaps = 2/64 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           +TG+ +V+  +G+G    ++   V G K EF VIA+  +   L +PV     I  R ++ 
Sbjct: 351 KTGDFVVHSDYGIGKFLGLELITVLGSKKEFVVIAYQNND-KLLLPVEHLNMID-RYIAG 408

Query: 75  AHFV 78
           +  V
Sbjct: 409 SGAV 412


>gi|108803751|ref|YP_643688.1| transcription-repair coupling factor [Rubrobacter xylanophilus DSM
           9941]
 gi|108764994|gb|ABG03876.1| transcription-repair coupling factor [Rubrobacter xylanophilus DSM
           9941]
          Length = 1054

 Score = 42.8 bits (100), Expect = 0.023,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 23/51 (45%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           + G+ +V+   G+G    +  +EV G+  ++  + +      L VP  +  
Sbjct: 399 KPGDLVVHAVQGIGRFEGLVSKEVLGVTRDYMQVTYRGGD-TLFVPYEQME 448


>gi|154250423|ref|YP_001411248.1| DEAD/DEAH box helicase domain-containing protein [Fervidobacterium
           nodosum Rt17-B1]
 gi|154154359|gb|ABS61591.1| DEAD/DEAH box helicase domain protein [Fervidobacterium nodosum
           Rt17-B1]
          Length = 923

 Score = 42.8 bits (100), Expect = 0.023,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 11/84 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +G+   TEIK+ E      EF V+ F      L VP+ +        L +
Sbjct: 282 QVGDLVVHKRYGIARFTEIKKVETISGAKEFLVLNFA--DSTLYVPIERI------DLID 333

Query: 75  AHFVERALKLVRGKARVKRTMWSR 98
            +  +     +     +K+  WS+
Sbjct: 334 KYIGDDVNVKL---DSLKKGTWSK 354


>gi|57233929|ref|YP_181993.1| transcription-repair coupling factor [Dehalococcoides ethenogenes
           195]
 gi|57224377|gb|AAW39434.1| transcription-repair coupling factor [Dehalococcoides ethenogenes
           195]
          Length = 1148

 Score = 42.8 bits (100), Expect = 0.023,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 39/101 (38%), Gaps = 14/101 (13%)

Query: 6   KRDAMRQG----FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           KR + R+G     + GE +V+  HGV   + +      GM  E+ ++ +      L VP 
Sbjct: 472 KRPSARKGVVLDIKPGEFVVHIDHGVALFSGVSHLNRDGMDKEYLILNYAGGD-KLYVPT 530

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQE 102
            +   +  R +                 R+    W +RA+E
Sbjct: 531 DQMDRVN-RFIGSGDEPPSL-------HRLGTQEW-QRAKE 562


>gi|123966148|ref|YP_001011229.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9515]
 gi|123200514|gb|ABM72122.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9515]
          Length = 1175

 Score = 42.8 bits (100), Expect = 0.024,   Method: Composition-based stats.
 Identities = 10/43 (23%), Positives = 24/43 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G++IV+  HG+G   ++++  + G   ++ VI +   K+ +
Sbjct: 493 NPGDYIVHKNHGIGQFLKLEKINITGESRDYLVIKYLDGKISV 535


>gi|33240450|ref|NP_875392.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           subsp. marinus str. CCMP1375]
 gi|33237978|gb|AAQ00045.1| Transcription-repair coupling factor [Prochlorococcus marinus
           subsp. marinus str. CCMP1375]
          Length = 1170

 Score = 42.8 bits (100), Expect = 0.024,   Method: Composition-based stats.
 Identities = 22/120 (18%), Positives = 50/120 (41%), Gaps = 18/120 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           ++G+++V+  HGVG   +I++  V     ++ ++        L+V   +   +G R  + 
Sbjct: 488 KSGDYVVHRNHGVGKFLKIEKFIVNNESRDYLLVQ--YSDGTLRVAADQLSSLG-RYRNS 544

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +    R         ++    W++ A+E   K       +I+ V  DL +  ++   S  
Sbjct: 545 SDKSPRI-------NKLGGNTWTK-AKERAKK-------SISRVAIDLIKLYAERSNSQG 589


>gi|322379145|ref|ZP_08053542.1| transcription-repair coupling factor [Helicobacter suis HS1]
 gi|322380425|ref|ZP_08054627.1| transcription-repair coupling factor [Helicobacter suis HS5]
 gi|321147136|gb|EFX41834.1| transcription-repair coupling factor [Helicobacter suis HS5]
 gi|321148441|gb|EFX42944.1| transcription-repair coupling factor [Helicobacter suis HS1]
          Length = 986

 Score = 42.8 bits (100), Expect = 0.024,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  +GVG    + +Q + G   +F  + +  + M L +PV     +
Sbjct: 359 SPGDFVVHENYGVGLFKGLVQQSIFGSVRDFIALEYQNEDM-LLLPVENLHLV 410


>gi|193213782|ref|YP_001994981.1| transcription-repair coupling factor [Chloroherpeton thalassium
           ATCC 35110]
 gi|193087259|gb|ACF12534.1| transcription-repair coupling factor [Chloroherpeton thalassium
           ATCC 35110]
          Length = 1110

 Score = 42.8 bits (100), Expect = 0.024,   Method: Composition-based stats.
 Identities = 24/127 (18%), Positives = 52/127 (40%), Gaps = 24/127 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           +  + G++IV+  +G+G    +++ +V G + E  ++ +DK    L V      ++ +  
Sbjct: 413 RALKVGDYIVHEDYGIGVFMGMEKTKVGGSEQECVLVEYDKGD-KLFV---NIQNLHLLS 468

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
              +   +     V   +++    W    Q    KI    L  IA   R+L         
Sbjct: 469 KYSSAEGK-----VPTLSKLGSNKW----QANKEKIKK-RLKDIA---RNLIAI------ 509

Query: 132 SYSERQL 138
            Y++R++
Sbjct: 510 -YAKRKM 515


>gi|291522023|emb|CBK80316.1| transcription-repair coupling factor [Coprococcus catus GD/7]
          Length = 1178

 Score = 42.8 bits (100), Expect = 0.024,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 3/41 (7%)

Query: 12  QGFR---TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA 49
           + F+    G+++V+  HGVG    I+  EV G+  ++  I 
Sbjct: 500 RSFKELSVGDYVVHEGHGVGIYRGIENVEVDGVAKDYIKIE 540


>gi|116617523|ref|YP_817894.1| transcription-repair coupling factor [Leuconostoc mesenteroides
           subsp. mesenteroides ATCC 8293]
 gi|116096370|gb|ABJ61521.1| transcription-repair coupling factor [Leuconostoc mesenteroides
           subsp. mesenteroides ATCC 8293]
          Length = 1179

 Score = 42.8 bits (100), Expect = 0.024,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++  E  G K ++  IA+ +    + +PV +   I
Sbjct: 494 NVGDYVVHINHGIGRYEGLQTIEADGGKQDYLTIAY-QQNAKIFIPVTQLNLI 545


>gi|227432633|ref|ZP_03914609.1| transcription-repair coupling factor [Leuconostoc mesenteroides
           subsp. cremoris ATCC 19254]
 gi|227351603|gb|EEJ41853.1| transcription-repair coupling factor [Leuconostoc mesenteroides
           subsp. cremoris ATCC 19254]
          Length = 1179

 Score = 42.8 bits (100), Expect = 0.025,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++  E  G K ++  IA+ +    + +PV +   I
Sbjct: 494 NVGDYVVHINHGIGRYEGLQTIEADGGKQDYLTIAY-QQNAKIFIPVTQLNLI 545


>gi|261884253|ref|ZP_06008292.1| transcription-repair coupling factor [Campylobacter fetus subsp.
           venerealis str. Azul-94]
          Length = 217

 Score = 42.8 bits (100), Expect = 0.025,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 2/64 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +G+G    ++   V G K EF VIA+  +   L +PV     I  R ++ 
Sbjct: 60  KIGDFVVHSDYGIGKFLGLELITVLGSKKEFVVIAYQNND-KLLLPVEHLNMID-RYIAG 117

Query: 75  AHFV 78
           +  V
Sbjct: 118 SGAV 121


>gi|83593061|ref|YP_426813.1| transcription-repair coupling factor [Rhodospirillum rubrum ATCC
           11170]
 gi|83575975|gb|ABC22526.1| Transcription-repair coupling factor [Rhodospirillum rubrum ATCC
           11170]
          Length = 1177

 Score = 42.8 bits (100), Expect = 0.025,   Method: Composition-based stats.
 Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 15/105 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
               G+ +V+  HG+G    ++     G   +   + +  +   L VPV     +  R  
Sbjct: 502 ALSEGDLVVHVDHGIGQYEGLETLTAGGAPHDCLRVVYADNN-RLYVPVENIEVLS-RYG 559

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAE 117
           SE   V+  L  + G A      W  R     AK+    +  +AE
Sbjct: 560 SEQAGVQ--LDKLGGVA------WQAR----KAKLKQ-RIRDMAE 591


>gi|296436295|gb|ADH18469.1| transcription-repair coupling factor [Chlamydia trachomatis G/9768]
 gi|296438154|gb|ADH20315.1| transcription-repair coupling factor [Chlamydia trachomatis
           G/11074]
 gi|297140655|gb|ADH97413.1| transcription-repair coupling factor [Chlamydia trachomatis G/9301]
          Length = 1079

 Score = 42.4 bits (99), Expect = 0.026,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G        W RR++E   K
Sbjct: 492 SEKTPD-LHHLNG------AKW-RRSRELSEK 515


>gi|154248182|ref|YP_001419140.1| transcription-repair coupling factor [Xanthobacter autotrophicus
           Py2]
 gi|154162267|gb|ABS69483.1| transcription-repair coupling factor [Xanthobacter autotrophicus
           Py2]
          Length = 1168

 Score = 42.4 bits (99), Expect = 0.026,   Method: Composition-based stats.
 Identities = 33/163 (20%), Positives = 59/163 (36%), Gaps = 27/163 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K  E  G   +   I +      L +PV     +  R  SE  
Sbjct: 500 GDLVVHVDHGIGRFIGLKTVEAMGAPHDCLEIHYAGGD-KLFLPVENLELLS-RYGSEDT 557

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
             +  L  + G A      W  R +    K        I E+  +L +  +Q +   + +
Sbjct: 558 EAQ--LDKLGGGA------WQAR-KARMKK-------RIREMASELIKIAAQRQLGEAPK 601

Query: 137 -----QLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                 LY+    R   E     +  +  AI+ +  +L+S   
Sbjct: 602 LVPAMGLYDEFRARFPYE----ETDDQDAAIDAVLDDLASGHP 640


>gi|268608427|ref|ZP_06142154.1| transcription-repair coupling factor [Ruminococcus flavefaciens
           FD-1]
          Length = 1160

 Score = 42.4 bits (99), Expect = 0.026,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G    I++ E+ G+  ++  I +      L +PV +   +
Sbjct: 491 GDLVVHSGHGIGRFIGIRKLELEGVTKDYITIQYAGTD-KLYIPVTQLDMV 540


>gi|300023171|ref|YP_003755782.1| transcription-repair coupling factor [Hyphomicrobium denitrificans
           ATCC 51888]
 gi|299524992|gb|ADJ23461.1| transcription-repair coupling factor [Hyphomicrobium denitrificans
           ATCC 51888]
          Length = 1161

 Score = 42.4 bits (99), Expect = 0.027,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 19/57 (33%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
                   G+ +V+  HG+G    ++     G   +   + +      L +PV    
Sbjct: 484 TEATALSVGDLVVHSDHGIGRFAGLQTITALGAPHDCLELHYAGGD-KLFLPVENIE 539


>gi|94266121|ref|ZP_01289836.1| Transcription-repair coupling factor [delta proteobacterium MLMS-1]
 gi|93453318|gb|EAT03758.1| Transcription-repair coupling factor [delta proteobacterium MLMS-1]
          Length = 1162

 Score = 42.4 bits (99), Expect = 0.027,   Method: Composition-based stats.
 Identities = 21/126 (16%), Positives = 51/126 (40%), Gaps = 25/126 (19%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG-MRKLS 73
             G+ +V+  HG+G    +   E+ G+  ++  I +      L +PV +   +G  + L+
Sbjct: 480 NPGDPVVHRRHGIGIYRGLVPIELDGITNDYLEIHYRGAD-KLYIPVDQLNSVGKYKGLA 538

Query: 74  EAH-FVERALKL--VRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           +    +++      +  + +VK+ +W                    +V RDL +  ++ +
Sbjct: 539 DQEPTLDKLGDNSWLATRQKVKKAVW--------------------QVARDLLKLYAKRQ 578

Query: 131 KSYSER 136
            +   R
Sbjct: 579 LAEGNR 584


>gi|325479334|gb|EGC82430.1| transcription-repair coupling factor [Anaerococcus prevotii
           ACS-065-V-Col13]
          Length = 1167

 Score = 42.4 bits (99), Expect = 0.027,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  +G+G    +++ EV   + +F VI +      L VPV +   +
Sbjct: 501 EIGDYVVHENNGIGLYKGLEKIEVNNTEKDFVVIEYRGTD-KLFVPVDQMNLV 552


>gi|320010356|gb|ADW05206.1| transcription-repair coupling factor [Streptomyces flavogriseus
           ATCC 33331]
          Length = 1176

 Score = 42.4 bits (99), Expect = 0.027,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++       + G+ IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 486 MPARRRKSIDPLTLQAGDFIVHEQHGVGRYIEMVQRTVQGATREYLLVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 546 --RLYIPTDQLEQV 557


>gi|239981759|ref|ZP_04704283.1| transcriptional-repair coupling factor [Streptomyces albus J1074]
 gi|291453617|ref|ZP_06593007.1| transcriptional-repair coupling factor [Streptomyces albus J1074]
 gi|291356566|gb|EFE83468.1| transcriptional-repair coupling factor [Streptomyces albus J1074]
          Length = 1177

 Score = 42.4 bits (99), Expect = 0.028,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 33/74 (44%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++        +G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 487 MPTRRRKTIDPLTLESGDYIVHEQHGVGRYIEMVQRTVQGATREYLLVEYAPAKRGQPGD 546

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 547 --RLYIPTDQLEQV 558


>gi|254491679|ref|ZP_05104858.1| transcription-repair coupling factor [Methylophaga thiooxidans
           DMS010]
 gi|224463157|gb|EEF79427.1| transcription-repair coupling factor [Methylophaga thiooxydans
           DMS010]
          Length = 1101

 Score = 42.4 bits (99), Expect = 0.028,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HGVG    ++  ++  +  E+  + + K    L VPV     I
Sbjct: 434 SVGDAVVHEDHGVGRYLGLQTLDIGDVTAEYVTLEYAKGD-KLYVPVASLDLI 485


>gi|224418280|ref|ZP_03656286.1| transcription-repair coupling factor [Helicobacter canadensis MIT
           98-5491]
 gi|313141813|ref|ZP_07804006.1| transcription-repair coupling factor [Helicobacter canadensis MIT
           98-5491]
 gi|313130844|gb|EFR48461.1| transcription-repair coupling factor [Helicobacter canadensis MIT
           98-5491]
          Length = 1004

 Score = 42.4 bits (99), Expect = 0.028,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           +TG+++V+  +GV     I +  + G   +F  + +  +   L +PV     I  R +++
Sbjct: 374 KTGDYVVHIDYGVAVFNGITQANIFGATRDFIELKYLGED-KLLLPVENLDRID-RYIAD 431


>gi|157825985|ref|YP_001493705.1| transcription-repair coupling factor [Rickettsia akari str.
           Hartford]
 gi|157799943|gb|ABV75197.1| Transcription-repair coupling factor [Rickettsia akari str.
           Hartford]
          Length = 1121

 Score = 42.4 bits (99), Expect = 0.028,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV     I
Sbjct: 460 GEFVVHKDHGIGQFLKLEALEIKGKLHDFLKILYAGND-KLYIPVENIEVI 509


>gi|110679958|ref|YP_682965.1| transcription-repair coupling factor [Roseobacter denitrificans OCh
           114]
 gi|109456074|gb|ABG32279.1| transcription-repair coupling factor [Roseobacter denitrificans OCh
           114]
          Length = 1154

 Score = 42.4 bits (99), Expect = 0.028,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              +    G+ IV+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 471 TETESLSPGDLIVHVDHGIGRYKGLEVVTAAGAAHECILLEYAESS-KLYLPVENIE--- 526

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   K+
Sbjct: 527 ---LLSKYGHEEGLLDRLGGGAWQAKKARLKERIREMADKL 564


>gi|253827604|ref|ZP_04870489.1| Transcription-repair-coupling factor [Helicobacter canadensis MIT
           98-5491]
 gi|253511010|gb|EES89669.1| Transcription-repair-coupling factor [Helicobacter canadensis MIT
           98-5491]
          Length = 967

 Score = 42.4 bits (99), Expect = 0.028,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           +TG+++V+  +GV     I +  + G   +F  + +  +   L +PV     I  R +++
Sbjct: 337 KTGDYVVHIDYGVAVFNGITQANIFGATRDFIELKYLGED-KLLLPVENLDRID-RYIAD 394


>gi|169347359|ref|ZP_02866297.1| hypothetical protein CLOSPI_00074 [Clostridium spiroforme DSM 1552]
 gi|169293976|gb|EDS76109.1| hypothetical protein CLOSPI_00074 [Clostridium spiroforme DSM 1552]
          Length = 1141

 Score = 42.4 bits (99), Expect = 0.028,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+++V+  +G+G    IK  EV G+  ++  +A+  D   L +PV +   +  RK
Sbjct: 477 QELEIGDYVVHDNYGIGQYLGIKTLEVQGVHRDYLYVAYAGDD-TLYIPVEQFNLV--RK 533

Query: 72  LSEAHF 77
            S +  
Sbjct: 534 YSSSEG 539


>gi|284033574|ref|YP_003383505.1| transcription-repair coupling factor [Kribbella flavida DSM 17836]
 gi|283812867|gb|ADB34706.1| transcription-repair coupling factor [Kribbella flavida DSM 17836]
          Length = 1212

 Score = 42.4 bits (99), Expect = 0.029,   Method: Composition-based stats.
 Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 9/76 (11%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-GM---KLEFFVIAFDKDKM- 55
           M  ++K+         G+ +V+  HGVG   E+ ++ V  G      E+ VI F   K  
Sbjct: 517 MPSRRKKTIDPLELGPGDFVVHEQHGVGRYVEMMQRTVGTGQQKATREYVVIEFAPSKRG 576

Query: 56  ----CLKVPVGKAIDI 67
                L VP  +   +
Sbjct: 577 QPGDRLYVPTDQLDQV 592


>gi|224438472|ref|ZP_03659396.1| transcription-repair coupling factor [Helicobacter cinaedi CCUG
           18818]
 gi|313144905|ref|ZP_07807098.1| transcription-repair coupling factor [Helicobacter cinaedi CCUG
           18818]
 gi|313129936|gb|EFR47553.1| transcription-repair coupling factor [Helicobacter cinaedi CCUG
           18818]
          Length = 1005

 Score = 42.4 bits (99), Expect = 0.029,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T  +K          GE++V+  +GVG    IK+ +VAG+  +F  IA+  +   L +PV
Sbjct: 352 TKHKKPTLKLNEISQGEYVVHNDYGVGIFQGIKQAQVAGVVRDFIEIAYQGED-KLLLPV 410

Query: 62  GKAIDIGMRKLSEAHFVE 79
                I  R ++++  + 
Sbjct: 411 ENLNMID-RYVADSGQIP 427


>gi|32265957|ref|NP_859989.1| transcription-repair coupling factor [Helicobacter hepaticus ATCC
           51449]
 gi|32262006|gb|AAP77055.1| transcription-repair coupling factor [Helicobacter hepaticus ATCC
           51449]
          Length = 1001

 Score = 42.4 bits (99), Expect = 0.029,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 34/63 (53%), Gaps = 2/63 (3%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE++V+  +G+G    IK+ ++ G+  +F  I++  +   L +PV     I  R ++++ 
Sbjct: 364 GEYVVHSEYGIGIFEGIKQTQIVGVVRDFIEISYQGED-KLLLPVENLNMIE-RYVADSG 421

Query: 77  FVE 79
            + 
Sbjct: 422 QIP 424


>gi|331089329|ref|ZP_08338230.1| hypothetical protein HMPREF1025_01813 [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|330405510|gb|EGG85042.1| hypothetical protein HMPREF1025_01813 [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 712

 Score = 42.4 bits (99), Expect = 0.029,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I++ EV  +  ++  I + +  + L +PV +   I
Sbjct: 446 KPGDYVVHENHGIGVYKGIEKIEVEKIVKDYMKIVYAEGGV-LYIPVAQMDLI 497


>gi|153814527|ref|ZP_01967195.1| hypothetical protein RUMTOR_00741 [Ruminococcus torques ATCC 27756]
 gi|317500570|ref|ZP_07958791.1| transcription-repair coupling factor [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|145848021|gb|EDK24939.1| hypothetical protein RUMTOR_00741 [Ruminococcus torques ATCC 27756]
 gi|316898003|gb|EFV20053.1| transcription-repair coupling factor [Lachnospiraceae bacterium
           8_1_57FAA]
          Length = 1115

 Score = 42.4 bits (99), Expect = 0.030,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I++ EV  +  ++  I + +  + L +PV +   I
Sbjct: 446 KPGDYVVHENHGIGVYKGIEKIEVEKIVKDYMKIVYAEGGV-LYIPVAQMDLI 497


>gi|126726506|ref|ZP_01742347.1| transcription-repair coupling factor [Rhodobacterales bacterium
           HTCC2150]
 gi|126704369|gb|EBA03461.1| transcription-repair coupling factor [Rhodobacterales bacterium
           HTCC2150]
          Length = 1157

 Score = 42.4 bits (99), Expect = 0.030,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
              Q    G+ IV+  HGVG    ++    AG   E   + + +    L +PV    
Sbjct: 474 TEAQSLTVGDLIVHIEHGVGIYNGLETITAAGAPHECIALEYARGD-RLYLPVVNIE 529


>gi|254475764|ref|ZP_05089150.1| transcription-repair coupling factor [Ruegeria sp. R11]
 gi|214030007|gb|EEB70842.1| transcription-repair coupling factor [Ruegeria sp. R11]
          Length = 1153

 Score = 42.4 bits (99), Expect = 0.030,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + + +  L +PV       
Sbjct: 470 TETQSLSPGDLVVHVDHGIGRYKGLEVVTAAGAAHECILLEYAE-QAKLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   ++
Sbjct: 526 ---LLSKYGHDEGLLDRLGGGAWQAKKAKLKERIREMADRL 563


>gi|13470979|ref|NP_102548.1| transcription repair coupling factor [Mesorhizobium loti
           MAFF303099]
 gi|14021722|dbj|BAB48334.1| transcription repair coupling factor [Mesorhizobium loti
           MAFF303099]
          Length = 1165

 Score = 42.4 bits (99), Expect = 0.030,   Method: Composition-based stats.
 Identities = 30/130 (23%), Positives = 47/130 (36%), Gaps = 25/130 (19%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A      TG+ +V+  HG+G    ++  E  G   +   I +  D   L +PV     + 
Sbjct: 491 AEASALSTGDIVVHADHGIGRFIGLRTIEAVGAPHDCLEIHYAGDD-RLFLPVENIELLS 549

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R    +   E  L  + G A      W  R     AK+    L+ +A     L R    
Sbjct: 550 -RY--GSDSAEATLDKLGGGA------WQSR----KAKLKR-RLLDMA---GQLIRI--- 589

Query: 129 PEKSYSERQL 138
                +ERQ+
Sbjct: 590 ----AAERQM 595


>gi|170744353|ref|YP_001773008.1| transcription-repair coupling factor [Methylobacterium sp. 4-46]
 gi|168198627|gb|ACA20574.1| transcription-repair coupling factor [Methylobacterium sp. 4-46]
          Length = 1203

 Score = 42.4 bits (99), Expect = 0.030,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 41/120 (34%), Gaps = 19/120 (15%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+ +V+  HG+G  T +K    AG   +   +    +   L +PV       +  
Sbjct: 530 QALSPGDLVVHADHGIGRFTGLKTVTAAGAPHDC--LEIQYNGGLLLLPVENIE---LLT 584

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
              +   +  L  + G A      W  R     AK+       I E+   L +  ++   
Sbjct: 585 RYGSEEADVPLDKLGGGA------WQAR----KAKLK----RRILEMAGALIKVAAERFL 630


>gi|150396613|ref|YP_001327080.1| transcription-repair coupling factor [Sinorhizobium medicae WSM419]
 gi|150028128|gb|ABR60245.1| transcription-repair coupling factor [Sinorhizobium medicae WSM419]
          Length = 1171

 Score = 42.4 bits (99), Expect = 0.030,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 42/114 (36%), Gaps = 20/114 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A   G   G ++V+  HG+G    ++  E AG   +   +    D   L +PV     + 
Sbjct: 498 AEVTGLDEGSYVVHAEHGIGRFVGLQTIEAAGAPHDCLEL-VYADDAKLFLPVENIELLS 556

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
            R    +   +  L  + G A      W  R     AK+       +G LI IA
Sbjct: 557 -RY--GSEGTDAVLDKLGGVA------WQAR----KAKLKKRLLDMAGGLIRIA 597


>gi|290889683|ref|ZP_06552772.1| hypothetical protein AWRIB429_0162 [Oenococcus oeni AWRIB429]
 gi|290480680|gb|EFD89315.1| hypothetical protein AWRIB429_0162 [Oenococcus oeni AWRIB429]
          Length = 1188

 Score = 42.4 bits (99), Expect = 0.031,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    +   E  G K ++  IA+ + K  + VPV     +
Sbjct: 512 KTGDYVVHVNHGIGRYEGLTTLEANGGKQDYITIAYAQ-KAKIFVPVTHLNLV 563


>gi|313898413|ref|ZP_07831950.1| hypothetical protein HMPREF9406_1313 [Clostridium sp. HGF2]
 gi|312956795|gb|EFR38426.1| hypothetical protein HMPREF9406_1313 [Clostridium sp. HGF2]
          Length = 155

 Score = 42.4 bits (99), Expect = 0.031,   Method: Composition-based stats.
 Identities = 24/157 (15%), Positives = 54/157 (34%), Gaps = 20/157 (12%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHF 77
           E + +P  G+  +T I ++E      +  VI    D     +P      +G+R L E+  
Sbjct: 6   EKVFHPNLGICDVTGIDKKE------KRMVIT-AADGSTCSIPFESLPRVGVRNLMESDE 58

Query: 78  VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDL-----IAIAEVVRDLHRT--DSQPE 130
            +  +K +    +      S        +I    +       +  ++  L+    + +  
Sbjct: 59  ADLIMKKLFTPKQESSLPAS----LTLMQIQQSIVDYKLEQQVQLLIGLLYWKYAEGKKG 114

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
             Y E          +  E++ V  +S+   +  +E 
Sbjct: 115 IRYQE--CLSRIEGVLCEELSFVLDLSKDLLVERLED 149


>gi|238650718|ref|YP_002916571.1| transcription-repair coupling factor [Rickettsia peacockii str.
           Rustic]
 gi|238624816|gb|ACR47522.1| transcription-repair coupling factor [Rickettsia peacockii str.
           Rustic]
          Length = 1122

 Score = 42.4 bits (99), Expect = 0.031,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 47/118 (39%), Gaps = 20/118 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV          + + +
Sbjct: 461 GEFVVHKDHGIGQFLKLEALEIKGKPHDFLKILYAGND-KLYIPVESIE------VIKKY 513

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             + A        ++    W +R++    K     +  IA     L +  ++ + + S
Sbjct: 514 GNDNA-----EFDKLGSVAW-QRSKAKLKK----RIKEIAL---HLIQIAAKRKLNSS 558


>gi|118587141|ref|ZP_01544570.1| transcription-repair coupling factor [Oenococcus oeni ATCC
           BAA-1163]
 gi|118432420|gb|EAV39157.1| transcription-repair coupling factor [Oenococcus oeni ATCC
           BAA-1163]
          Length = 1189

 Score = 42.4 bits (99), Expect = 0.031,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    +   E  G K ++  IA+ + K  + VPV     +
Sbjct: 513 KTGDYVVHVNHGIGRYEGLTTLEANGGKQDYITIAYAQ-KAKIFVPVTHLNLV 564


>gi|116490296|ref|YP_809840.1| transcription-repair coupling factor [Oenococcus oeni PSU-1]
 gi|116091021|gb|ABJ56175.1| transcription-repair coupling factor [Oenococcus oeni PSU-1]
          Length = 1188

 Score = 42.4 bits (99), Expect = 0.031,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    +   E  G K ++  IA+ + K  + VPV     +
Sbjct: 512 KTGDYVVHVNHGIGRYEGLTTLEANGGKQDYITIAYAQ-KAKIFVPVTHLNLV 563


>gi|254440320|ref|ZP_05053814.1| transcription-repair coupling factor [Octadecabacter antarcticus
           307]
 gi|198255766|gb|EDY80080.1| transcription-repair coupling factor [Octadecabacter antarcticus
           307]
          Length = 1177

 Score = 42.4 bits (99), Expect = 0.031,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 27/70 (38%), Gaps = 8/70 (11%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI--- 65
              Q    G+ +V+  HGVG    ++    AG   E  V+ + +    L +PV       
Sbjct: 500 TETQSLTLGDLVVHVDHGVGRYLGLEVITAAGAAHECLVLEYAESS-RLYLPVENIELLS 558

Query: 66  ----DIGMRK 71
               ++G+  
Sbjct: 559 RYGHEVGLLD 568


>gi|116333178|ref|YP_794705.1| transcription-repair coupling factor [Lactobacillus brevis ATCC
           367]
 gi|116098525|gb|ABJ63674.1| Transcription-repair coupling factor (superfamily II helicase)
           [Lactobacillus brevis ATCC 367]
          Length = 1180

 Score = 42.4 bits (99), Expect = 0.031,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++   V G+  ++  I + +D   L +PV +   I
Sbjct: 497 KPGDYVVHVNHGIGKFIGMQTLTVDGVHQDYMTIDY-QDNAQLFIPVTQLNLI 548


>gi|323136889|ref|ZP_08071969.1| transcription-repair coupling factor [Methylocystis sp. ATCC 49242]
 gi|322397650|gb|EFY00172.1| transcription-repair coupling factor [Methylocystis sp. ATCC 49242]
          Length = 1181

 Score = 42.4 bits (99), Expect = 0.033,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    ++    AG   +   + +      L +PV    
Sbjct: 512 GDLVVHVDHGIGRFIGLETITAAGAPHDCLELHYAGGD-KLYLPVENIE 559


>gi|257066460|ref|YP_003152716.1| transcription-repair coupling factor [Anaerococcus prevotii DSM
           20548]
 gi|256798340|gb|ACV28995.1| transcription-repair coupling factor [Anaerococcus prevotii DSM
           20548]
          Length = 1170

 Score = 42.4 bits (99), Expect = 0.033,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  +G+G    +++ EV  ++ +F VI +      L VPV +   I
Sbjct: 503 IGDYVVHENNGIGIYKGLEKIEVNNIEKDFIVIEYRGTD-KLFVPVDQMNLI 553


>gi|54026849|ref|YP_121091.1| putative transcription-repair coupling factor [Nocardia farcinica
           IFM 10152]
 gi|54018357|dbj|BAD59727.1| putative transcription-repair coupling factor [Nocardia farcinica
           IFM 10152]
          Length = 1205

 Score = 42.4 bits (99), Expect = 0.033,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V G + E+ VI +   K       L VP+     +
Sbjct: 511 GDMVVHDQHGIGRFVEMIERTVGGARREYLVIEYAPSKRGQPGDRLFVPMESLDQL 566


>gi|309774569|ref|ZP_07669595.1| hypothetical protein HMPREF0983_00033 [Erysipelotrichaceae
           bacterium 3_1_53]
 gi|308917684|gb|EFP63398.1| hypothetical protein HMPREF0983_00033 [Erysipelotrichaceae
           bacterium 3_1_53]
          Length = 155

 Score = 42.4 bits (99), Expect = 0.033,   Method: Composition-based stats.
 Identities = 23/155 (14%), Positives = 53/155 (34%), Gaps = 16/155 (10%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHF 77
           E + +P  G+  +T I ++E      +  VI    D     +P      +G+R L E+  
Sbjct: 6   EKVFHPNLGICDVTGIDKKE------KRMVIT-AADGSTCSIPFKSLPLVGVRNLMESKE 58

Query: 78  VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDL-----IAIAEVVRDLHRTDSQPEKS 132
            +  L+ +           S        +I    +       +  ++  L+    + +K 
Sbjct: 59  ADLILQELFEPQHASSLPAS----LTLMQIQQSIVDYKMEQQVQLLIGLLYWKYVEGKKG 114

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
              ++        +  E++ V  +S    +  +E 
Sbjct: 115 IRYQECLNRIEGVLCEELSFVLDLSMDNLVERLEN 149


>gi|170748065|ref|YP_001754325.1| transcription-repair coupling factor [Methylobacterium
           radiotolerans JCM 2831]
 gi|170654587|gb|ACB23642.1| transcription-repair coupling factor [Methylobacterium
           radiotolerans JCM 2831]
          Length = 1198

 Score = 42.0 bits (98), Expect = 0.033,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 43/118 (36%), Gaps = 19/118 (16%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+ +V+  HG+G    +K    AG   +   + +      L +PV       +  
Sbjct: 524 QALQPGDLVVHADHGIGRFVGLKTIHAAGAPHDCLELQYTGG--LLLLPVENIE---LLT 578

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
              +   E AL  + G A      W  R     AK+       I E+  +L +  +Q 
Sbjct: 579 RYGSEDSEVALDRLGGGA------WQAR----KAKMK----RRILEMAGELIKVAAQR 622


>gi|256059228|ref|ZP_05449434.1| transcription-repair coupling factor [Brucella neotomae 5K33]
 gi|261323178|ref|ZP_05962375.1| transcription-repair coupling factor [Brucella neotomae 5K33]
 gi|261299158|gb|EEY02655.1| transcription-repair coupling factor [Brucella neotomae 5K33]
          Length = 1170

 Score = 42.0 bits (98), Expect = 0.034,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGALHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|229586940|ref|YP_002845441.1| Transcription-repair coupling factor [Rickettsia africae ESF-5]
 gi|228021990|gb|ACP53698.1| Transcription-repair coupling factor [Rickettsia africae ESF-5]
          Length = 1122

 Score = 42.0 bits (98), Expect = 0.034,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 47/118 (39%), Gaps = 20/118 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV          + + +
Sbjct: 461 GEFVVHKDHGIGQFLKLEALEIKGKPHDFLKILYAGND-KLYIPVESIE------VIKKY 513

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             + A        ++    W +R++    K     +  IA     L +  ++ + + S
Sbjct: 514 GNDNA-----ELDKLGSVSW-QRSKAKLKK----RIKEIAL---HLIQIAAKRKLNSS 558


>gi|20808914|ref|NP_624085.1| transcription-repair coupling factor [Thermoanaerobacter
           tengcongensis MB4]
 gi|20517574|gb|AAM25689.1| Transcription-repair coupling factor - superfamily II helicase
           [Thermoanaerobacter tengcongensis MB4]
          Length = 1169

 Score = 42.0 bits (98), Expect = 0.034,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G ++V+  +G+G    I++ +V G+  ++  I +    + L VPV +   +
Sbjct: 502 EVGSYVVHVNYGIGKYEGIEKIKVDGVIRDYLKIVYAGGDV-LFVPVEQLDLV 553


>gi|256111504|ref|ZP_05452518.1| transcription-repair coupling factor [Brucella melitensis bv. 3
           str. Ether]
 gi|265993002|ref|ZP_06105559.1| transcription-repair coupling factor [Brucella melitensis bv. 3
           str. Ether]
 gi|262763872|gb|EEZ09904.1| transcription-repair coupling factor [Brucella melitensis bv. 3
           str. Ether]
          Length = 1170

 Score = 42.0 bits (98), Expect = 0.035,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 37/100 (37%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG       I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHHCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 GSDAVLDKLGGGA------WQAR----KAKLKK-RLLEIA 590


>gi|153010961|ref|YP_001372175.1| transcription-repair coupling factor [Ochrobactrum anthropi ATCC
           49188]
 gi|151562849|gb|ABS16346.1| transcription-repair coupling factor [Ochrobactrum anthropi ATCC
           49188]
          Length = 1170

 Score = 42.0 bits (98), Expect = 0.035,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 15/100 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG   +   I +  D   L +PV     +  R    + 
Sbjct: 506 GDIVVHVDHGIGRFIGLKTITAAGAPHDCLEIHYAGDD-RLFLPVENIELLS-RY--GSE 561

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A      W  R     AK+    L+ IA
Sbjct: 562 SSDAVLDKLGGGA------WQMR----KAKLKK-RLLEIA 590


>gi|260433551|ref|ZP_05787522.1| transcription-repair coupling factor [Silicibacter lacuscaerulensis
           ITI-1157]
 gi|260417379|gb|EEX10638.1| transcription-repair coupling factor [Silicibacter lacuscaerulensis
           ITI-1157]
          Length = 1152

 Score = 42.0 bits (98), Expect = 0.035,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++     G   E  ++ + +    L +PV       
Sbjct: 471 TETQSLSPGDLVVHVDHGIGRYMGMEVVTALGAAHECLLLEYAEGA-KLYLPVENIE--- 526

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   ++
Sbjct: 527 ---LLSKYGHEEGLLDKLGGGAWQAKKAKLKERIREMADRL 564


>gi|297622390|ref|YP_003703824.1| transcription-repair coupling factor [Truepera radiovictrix DSM
           17093]
 gi|297163570|gb|ADI13281.1| transcription-repair coupling factor [Truepera radiovictrix DSM
           17093]
          Length = 1006

 Score = 42.0 bits (98), Expect = 0.035,   Method: Composition-based stats.
 Identities = 10/47 (21%), Positives = 28/47 (59%), Gaps = 1/47 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           G+++++P HG+G    ++ ++V G+  ++ ++ +      L +PV +
Sbjct: 352 GDYLIHPDHGIGRFMGLEPRQVLGVTRDYLILQYAGAG-KLYLPVEQ 397


>gi|255321495|ref|ZP_05362653.1| transcription-repair coupling factor [Campylobacter showae RM3277]
 gi|255301351|gb|EET80610.1| transcription-repair coupling factor [Campylobacter showae RM3277]
          Length = 985

 Score = 42.0 bits (98), Expect = 0.035,   Method: Composition-based stats.
 Identities = 28/109 (25%), Positives = 54/109 (49%), Gaps = 10/109 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  +G+G  T +++  V G   EF VI +  +   L +PV     I  R ++ 
Sbjct: 345 KAGDYVVHEEYGIGKFTGLEKLTVLGRTREFVVIVYQNED-KLLLPVEHLNLID-RYVAG 402

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA---EVVR 120
           +  +   L  + GKA   +     RA+ +   I S  +I++A   E++R
Sbjct: 403 SGSI-AVLDRL-GKANFAKIKEKVRAKLFV--IAS-KIISLAAQRELIR 446


>gi|149192400|ref|ZP_01870600.1| transcription-repair coupling factor [Vibrio shilonii AK1]
 gi|148833765|gb|EDL50802.1| transcription-repair coupling factor [Vibrio shilonii AK1]
          Length = 702

 Score = 42.0 bits (98), Expect = 0.035,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
          + G+ +V+  HG+G    ++  E  GM  E+  + + ++   L VPV     IG
Sbjct: 30 KPGQPVVHIDHGIGRYVGLQTLEAGGMTTEYVTLEY-QNDAKLYVPVASLNLIG 82


>gi|193212321|ref|YP_001998274.1| transcription-repair coupling factor [Chlorobaculum parvum NCIB
           8327]
 gi|193085798|gb|ACF11074.1| transcription-repair coupling factor [Chlorobaculum parvum NCIB
           8327]
          Length = 1097

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 20/127 (15%), Positives = 53/127 (41%), Gaps = 24/127 (18%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+++V+  +GVG    ++  +V   + E  ++ ++     L V      +I +  
Sbjct: 400 QRLKVGDYVVHEDYGVGVFRSLETIQVGDSEQECVLVEYEGGD-QLYV---NVQNINL-- 453

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
               +        +   +++  + WS + ++   K+   D+   A+++R           
Sbjct: 454 -LSKYTASE--GSLPNLSKLGSSKWSAKKEKVRKKLR--DI--AAKLIRI---------- 496

Query: 132 SYSERQL 138
            Y+ER++
Sbjct: 497 -YAERKM 502


>gi|329948064|ref|ZP_08294965.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           170 str. F0386]
 gi|328523203|gb|EGF50304.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           170 str. F0386]
          Length = 1079

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 29/137 (21%), Positives = 46/137 (33%), Gaps = 25/137 (18%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKMCLKVPV 61
           +R         G+ +V+  HGVG   E+  + V G       E+ VI +           
Sbjct: 364 RRSVDPLSLHAGDLVVHAQHGVGRFIELSRRTVGGARSSATREYLVIEYAPS-------- 415

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTM----WSRRAQEYDAKINSGDLIAIAE 117
            K    G R L     +++  K V G +     M    W        AK  S    A+ E
Sbjct: 416 -KRGQPGDRLLVPTDALDQVTKYVGGDSPALSKMGGADW--------AKTKSKARKAVRE 466

Query: 118 VVRDLHRTDSQPEKSYS 134
           +  +L R  +    +  
Sbjct: 467 IAGELVRLYAARAATTG 483


>gi|218283272|ref|ZP_03489327.1| hypothetical protein EUBIFOR_01916 [Eubacterium biforme DSM 3989]
 gi|218215962|gb|EEC89500.1| hypothetical protein EUBIFOR_01916 [Eubacterium biforme DSM 3989]
          Length = 1131

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 29/64 (45%), Gaps = 3/64 (4%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
              +++V+  +G+G    I  +++ G  L++  + ++     L VP+ +   +  RK   
Sbjct: 465 EPNDYVVHEQYGIGQYVGITTRKIKGKTLDYLHVIYNGGD-ELYVPLSQFQLV--RKYVS 521

Query: 75  AHFV 78
              V
Sbjct: 522 KEGV 525


>gi|320334953|ref|YP_004171664.1| transcription factor CarD [Deinococcus maricopensis DSM 21211]
 gi|319756242|gb|ADV67999.1| transcription factor CarD [Deinococcus maricopensis DSM 21211]
          Length = 1042

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           G   G+++++P HG+G    ++ + V G+  ++  + +      L +P+ 
Sbjct: 361 GLHVGDYLIHPEHGIGQFLGLESRTVLGVARDYLHLEYRSGA-KLYLPIE 409


>gi|165933497|ref|YP_001650286.1| transcription-repair coupling factor [Rickettsia rickettsii str.
           Iowa]
 gi|13235395|emb|CAC33672.1| Mfd protein [Rickettsia rickettsii]
 gi|165908584|gb|ABY72880.1| transcription-repair coupling factor [Rickettsia rickettsii str.
           Iowa]
          Length = 1122

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV     I
Sbjct: 461 GEFVVHKDHGIGQFLKLEALEIKGKPHDFLKILYAGND-KLYIPVESIEVI 510


>gi|157828769|ref|YP_001495011.1| transcription-repair coupling factor [Rickettsia rickettsii str.
           'Sheila Smith']
 gi|157801250|gb|ABV76503.1| transcription-repair coupling factor [Rickettsia rickettsii str.
           'Sheila Smith']
          Length = 1122

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV     I
Sbjct: 461 GEFVVHKDHGIGQFLKLEALEIKGKPHDFLKILYAGND-KLYIPVESIEVI 510


>gi|325971064|ref|YP_004247255.1| transcription-repair coupling factor [Spirochaeta sp. Buddy]
 gi|324026302|gb|ADY13061.1| transcription-repair coupling factor [Spirochaeta sp. Buddy]
          Length = 1090

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 46/113 (40%), Gaps = 15/113 (13%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
           T Q  + +    F     G+++V+  +GVG   +I        + +F  IA+  ++M L 
Sbjct: 411 TLQHTQSSPLDSFVDLNEGDYVVHVNYGVGQFVKIDRVSSFDRERDFIKIAYADNEM-LY 469

Query: 59  VPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMW---SRRAQEYDAKIN 108
           VP+ +A  +  R +     + +       K ++    W     +A++    + 
Sbjct: 470 VPIEQANLVQ-RYIGSDTGLPK-------KDKLGGQGWENKKAKARKNAEDLA 514


>gi|288958061|ref|YP_003448402.1| transcription-repair coupling factor superfamily II helicase
           [Azospirillum sp. B510]
 gi|288910369|dbj|BAI71858.1| transcription-repair coupling factor superfamily II helicase
           [Azospirillum sp. B510]
          Length = 1171

 Score = 42.0 bits (98), Expect = 0.036,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    ++  +V G   +   I ++     L VPV    
Sbjct: 459 GDIVVHMDHGIGRYDGLETLDVTGAPHDCLRIIYEGGD-KLYVPVENIE 506


>gi|34581455|ref|ZP_00142935.1| transcription-repair coupling factor [Rickettsia sibirica 246]
 gi|28262840|gb|EAA26344.1| transcription-repair coupling factor [Rickettsia sibirica 246]
          Length = 1122

 Score = 42.0 bits (98), Expect = 0.037,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 47/118 (39%), Gaps = 20/118 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV          + + +
Sbjct: 461 GEFVVHKDHGIGQFLKLEALEIKGKPHDFLKILYAGND-KLYIPVESIE------VIKKY 513

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             + A        ++    W +R++    K     +  IA     L +  ++ + + S
Sbjct: 514 GNDNA-----ELDKLGSVSW-QRSKAKLKK----RIKEIAL---HLIQIAAKRKLNSS 558


>gi|258654637|ref|YP_003203793.1| transcription-repair coupling factor [Nakamurella multipartita DSM
           44233]
 gi|258557862|gb|ACV80804.1| transcription-repair coupling factor [Nakamurella multipartita DSM
           44233]
          Length = 1192

 Score = 42.0 bits (98), Expect = 0.037,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 26/60 (43%), Gaps = 5/60 (8%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
             + G+++V+  HG+G   ++ ++   G   E+ V+ +   K       L VP      +
Sbjct: 504 ALKPGDYVVHSQHGIGKYVDMVQRTSGGATREYLVVEYAPSKRNQPGDRLFVPTDALDQL 563


>gi|302551963|ref|ZP_07304305.1| transcription-repair coupling factor [Streptomyces
           viridochromogenes DSM 40736]
 gi|302469581|gb|EFL32674.1| transcription-repair coupling factor [Streptomyces
           viridochromogenes DSM 40736]
          Length = 1177

 Score = 42.0 bits (98), Expect = 0.037,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ V+ +         D
Sbjct: 486 MPARRRKTIDPLTLEAGDYIVHEQHGVGRYIEMVQRVVQGATREYLVVEYAPAKRGQPGD 545

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   I
Sbjct: 546 --RLYIPTDQLEQI 557


>gi|163736366|ref|ZP_02143785.1| transcription-repair coupling factor [Phaeobacter gallaeciensis
           BS107]
 gi|161390236|gb|EDQ14586.1| transcription-repair coupling factor [Phaeobacter gallaeciensis
           BS107]
          Length = 1155

 Score = 42.0 bits (98), Expect = 0.038,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 470 TETQSLSPGDLVVHVDHGIGRYKGLEVVTAAGAAHECILLEYAE-HSKLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   ++
Sbjct: 526 ---LLSKYGHDEGLLDRLGGGAWQAKKAKLKERIREMADRL 563


>gi|163741099|ref|ZP_02148491.1| transcription-repair coupling factor [Phaeobacter gallaeciensis
           2.10]
 gi|161385452|gb|EDQ09829.1| transcription-repair coupling factor [Phaeobacter gallaeciensis
           2.10]
          Length = 1155

 Score = 42.0 bits (98), Expect = 0.038,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 470 TETQSLSPGDLVVHVDHGIGRYKGLEVVTAAGAAHECILLEYAE-HSKLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   ++
Sbjct: 526 ---LLSKYGHDEGLLDRLGGGAWQAKKAKLKERIREMADRL 563


>gi|15892836|ref|NP_360550.1| transcription-repair coupling factor [Rickettsia conorii str.
           Malish 7]
 gi|81854092|sp|Q92H58|MFD_RICCN RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|15620021|gb|AAL03451.1| transcription-repair coupling factor [Rickettsia conorii str.
           Malish 7]
          Length = 1122

 Score = 42.0 bits (98), Expect = 0.038,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 47/118 (39%), Gaps = 20/118 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L +PV          + + +
Sbjct: 461 GEFVVHKDHGIGQFLKLEALEIKGKPHDFLKILYAGND-KLYIPVESIE------VIKKY 513

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             + A        ++    W +R++    K     +  IA     L +  ++ + + S
Sbjct: 514 GNDNA-----ELDKLGSVSW-QRSKAKLKK----RIKEIAL---HLIQIAAKRKLNSS 558


>gi|318041677|ref|ZP_07973633.1| transcription-repair coupling factor [Synechococcus sp. CB0101]
          Length = 1185

 Score = 42.0 bits (98), Expect = 0.038,   Method: Composition-based stats.
 Identities = 24/133 (18%), Positives = 52/133 (39%), Gaps = 18/133 (13%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       R G+ +V+  HG+G   ++++  ++G   ++ V+ +      L+V  
Sbjct: 480 RKAASRTVDPNKMRPGDFVVHRNHGIGKFIKLEKLAISGESRDYLVVQYADG--LLRVAA 537

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +   +G R  +                R+  T WS+ A+E   K       A+ +V  D
Sbjct: 538 DQLGSLG-RYRATTEQPPDL-------NRMGGTAWSK-AKERARK-------AVRKVALD 581

Query: 122 LHRTDSQPEKSYS 134
           L +  ++  ++  
Sbjct: 582 LVKLYAERHQAAG 594


>gi|301165394|emb|CBW24965.1| transcription-repair coupling factor [Bacteriovorax marinus SJ]
          Length = 1165

 Score = 42.0 bits (98), Expect = 0.038,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +++  HGVG    ++  ++   K ++ V+   K    + VPV K   I
Sbjct: 499 KKGDFVIHSEHGVGVYDGLESLDIGDSKSDYIVL-IYKGNDKVYVPVYKMNLI 550


>gi|296140872|ref|YP_003648115.1| transcription-repair coupling factor [Tsukamurella paurometabola
           DSM 20162]
 gi|296029006|gb|ADG79776.1| transcription-repair coupling factor [Tsukamurella paurometabola
           DSM 20162]
          Length = 1218

 Score = 42.0 bits (98), Expect = 0.038,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ VAG + E+ VI +   K       L VP+     +
Sbjct: 519 GDLVVHDEHGIGKFVEMIERTVAGARREYLVIEYAPSKRGQPGDKLFVPMESLDQL 574


>gi|291277211|ref|YP_003516983.1| transcription-repair coupling factor [Helicobacter mustelae 12198]
 gi|290964405|emb|CBG40255.1| transcription-repair coupling factor [Helicobacter mustelae 12198]
          Length = 991

 Score = 42.0 bits (98), Expect = 0.039,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 2/78 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
             +QK          GE++V+  +G+G    I++ ++ G   +F  I +      L +PV
Sbjct: 346 RKKQKPRIAINELNVGEYVVHIQYGIGVFGGIEQAKILGAVRDFIRIDYQGGDS-LLLPV 404

Query: 62  GKAIDIGMRKLSEAHFVE 79
                I  R ++ +  V 
Sbjct: 405 ENLNLID-RYVAGSSGVP 421


>gi|257877903|ref|ZP_05657556.1| transcription-repair coupling factor [Enterococcus casseliflavus
           EC20]
 gi|257812069|gb|EEV40889.1| transcription-repair coupling factor [Enterococcus casseliflavus
           EC20]
          Length = 1172

 Score = 42.0 bits (98), Expect = 0.039,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  +   L +PV +   I
Sbjct: 497 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNED-KLFIPVTQLNLI 548


>gi|257868298|ref|ZP_05647951.1| transcription-repair coupling factor [Enterococcus casseliflavus
           EC30]
 gi|257874429|ref|ZP_05654082.1| transcription-repair coupling factor [Enterococcus casseliflavus
           EC10]
 gi|257802412|gb|EEV31284.1| transcription-repair coupling factor [Enterococcus casseliflavus
           EC30]
 gi|257808593|gb|EEV37415.1| transcription-repair coupling factor [Enterococcus casseliflavus
           EC10]
          Length = 1172

 Score = 42.0 bits (98), Expect = 0.039,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    ++  EV G+  ++  I +  +   L +PV +   I
Sbjct: 497 KAGDYVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNED-KLFIPVTQLNLI 548


>gi|291550022|emb|CBL26284.1| transcription-repair coupling factor [Ruminococcus torques L2-14]
          Length = 1118

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           T++ K+       + G+++V+  HG+G    I++ EV  +  ++  I++    + L +P 
Sbjct: 431 TYEGKKIQEFAELKPGDYVVHENHGLGIYQGIEKVEVDAVTRDYMKISYADGGI-LYIPA 489

Query: 62  GKAIDI 67
            +   I
Sbjct: 490 TQMDLI 495


>gi|302339041|ref|YP_003804247.1| transcription-repair coupling factor [Spirochaeta smaragdinae DSM
           11293]
 gi|301636226|gb|ADK81653.1| transcription-repair coupling factor [Spirochaeta smaragdinae DSM
           11293]
          Length = 1128

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 11/69 (15%), Positives = 32/69 (46%), Gaps = 4/69 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
           + ++ + A+   F     G+ +V+  +G+G    I     AG + ++  + +   +M + 
Sbjct: 449 SVKRSKTAVIDTFVELNPGDLVVHVNYGIGRFLGIDRITAAGTERDYIKLEYADQEM-IF 507

Query: 59  VPVGKAIDI 67
           +P+ +   +
Sbjct: 508 IPIEQVNLV 516


>gi|254372994|ref|ZP_04988483.1| transcription-repair coupling factor,ATP-dependent [Francisella
           tularensis subsp. novicida GA99-3549]
 gi|151570721|gb|EDN36375.1| transcription-repair coupling factor,ATP-dependent [Francisella
           novicida GA99-3549]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|56707766|ref|YP_169662.1| transcription-repair coupling factor [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110670237|ref|YP_666794.1| transcription-repair coupling factor [Francisella tularensis subsp.
           tularensis FSC198]
 gi|224456837|ref|ZP_03665310.1| transcription-repair coupling factor [Francisella tularensis subsp.
           tularensis MA00-2987]
 gi|254874578|ref|ZP_05247288.1| transcription-repair coupling factor, ATP-dependent [Francisella
           tularensis subsp. tularensis MA00-2987]
 gi|56604258|emb|CAG45277.1| Transcription-repair coupling factor,ATP-dependent [Francisella
           tularensis subsp. tularensis SCHU S4]
 gi|110320570|emb|CAL08660.1| Transcription-repair coupling factor,ATP-dependent [Francisella
           tularensis subsp. tularensis FSC198]
 gi|254840577|gb|EET19013.1| transcription-repair coupling factor, ATP-dependent [Francisella
           tularensis subsp. tularensis MA00-2987]
 gi|282158938|gb|ADA78329.1| Transcription-repair coupling factor,ATP-dependent [Francisella
           tularensis subsp. tularensis NE061598]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|332678337|gb|AEE87466.1| Transcription-repair coupling factor [Francisella cf. novicida Fx1]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|208779432|ref|ZP_03246778.1| transcription-repair coupling factor [Francisella novicida FTG]
 gi|208745232|gb|EDZ91530.1| transcription-repair coupling factor [Francisella novicida FTG]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|254369252|ref|ZP_04985264.1| transcription-repair coupling factor,ATP-dependent [Francisella
           tularensis subsp. holarctica FSC022]
 gi|157122202|gb|EDO66342.1| transcription-repair coupling factor,ATP-dependent [Francisella
           tularensis subsp. holarctica FSC022]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|89256268|ref|YP_513630.1| transcription-repair coupling factor [Francisella tularensis subsp.
           holarctica LVS]
 gi|115314722|ref|YP_763445.1| transcription-repair coupling factor TRCF [Francisella tularensis
           subsp. holarctica OSU18]
 gi|156502334|ref|YP_001428399.1| transcription-repair coupling factor [Francisella tularensis subsp.
           holarctica FTNF002-00]
 gi|254367605|ref|ZP_04983626.1| transcription-repair coupling factor, ATP-dependent [Francisella
           tularensis subsp. holarctica 257]
 gi|89144099|emb|CAJ79356.1| Transcription-repair coupling factor,ATP-dependent [Francisella
           tularensis subsp. holarctica LVS]
 gi|115129621|gb|ABI82808.1| transcription-repair coupling factor TRCF [Francisella tularensis
           subsp. holarctica OSU18]
 gi|134253416|gb|EBA52510.1| transcription-repair coupling factor, ATP-dependent [Francisella
           tularensis subsp. holarctica 257]
 gi|156252937|gb|ABU61443.1| transcription-repair coupling factor [Francisella tularensis subsp.
           holarctica FTNF002-00]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.040,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|290953610|ref|ZP_06558231.1| transcription-repair coupling factor [Francisella tularensis subsp.
           holarctica URFT1]
 gi|295313111|ref|ZP_06803801.1| transcription-repair coupling factor [Francisella tularensis subsp.
           holarctica URFT1]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.041,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|118497630|ref|YP_898680.1| transcription-repair coupling factor [Francisella tularensis subsp.
           novicida U112]
 gi|195536331|ref|ZP_03079338.1| transcription-repair coupling factor [Francisella tularensis subsp.
           novicida FTE]
 gi|118423536|gb|ABK89926.1| transcription-repair coupling factor [Francisella novicida U112]
 gi|194372808|gb|EDX27519.1| transcription-repair coupling factor [Francisella tularensis subsp.
           novicida FTE]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.041,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|75908979|ref|YP_323275.1| transcription-repair coupling factor [Anabaena variabilis ATCC
           29413]
 gi|75702704|gb|ABA22380.1| transcription-repair coupling factor [Anabaena variabilis ATCC
           29413]
          Length = 1188

 Score = 42.0 bits (98), Expect = 0.041,   Method: Composition-based stats.
 Identities = 9/67 (13%), Positives = 27/67 (40%), Gaps = 5/67 (7%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                +       R G+++V+ +HG+G   +++   +     ++ V+ +    + +    
Sbjct: 506 RQAASKQVDPNKLRPGDYVVHRSHGIGKFVKLESLTINDETRDYIVVQYADGLLRV---- 561

Query: 62  GKAIDIG 68
             A  +G
Sbjct: 562 -AADQVG 567


>gi|90419666|ref|ZP_01227576.1| transcription-repair coupling factor [Aurantimonas manganoxydans
           SI85-9A1]
 gi|90336603|gb|EAS50344.1| transcription-repair coupling factor [Aurantimonas manganoxydans
           SI85-9A1]
          Length = 1121

 Score = 42.0 bits (98), Expect = 0.041,   Method: Composition-based stats.
 Identities = 24/100 (24%), Positives = 36/100 (36%), Gaps = 14/100 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A   G   G+ +V+  HG+G    +K  E AG   +   + +  D   L +PV     + 
Sbjct: 443 AEASGLDEGDIVVHVDHGIGRFVGLKTIEAAGAPHDCLELRYQGDD-RLFLPVENIELLS 501

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
            R        E  L  + G A      W  R     AK+ 
Sbjct: 502 -RY--GGEGSEAMLDKLGGGA------WQAR----KAKLK 528


>gi|134302051|ref|YP_001122020.1| transcription-repair coupling factor [Francisella tularensis subsp.
           tularensis WY96-3418]
 gi|134049828|gb|ABO46899.1| transcription-repair coupling factor [Francisella tularensis subsp.
           tularensis WY96-3418]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.042,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|254374445|ref|ZP_04989927.1| hypothetical protein FTDG_00614 [Francisella novicida GA99-3548]
 gi|151572165|gb|EDN37819.1| hypothetical protein FTDG_00614 [Francisella novicida GA99-3548]
          Length = 1141

 Score = 42.0 bits (98), Expect = 0.042,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|114704427|ref|ZP_01437335.1| Mfd, transcription-repair coupling factor [Fulvimarina pelagi
           HTCC2506]
 gi|114539212|gb|EAU42332.1| Mfd, transcription-repair coupling factor [Fulvimarina pelagi
           HTCC2506]
          Length = 1172

 Score = 42.0 bits (98), Expect = 0.042,   Method: Composition-based stats.
 Identities = 27/122 (22%), Positives = 46/122 (37%), Gaps = 18/122 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           +   G   G+ +V+  HG+G    +K+ E AG   +   + +  D   L +PV     + 
Sbjct: 494 SEVSGLDEGDIVVHVDHGIGRFVGLKQIEAAGAPHDCLELRYAGDD-RLFLPVENIELLS 552

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R        E  L  + G A      W  R     AK+    L+ +A+    L R  ++
Sbjct: 553 -RY--GGEGTEATLDRLGGGA------WQAR----KAKLKK-RLLDMAD---GLIRVAAE 595

Query: 129 PE 130
             
Sbjct: 596 RA 597


>gi|197284762|ref|YP_002150634.1| transcription-repair coupling factor [Proteus mirabilis HI4320]
 gi|194682249|emb|CAR41979.1| transcription-repair coupling factor [Proteus mirabilis HI4320]
          Length = 1151

 Score = 42.0 bits (98), Expect = 0.043,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HGVG    +   E  G+K E+ ++++  D   L VPV     I
Sbjct: 477 SPGQPVVHLQHGVGRYQGMTTLEAGGVKAEYLILSYAGDD-KLYVPVSSLHLI 528


>gi|94495555|ref|ZP_01302135.1| transcription-repair coupling factor [Sphingomonas sp. SKA58]
 gi|94424943|gb|EAT09964.1| transcription-repair coupling factor [Sphingomonas sp. SKA58]
          Length = 1169

 Score = 42.0 bits (98), Expect = 0.043,   Method: Composition-based stats.
 Identities = 29/132 (21%), Positives = 48/132 (36%), Gaps = 20/132 (15%)

Query: 1   MTFQQKRDAMRQGF-------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +  + KR      F         G+ +V+  HG+G    + +  V+    +   + +   
Sbjct: 480 LVRRAKRKKNADAFLQELATLTPGDLVVHRDHGIGRYDGLTQIPVSKAAHDCVALEYAGG 539

Query: 54  KMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GD 111
              L VPV     +  R  SE   V   L  + G+A      W RR  +   +I    G+
Sbjct: 540 D-KLYVPVENLEVLS-RYGSETDGVS--LDRLGGEA------WQRRKAKMKERIREIAGE 589

Query: 112 LIAIAEVVRDLH 123
           L+  A   R L 
Sbjct: 590 LLKTAA-ARALR 600


>gi|332184209|gb|AEE26463.1| Transcription-repair coupling factor [Francisella cf. novicida
           3523]
          Length = 1142

 Score = 42.0 bits (98), Expect = 0.043,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|227357767|ref|ZP_03842116.1| transcription-repair coupling factor [Proteus mirabilis ATCC 29906]
 gi|227162096|gb|EEI47110.1| transcription-repair coupling factor [Proteus mirabilis ATCC 29906]
          Length = 1151

 Score = 41.7 bits (97), Expect = 0.043,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HGVG    +   E  G+K E+ ++++  D   L VPV     I
Sbjct: 477 SPGQPVVHLQHGVGRYQGMTTLEAGGVKAEYLILSYAGDD-KLYVPVSSLHLI 528


>gi|212634585|ref|YP_002311110.1| transcription-repair coupling factor [Shewanella piezotolerans WP3]
 gi|212556069|gb|ACJ28523.1| Transcription-repair coupling factor [Shewanella piezotolerans WP3]
          Length = 1158

 Score = 41.7 bits (97), Expect = 0.043,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 36/94 (38%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     ++  +  G+  E+ V+ +      L VPV     I  R    
Sbjct: 487 KVGQPIVHLEHGVARYQGLETLDTGGLVAEYLVLEYSGGD-KLYVPVSSLHLIS-RYSVG 544

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
               E  L  +  +       WS+  ++   KI 
Sbjct: 545 PDE-EANLNKLGNE------TWSKAKRKAIEKIR 571


>gi|29840634|ref|NP_829740.1| transcription-repair coupling factor [Chlamydophila caviae GPIC]
 gi|29834984|gb|AAP05618.1| transcription-repair coupling factor [Chlamydophila caviae GPIC]
          Length = 1085

 Score = 41.7 bits (97), Expect = 0.044,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 436 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 493

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G      + W RR+++   K
Sbjct: 494 SDKAPD-LHNLNG------SKW-RRSRDLSEK 517


>gi|116074923|ref|ZP_01472184.1| Transcriptional-repair coupling factor [Synechococcus sp. RS9916]
 gi|116068145|gb|EAU73898.1| Transcriptional-repair coupling factor [Synechococcus sp. RS9916]
          Length = 1194

 Score = 41.7 bits (97), Expect = 0.044,   Method: Composition-based stats.
 Identities = 11/67 (16%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       + G+ +V+  HG+G   ++++  ++G   ++ V+ +      L+V  
Sbjct: 489 RKAASRTVDPNKMQPGDFVVHRNHGIGRFQKLEKLAISGEVRDYLVVQYADG--ILRVAA 546

Query: 62  GKAIDIG 68
            +   +G
Sbjct: 547 DQLGSLG 553


>gi|266625229|ref|ZP_06118164.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
 gi|288862869|gb|EFC95167.1| putative transcriptional regulator [Clostridium hathewayi DSM
           13479]
          Length = 146

 Score = 41.7 bits (97), Expect = 0.045,   Method: Composition-based stats.
 Identities = 20/146 (13%), Positives = 49/146 (33%), Gaps = 11/146 (7%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQE--VAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGM 69
            F   +++V+  HG+  I  I   +  +A     ++ +      K  +  PV    +  +
Sbjct: 1   MFSVNDYVVFGNHGICVIKAIGPLDLGIAERGRLYYTLEPLYTQKNTIYTPVDSEKNS-L 59

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R+          +  +     V      RR + Y   +   D +   ++++ L+    Q 
Sbjct: 60  RRAITREEALELIDRIPQVETVWVPDEKRREERYREIMRQNDCMGWMQIIKTLY-LKKQK 118

Query: 130 EKSYSERQL------YESALNRMVRE 149
             +   +         + A + +  E
Sbjct: 119 RLAEGRKNTARDELYLKLAEDFLYGE 144


>gi|154175141|ref|YP_001408519.1| transcription-repair coupling factor [Campylobacter curvus 525.92]
 gi|112803058|gb|EAU00402.1| transcription-repair coupling factor [Campylobacter curvus 525.92]
          Length = 981

 Score = 41.7 bits (97), Expect = 0.045,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 3/71 (4%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           +  +++V+  +G+G    +++  V G   EF VIA+  D   L +PV     I  R +++
Sbjct: 346 KINDYVVHEDYGIGRFLGLEKITVLGATKEFVVIAYQNDD-KLLLPVEHLNLID-RYIAQ 403

Query: 75  AHFVERALKLV 85
              V   L  +
Sbjct: 404 NGSV-AVLDRL 413


>gi|90021441|ref|YP_527268.1| transcription-repair coupling protein Mfd [Saccharophagus degradans
           2-40]
 gi|89951041|gb|ABD81056.1| transcription-repair coupling factor [Saccharophagus degradans
           2-40]
          Length = 1153

 Score = 41.7 bits (97), Expect = 0.046,   Method: Composition-based stats.
 Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G  +V+  HGVG    ++  E  G K EF V+ +  ++  L VPV  
Sbjct: 485 KIGAPVVHIEHGVGRYLGLQTIEFDGQKDEFLVLEYA-NEAKLYVPVAN 532


>gi|284989494|ref|YP_003408048.1| transcription-repair coupling factor [Geodermatophilus obscurus DSM
           43160]
 gi|284062739|gb|ADB73677.1| transcription-repair coupling factor [Geodermatophilus obscurus DSM
           43160]
          Length = 1179

 Score = 41.7 bits (97), Expect = 0.046,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 31/78 (39%), Gaps = 11/78 (14%)

Query: 1   MTFQQKRDAMRQG------FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           M    K  A R+        + G+ +V+  HG+G   E+  + V G + ++ ++ +   K
Sbjct: 480 MRDAVKMPARRRNAVDLVQLQPGDLVVHEHHGIGRYIEMVSRTVNGGQRDYLIVEYAPSK 539

Query: 55  M-----CLKVPVGKAIDI 67
                  L VP      +
Sbjct: 540 RNQPPDRLFVPTDALDQL 557


>gi|312898732|ref|ZP_07758121.1| transcription-repair coupling factor [Megasphaera micronuciformis
           F0359]
 gi|310620163|gb|EFQ03734.1| transcription-repair coupling factor [Megasphaera micronuciformis
           F0359]
          Length = 1092

 Score = 41.7 bits (97), Expect = 0.046,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+++V+  HG+G    IK  E  G+  ++  I +    + L VP  +  
Sbjct: 427 GDYVVHDTHGIGKYVGIKTIETDGVHKDYLEIHYSGHDV-LYVPTDQIQ 474


>gi|297193946|ref|ZP_06911344.1| transcriptional-repair coupling factor [Streptomyces
           pristinaespiralis ATCC 25486]
 gi|297152012|gb|EFH31470.1| transcriptional-repair coupling factor [Streptomyces
           pristinaespiralis ATCC 25486]
          Length = 1070

 Score = 41.7 bits (97), Expect = 0.046,   Method: Composition-based stats.
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-------DKD 53
           M  ++++         G++IV+  HGVG   E+ ++ V G   E+ ++ +         D
Sbjct: 380 MPTRRRKTIDPLTLEAGDYIVHEQHGVGRYLEMVQRTVQGATREYLLVEYAPAKRGQPGD 439

Query: 54  KMCLKVPVGKAIDI 67
              L +P  +   +
Sbjct: 440 --RLYIPTDQLEQV 451


>gi|163802119|ref|ZP_02196015.1| transcription-repair coupling factor [Vibrio sp. AND4]
 gi|159174260|gb|EDP59068.1| transcription-repair coupling factor [Vibrio sp. AND4]
          Length = 1153

 Score = 41.7 bits (97), Expect = 0.047,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    ++  E  GMK E+  + + +++  L VPV     IG
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNEAKLYVPVSSLNLIG 533


>gi|85708435|ref|ZP_01039501.1| transcription-repair coupling factor [Erythrobacter sp. NAP1]
 gi|85689969|gb|EAQ29972.1| transcription-repair coupling factor [Erythrobacter sp. NAP1]
          Length = 1163

 Score = 41.7 bits (97), Expect = 0.047,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 44/110 (40%), Gaps = 12/110 (10%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A  Q    G+ +V+  HG+G    ++   V   + +   + +      L +PV     + 
Sbjct: 479 AELQALSRGDLVVHVEHGIGKYLGLEPVPVGKSQHDCVTLEYKGGD-KLYIPVENLEVLS 537

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN--SGDLIAIA 116
            R  S    V   L  + G+A      W +R  +   +I   +G+L+ +A
Sbjct: 538 -RYGSSEETVP--LDRLGGEA------WQKRRAKLKERITAIAGELMKVA 578


>gi|167627778|ref|YP_001678278.1| transcription-repair coupling factor [Francisella philomiragia
           subsp. philomiragia ATCC 25017]
 gi|167597779|gb|ABZ87777.1| transcription-repair coupling factor [Francisella philomiragia
           subsp. philomiragia ATCC 25017]
          Length = 1139

 Score = 41.7 bits (97), Expect = 0.048,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 474 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 527


>gi|148554437|ref|YP_001262019.1| transcription-repair coupling factor [Sphingomonas wittichii RW1]
 gi|148499627|gb|ABQ67881.1| transcription-repair coupling factor [Sphingomonas wittichii RW1]
          Length = 1195

 Score = 41.7 bits (97), Expect = 0.048,   Method: Composition-based stats.
 Identities = 28/142 (19%), Positives = 49/142 (34%), Gaps = 25/142 (17%)

Query: 1   MTFQQKRDAMRQGF-------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +  +QKR      F         G+ +V+  HG+G    +    VA    +   + +   
Sbjct: 509 LVRRQKRKKSADAFLAELATLSPGDLVVHMDHGIGRYEGLTSIPVAKAPHDCVALTYAGG 568

Query: 54  KMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLI 113
              L VPV     +  R  +E   V+  L  + G A      W  R      +I      
Sbjct: 569 D-KLYVPVENIDVLS-RYGAENEGVQ--LDKLGGVA------WQARKARMKERIR----- 613

Query: 114 AIAEVVRDLHRTDSQPEKSYSE 135
              E+  +L +T ++     +E
Sbjct: 614 ---EIAGELIKTAAERALRPAE 632


>gi|86138342|ref|ZP_01056916.1| transcription-repair coupling factor [Roseobacter sp. MED193]
 gi|85824867|gb|EAQ45068.1| transcription-repair coupling factor [Roseobacter sp. MED193]
          Length = 1153

 Score = 41.7 bits (97), Expect = 0.048,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 45/118 (38%), Gaps = 15/118 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + ++   L +PV       
Sbjct: 470 TETQSLTPGDLVVHVDHGIGRYQGMEVVRAAGAAHECLLLEYAEES-KLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
              L   +  +   L  + G A + K+     R +E   K+    +   AE  R L R
Sbjct: 526 ---LLSKYGHDEGLLDRLGGGAWQAKKAKLKERIREMADKL----IRIAAE--RALRR 574


>gi|328543941|ref|YP_004304050.1| Mfd, transcription-repair coupling factor [polymorphum gilvum
           SL003B-26A1]
 gi|326413685|gb|ADZ70748.1| Mfd, transcription-repair coupling factor [Polymorphum gilvum
           SL003B-26A1]
          Length = 1166

 Score = 41.7 bits (97), Expect = 0.049,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 42/123 (34%), Gaps = 18/123 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
                   G+ +V+  HG+G    +K  E  G   +   + +      L +PV     + 
Sbjct: 488 TEATALSEGDLVVHVDHGIGRFVGLKTIEAVGAPHDCLELQYAGGD-KLYLPVENIELL- 545

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R  SE    +  L  + G A      W  R +    K     ++ IA+    L RT + 
Sbjct: 546 TRYGSEETEAQ--LDRLGGGA------WQAR-KARMKK----RILEIAD---GLIRTAAA 589

Query: 129 PEK 131
              
Sbjct: 590 RAL 592


>gi|242239055|ref|YP_002987236.1| transcription-repair coupling factor [Dickeya dadantii Ech703]
 gi|242131112|gb|ACS85414.1| transcription-repair coupling factor [Dickeya dadantii Ech703]
          Length = 1147

 Score = 41.7 bits (97), Expect = 0.049,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 476 RPGQPVVHLEHGVGRYVGLTTLEAGGVKAEYLILHYAGED-KLYVPVSSLHLI 527


>gi|332706023|ref|ZP_08426096.1| transcription-repair coupling factor mfd [Lyngbya majuscula 3L]
 gi|332355283|gb|EGJ34750.1| transcription-repair coupling factor mfd [Lyngbya majuscula 3L]
          Length = 1295

 Score = 41.7 bits (97), Expect = 0.051,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           R G+++V+  HG+G   ++++  +     E+ VI +    + +      A  +G+
Sbjct: 616 RPGDYVVHKNHGIGQFLKLEKLSINNETREYLVIKYADGLLRV-----AADQLGV 665


>gi|332654772|ref|ZP_08420514.1| transcription-repair coupling factor [Ruminococcaceae bacterium
           D16]
 gi|332516115|gb|EGJ45723.1| transcription-repair coupling factor [Ruminococcaceae bacterium
           D16]
          Length = 1164

 Score = 41.7 bits (97), Expect = 0.051,   Method: Composition-based stats.
 Identities = 29/140 (20%), Positives = 56/140 (40%), Gaps = 22/140 (15%)

Query: 4   QQKRDAMRQGFR------TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
           Q+K    RQ  +       G+ +V+  HGVG    + +    G++ ++  IA+    + L
Sbjct: 481 QKKETTNRQKLKSYADLSPGDLVVHEHHGVGRYVGMVKMPADGIEKDYVKIAYAGSDV-L 539

Query: 58  KVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKINSGDLIA 114
            VP  +   I  + +      +   KL    +++  T W R   RA++    +  G +  
Sbjct: 540 YVPATQLDLIS-KYIGGGEDAQETKKL----SKLGGTDWERAKTRAKKAVQDLAKGLIEL 594

Query: 115 IAEVVRDLHRTDSQPEKSYS 134
            A+          QP  ++S
Sbjct: 595 YAQ-------RQRQPGYAFS 607


>gi|88808865|ref|ZP_01124374.1| Transcriptional-repair coupling factor [Synechococcus sp. WH 7805]
 gi|88786807|gb|EAR17965.1| Transcriptional-repair coupling factor [Synechococcus sp. WH 7805]
          Length = 1180

 Score = 41.7 bits (97), Expect = 0.051,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       R G+ +V+  HG+G   ++++  ++G   ++ V+ +      L+V  
Sbjct: 475 RKAASRTVDPNKMRPGDFVVHRNHGIGRFQKLEKLAISGEVRDYLVVQYADG--ILRVAA 532

Query: 62  GKAIDIG 68
            +   +G
Sbjct: 533 DQLGSLG 539


>gi|115524796|ref|YP_781707.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           BisA53]
 gi|115518743|gb|ABJ06727.1| transcription-repair coupling factor [Rhodopseudomonas palustris
           BisA53]
          Length = 1179

 Score = 41.7 bits (97), Expect = 0.051,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 48/116 (41%), Gaps = 18/116 (15%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
           TG+ +V+  HG+G    ++  +V G   +   + +  ++  L +PV     +  R  S+ 
Sbjct: 503 TGDIVVHVEHGIGRFVGLQTLQVGGAPHDCLELHYA-NETKLFLPVENIELLS-RYGSDG 560

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
             VE  L  + G      + W  R     AK+       I E+  +L +  ++ + 
Sbjct: 561 ANVE--LDKLGG------SGWQAR----KAKLK----NRIREMAGELIKIAAERQL 600


>gi|323701604|ref|ZP_08113276.1| transcription-repair coupling factor [Desulfotomaculum nigrificans
           DSM 574]
 gi|323533377|gb|EGB23244.1| transcription-repair coupling factor [Desulfotomaculum nigrificans
           DSM 574]
          Length = 1169

 Score = 41.7 bits (97), Expect = 0.052,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 27/55 (49%), Gaps = 4/55 (7%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G+++V+  HG+G    +    + G++ ++  + +  +   L VP      +GM
Sbjct: 504 KAGDYVVHVNHGIGRYLGMVSLNIGGLQKDYLQLQYAGED-KLYVPTD---QVGM 554


>gi|167758784|ref|ZP_02430911.1| hypothetical protein CLOSCI_01126 [Clostridium scindens ATCC 35704]
 gi|167663524|gb|EDS07654.1| hypothetical protein CLOSCI_01126 [Clostridium scindens ATCC 35704]
          Length = 1114

 Score = 41.7 bits (97), Expect = 0.052,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I++ EV  +  ++  I++ +    L +P  +   I
Sbjct: 442 KVGDYVVHENHGLGIYQGIEKIEVDKISKDYMKISYAQGG-NLYIPATQLDLI 493


>gi|317495443|ref|ZP_07953812.1| transcription-repair coupling factor [Gemella moribillum M424]
 gi|316914502|gb|EFV35979.1| transcription-repair coupling factor [Gemella moribillum M424]
          Length = 1185

 Score = 41.7 bits (97), Expect = 0.052,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 8/52 (15%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF--------VIAFDKDKM 55
           Q    G++IV+ +HG+G    I+  EV G+  +F         VI  D + M
Sbjct: 480 QELNIGDYIVHISHGIGLYEGIENIEVNGVHKDFLKIVYDGGDVIYVDINNM 531


>gi|148239816|ref|YP_001225203.1| transcription-repair coupling factor [Synechococcus sp. WH 7803]
 gi|147848355|emb|CAK23906.1| Transcription-repair coupling factor [Synechococcus sp. WH 7803]
          Length = 1180

 Score = 41.7 bits (97), Expect = 0.052,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       R G+ +V+  HG+G   ++++  ++G   ++ V+ +      L+V  
Sbjct: 475 RKAASRTVDPNKMRPGDFVVHRNHGIGRFQKLEKLAISGEVRDYLVVQYADG--ILRVAA 532

Query: 62  GKAIDIG 68
            +   +G
Sbjct: 533 DQLGSLG 539


>gi|330443885|ref|YP_004376871.1| transcription-repair coupling factor [Chlamydophila pecorum E58]
 gi|328806995|gb|AEB41168.1| transcription-repair coupling factor [Chlamydophila pecorum E58]
          Length = 1070

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 25/115 (21%), Positives = 49/115 (42%), Gaps = 18/115 (15%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    ++++     ++ ++ VI +  D   L VP  +A  I  R +  
Sbjct: 420 PGETVVHLHNGIGKFVGVEKKPNHLNIETDYLVIEYA-DHAKLYVPSDQAYLIS-RYVGA 477

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +         + G      + W  R++E   K     L+A AE    L + ++Q 
Sbjct: 478 SDTPPE-FHNLNG------SKWK-RSRELTEK----SLVAYAE---KLLQLEAQR 517


>gi|298492665|ref|YP_003722842.1| transcription-repair coupling factor ['Nostoc azollae' 0708]
 gi|298234583|gb|ADI65719.1| transcription-repair coupling factor ['Nostoc azollae' 0708]
          Length = 1166

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           R G+ +V+ +HG+G   E++   +     ++ VI +    + +      A  +G
Sbjct: 497 RPGDFVVHRSHGIGKFVELESLTINNETRDYLVIQYADGLLKV-----AADKVG 545


>gi|81300135|ref|YP_400343.1| transcription-repair coupling factor [Synechococcus elongatus PCC
           7942]
 gi|81169016|gb|ABB57356.1| transcription-repair coupling factor [Synechococcus elongatus PCC
           7942]
          Length = 1153

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 9/54 (16%), Positives = 27/54 (50%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
              +   R   + G+++V+ +HG+G   +++   ++G   E+ V+ +    + +
Sbjct: 472 AASKQVDRDRLKPGDYVVHRSHGIGRFVKLESLSLSGEMREYLVLQYADGLLRV 525


>gi|56750236|ref|YP_170937.1| transcription-repair coupling factor [Synechococcus elongatus PCC
           6301]
 gi|56685195|dbj|BAD78417.1| transcription-repair coupling factor [Synechococcus elongatus PCC
           6301]
          Length = 1153

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 9/54 (16%), Positives = 27/54 (50%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
              +   R   + G+++V+ +HG+G   +++   ++G   E+ V+ +    + +
Sbjct: 472 AASKQVDRDRLKPGDYVVHRSHGIGRFVKLESLSLSGEMREYLVLQYADGLLRV 525


>gi|87125795|ref|ZP_01081638.1| Transcriptional-repair coupling factor [Synechococcus sp. RS9917]
 gi|86166604|gb|EAQ67868.1| Transcriptional-repair coupling factor [Synechococcus sp. RS9917]
          Length = 1184

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 9/56 (16%), Positives = 26/56 (46%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                R       R G+++V+  HG+G   ++++  ++G   ++ V+ +    + +
Sbjct: 479 RKAASRTVDPNKMRPGDYVVHRNHGIGRFQKLEKLAISGEVRDYLVVQYADGLLRV 534


>gi|254430155|ref|ZP_05043858.1| transcription-repair coupling factor [Cyanobium sp. PCC 7001]
 gi|197624608|gb|EDY37167.1| transcription-repair coupling factor [Cyanobium sp. PCC 7001]
          Length = 1189

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 8/56 (14%), Positives = 24/56 (42%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                R       + G+ +V+  HG+G    +++  + G + ++ V+ +    + +
Sbjct: 484 RKAASRTVDPNKMQPGDFVVHRNHGIGRFLRLEKLAIGGEERDYLVVQYADGLLRV 539


>gi|218960874|ref|YP_001740649.1| putative transcription-repair coupling factor [Candidatus
           Cloacamonas acidaminovorans]
 gi|167729531|emb|CAO80443.1| putative transcription-repair coupling factor [Candidatus
           Cloacamonas acidaminovorans]
          Length = 1127

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 1/47 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           + G+++V+  HG+G    +K   + G  +E  V+ +  D   + VP 
Sbjct: 460 KPGDYVVHIDHGIGVFEGLKIIRLDGSDVECLVLRYANDD-RVYVPT 505


>gi|21673485|ref|NP_661550.1| transcription-repair coupling factor [Chlorobium tepidum TLS]
 gi|21646591|gb|AAM71892.1| transcription-repair coupling factor [Chlorobium tepidum TLS]
          Length = 1113

 Score = 41.7 bits (97), Expect = 0.053,   Method: Composition-based stats.
 Identities = 25/167 (14%), Positives = 64/167 (38%), Gaps = 24/167 (14%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q  + G+++V+  +G+G    ++  +V   + E  ++ ++     L V      +I +  
Sbjct: 422 QRLKVGDYVVHEDYGIGVFRSLETIQVGDSEQECVLVEYEGGD-QLYV---NVQNINL-- 475

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
               +        +   +++  + WS + +    K+   D+   A+++R   +    P  
Sbjct: 476 -LSKYTASE--GSLPNLSKLGSSKWSAKKERVRKKLR--DI--AAKLIRVYAKRKMTPGF 528

Query: 132 SYSERQLYESALNRMVREIAAVNSISEP----EAINLIEVNLSSKSS 174
           ++          +   RE  A     E     +AI  ++ ++ S S 
Sbjct: 529 AFG-------PDSIFQREFEASFMFEETPDQLKAIQEVKKDMQSPSP 568


>gi|304391611|ref|ZP_07373553.1| transcription-repair coupling factor [Ahrensia sp. R2A130]
 gi|303295840|gb|EFL90198.1| transcription-repair coupling factor [Ahrensia sp. R2A130]
          Length = 1169

 Score = 41.7 bits (97), Expect = 0.054,   Method: Composition-based stats.
 Identities = 27/171 (15%), Positives = 55/171 (32%), Gaps = 43/171 (25%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+     +   E  G   +   + +  +   L +PV     +  R  +   
Sbjct: 505 GDVVVHVDHGIARFHGLVTIEAMGAPHDCLELRYHNED-KLFLPVENIELLS-RYGNSDT 562

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
            V+  L  + G        W  R     AK+                            +
Sbjct: 563 EVQ--LDRLGG------ANWQAR----KAKLK---------------------------K 583

Query: 137 QLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSENQDKA 187
           ++ E A   +   IAA   + + + I L +      ++K     +++Q  A
Sbjct: 584 RILEMAGQLIA--IAAARQLKKADPIQLPDGVYGEFAAKFPYEETDDQLNA 632


>gi|183599469|ref|ZP_02960962.1| hypothetical protein PROSTU_02948 [Providencia stuartii ATCC 25827]
 gi|188021716|gb|EDU59756.1| hypothetical protein PROSTU_02948 [Providencia stuartii ATCC 25827]
          Length = 1148

 Score = 41.7 bits (97), Expect = 0.054,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 477 RPGQPVVHIEHGVGRYQGLTTLEAGGIKAEYLILTYAGND-KLYVPVSSLHLI 528


>gi|169830290|ref|YP_001716272.1| transcription-repair coupling factor [Candidatus Desulforudis
           audaxviator MP104C]
 gi|169637134|gb|ACA58640.1| transcription-repair coupling factor [Candidatus Desulforudis
           audaxviator MP104C]
          Length = 1176

 Score = 41.7 bits (97), Expect = 0.054,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HG+G    I   E+  +K E+ +I +  +   L VP  +   +
Sbjct: 503 PGDFVVHVNHGIGRYHGIVLLEIGEVKREYLLINYLGED-KLYVPTDQLGLV 553


>gi|91205666|ref|YP_538021.1| transcription-repair coupling factor [Rickettsia bellii RML369-C]
 gi|123388111|sp|Q1RI82|MFD_RICBR RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|91069210|gb|ABE04932.1| Transcription-repair coupling factor [Rickettsia bellii RML369-C]
          Length = 1120

 Score = 41.7 bits (97), Expect = 0.055,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           GE IV+  HG+G   +++  E+ G   +F  I +  +   L +PV     I
Sbjct: 459 GELIVHKDHGIGQFLKLEALEIKGKLHDFLKILYAGND-KLYIPVENIEVI 508


>gi|51473776|ref|YP_067533.1| transcription-repair coupling factor [Rickettsia typhi str.
           Wilmington]
 gi|81856448|sp|Q9AKD5|MFD_RICTY RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|13235382|emb|CAC33732.1| Mfd protein [Rickettsia typhi]
 gi|51460088|gb|AAU04051.1| transcription-repair coupling factor (superfamily helicase II)
           [Rickettsia typhi str. Wilmington]
          Length = 1120

 Score = 41.7 bits (97), Expect = 0.056,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           GE +V+  HG+G   +++  E+ G   +F  I +  +   L VPV     I
Sbjct: 459 GEFVVHKDHGIGQFLKLEAFEIQGKLHDFLKILYSGND-KLYVPVENIEVI 508


>gi|256003231|ref|ZP_05428223.1| transcription-repair coupling factor [Clostridium thermocellum DSM
           2360]
 gi|255992922|gb|EEU03012.1| transcription-repair coupling factor [Clostridium thermocellum DSM
           2360]
 gi|316939280|gb|ADU73314.1| transcription-repair coupling factor [Clostridium thermocellum DSM
           1313]
          Length = 1178

 Score = 41.7 bits (97), Expect = 0.056,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    I++  V  +K ++  I +      L VP  +   I
Sbjct: 509 NVGDYVVHYVHGIGKYIGIEQLVVENVKKDYLKIQYSDGD-YLYVPTNQLDLI 560


>gi|254527187|ref|ZP_05139239.1| transcription-repair coupling factor [Prochlorococcus marinus str.
           MIT 9202]
 gi|221538611|gb|EEE41064.1| transcription-repair coupling factor [Prochlorococcus marinus str.
           MIT 9202]
          Length = 1169

 Score = 41.3 bits (96), Expect = 0.057,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 23/43 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G+ IV+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 492 NPGDFIVHKNHGIGKFLKIEKINITGDSRDYLVIQYQDGKISV 534


>gi|281418467|ref|ZP_06249486.1| transcription-repair coupling factor [Clostridium thermocellum
           JW20]
 gi|281407551|gb|EFB37810.1| transcription-repair coupling factor [Clostridium thermocellum
           JW20]
          Length = 1178

 Score = 41.3 bits (96), Expect = 0.057,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    I++  V  +K ++  I +      L VP  +   I
Sbjct: 509 NVGDYVVHYVHGIGKYIGIEQLVVENVKKDYLKIQYSDGD-YLYVPTNQLDLI 560


>gi|116493280|ref|YP_805015.1| transcription-repair coupling factor [Pediococcus pentosaceus ATCC
           25745]
 gi|116103430|gb|ABJ68573.1| transcription-repair coupling factor [Pediococcus pentosaceus ATCC
           25745]
          Length = 1165

 Score = 41.3 bits (96), Expect = 0.057,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+++V+  HG+G    +   EV G+  ++  I +      L +PV +   +
Sbjct: 496 KTGDYVVHVNHGIGKFMGMTTMEVDGVHQDYMTIQYKGSG-QLFIPVTQLNLV 547


>gi|241668341|ref|ZP_04755919.1| transcription-repair coupling factor [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
 gi|254876874|ref|ZP_05249584.1| transcription-repair coupling factor [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
 gi|254842895|gb|EET21309.1| transcription-repair coupling factor [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
          Length = 1139

 Score = 41.3 bits (96), Expect = 0.058,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 474 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 527


>gi|157165294|ref|YP_001467043.1| transcription-repair coupling factor [Campylobacter concisus 13826]
 gi|112800411|gb|EAT97755.1| transcription-repair coupling factor [Campylobacter concisus 13826]
          Length = 981

 Score = 41.3 bits (96), Expect = 0.058,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           +  +++V+  +G+G    +++ +V G   EF VIA+  D   L +PV 
Sbjct: 346 KVNDYVVHEDYGIGRFLGLEKIKVLGATKEFVVIAYQNDD-KLLLPVE 392


>gi|78779345|ref|YP_397457.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9312]
 gi|78712844|gb|ABB50021.1| transcription-repair coupling factor [Prochlorococcus marinus str.
           MIT 9312]
          Length = 1174

 Score = 41.3 bits (96), Expect = 0.058,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 23/43 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G+ IV+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 492 SPGDFIVHKNHGIGKFLKIEKINITGDSRDYLVIQYQDGKISV 534


>gi|86146945|ref|ZP_01065263.1| transcription-repair coupling factor [Vibrio sp. MED222]
 gi|85835195|gb|EAQ53335.1| transcription-repair coupling factor [Vibrio sp. MED222]
          Length = 1153

 Score = 41.3 bits (96), Expect = 0.058,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    ++  E  GMK E+  + +      L VPV     IG
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEYQH-DAKLYVPVASLNLIG 533


>gi|157826877|ref|YP_001495941.1| transcription-repair coupling factor [Rickettsia bellii OSU 85-389]
 gi|157802181|gb|ABV78904.1| Transcription-repair coupling factor [Rickettsia bellii OSU 85-389]
          Length = 1120

 Score = 41.3 bits (96), Expect = 0.058,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           GE IV+  HG+G   +++  E+ G   +F  I +  +   L +PV     I
Sbjct: 459 GELIVHKDHGIGQFLKLEALEIKGKLHDFLKILYAGND-KLYIPVENIEVI 508


>gi|304440475|ref|ZP_07400363.1| transcription-repair coupling factor [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304371041|gb|EFM24659.1| transcription-repair coupling factor [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 1148

 Score = 41.3 bits (96), Expect = 0.059,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G     K  ++ G++ ++  +++  D   L +PV     I
Sbjct: 490 KIGDYVVHEIHGIGVYNGTKTMDIQGIRRDYLELSYQGDD-RLFLPVENLDVI 541


>gi|125975114|ref|YP_001039024.1| transcription-repair coupling factor [Clostridium thermocellum ATCC
           27405]
 gi|125715339|gb|ABN53831.1| transcription-repair coupling factor [Clostridium thermocellum ATCC
           27405]
          Length = 1178

 Score = 41.3 bits (96), Expect = 0.060,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    I++  V  +K ++  I +      L VP  +   I
Sbjct: 509 NVGDYVVHYVHGIGKYIGIEQLVVENVKKDYLKIQYSDGD-YLYVPTNQLDLI 560


>gi|167011026|ref|ZP_02275957.1| transcription-repair coupling factor [Francisella tularensis subsp.
           holarctica FSC200]
          Length = 847

 Score = 41.3 bits (96), Expect = 0.060,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 181 KPGMHVVHIDHGIGRYEGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 234


>gi|78485512|ref|YP_391437.1| transcription-repair coupling factor [Thiomicrospira crunogena
           XCL-2]
 gi|78363798|gb|ABB41763.1| transcription-repair coupling factor [Thiomicrospira crunogena
           XCL-2]
          Length = 1159

 Score = 41.3 bits (96), Expect = 0.061,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 1/45 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           G+ IV+  HGVG    ++   + G + EF +I +      L VPV
Sbjct: 493 GQPIVHFDHGVGRFLGLETMTIQGEEHEFLMIQYA-GDAKLYVPV 536


>gi|119025662|ref|YP_909507.1| transcription-repair coupling factor [Bifidobacterium adolescentis
           ATCC 15703]
 gi|118765246|dbj|BAF39425.1| transcription-repair coupling factor [Bifidobacterium adolescentis
           ATCC 15703]
          Length = 1188

 Score = 41.3 bits (96), Expect = 0.061,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 33/72 (45%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-GM---KLEFFVIAFDKDKM----- 55
           +++       +TG+++V+  HG+G   E++++ +  G      E+ VI +   K      
Sbjct: 498 RRKAIDLMELKTGDYVVHEQHGIGRFVEMRQRTIGKGENQTTREYLVIEYAPSKRGAPAD 557

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 558 KLFIPTDQLDQV 569


>gi|312792831|ref|YP_004025754.1| transcription-repair coupling factor [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312179971|gb|ADQ40141.1| transcription-repair coupling factor [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 1141

 Score = 41.3 bits (96), Expect = 0.063,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G     ++  V G   E+  + +  +   L VP      I
Sbjct: 483 KPGDFVVHRTHGIGKFLGFEKITVEGTTKEYVKLEYA-NSSYLYVPTTNLDVI 534


>gi|157413397|ref|YP_001484263.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9215]
 gi|157387972|gb|ABV50677.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9215]
          Length = 1169

 Score = 41.3 bits (96), Expect = 0.063,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 23/43 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G+ IV+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 492 SPGDFIVHKNHGIGKFLKIEKINITGDSRDYLVIQYQDGKISV 534


>gi|315187200|gb|EFU20957.1| transcription-repair coupling factor [Spirochaeta thermophila DSM
           6578]
          Length = 1127

 Score = 41.3 bits (96), Expect = 0.064,   Method: Composition-based stats.
 Identities = 19/115 (16%), Positives = 47/115 (40%), Gaps = 16/115 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  HG+G    IK  +V   + ++  + +  ++  + VP+ +   +  R +  
Sbjct: 465 SPGDYVVHVHHGIGRFLGIKRMKVGENERDYLHLEYAGEE-YVFVPIEQVNLVQ-RYIGS 522

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +    R         ++  + W +R +E   K     +  +A+  R L     + 
Sbjct: 523 SDAAPRL-------DKLGSSSWQKR-KERVKK----SVEDLAK--RLLAIYSRRK 563


>gi|57167968|ref|ZP_00367107.1| transcription-repair coupling factor [Campylobacter coli RM2228]
 gi|57020342|gb|EAL57011.1| transcription-repair coupling factor [Campylobacter coli RM2228]
          Length = 978

 Score = 41.3 bits (96), Expect = 0.064,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           +++K + +    + G+ IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 YKRKANLIIDELKIGDFIVHEDYGVGKFLGLEMISISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|294101748|ref|YP_003553606.1| DEAD/DEAH box helicase domain protein [Aminobacterium colombiense
           DSM 12261]
 gi|293616728|gb|ADE56882.1| DEAD/DEAH box helicase domain protein [Aminobacterium colombiense
           DSM 12261]
          Length = 1025

 Score = 41.3 bits (96), Expect = 0.065,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 46/121 (38%), Gaps = 17/121 (14%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           ++     + +V+  +GV     ++E    G + +  ++ F  +K  L VP  +   I   
Sbjct: 367 KERLTENQLVVHEDYGVAVYRGVEEVASGGERFDSLILEFA-NKQRLLVPFMQIYKID-- 423

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
            L E    E  L  +RG           R ++   K        + E V++L R  ++ E
Sbjct: 424 PLPEEATAETVLDSLRGT----------RWKKAVEKTRE----RVREEVKNLVRLYARRE 469

Query: 131 K 131
            
Sbjct: 470 L 470


>gi|238018751|ref|ZP_04599177.1| hypothetical protein VEIDISOL_00609 [Veillonella dispar ATCC 17748]
 gi|237864517|gb|EEP65807.1| hypothetical protein VEIDISOL_00609 [Veillonella dispar ATCC 17748]
          Length = 1098

 Score = 41.3 bits (96), Expect = 0.065,   Method: Composition-based stats.
 Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    +K  E  G+  ++  I +      L +P      +
Sbjct: 427 PGDYVVHSMHGIGKYIGLKTIETEGIHRDYIEIDYAGSD-KLFLPANNLDQL 477


>gi|307718846|ref|YP_003874378.1| transcription-repair coupling factor [Spirochaeta thermophila DSM
           6192]
 gi|306532571|gb|ADN02105.1| transcription-repair coupling factor [Spirochaeta thermophila DSM
           6192]
          Length = 1127

 Score = 41.3 bits (96), Expect = 0.065,   Method: Composition-based stats.
 Identities = 19/115 (16%), Positives = 47/115 (40%), Gaps = 16/115 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  HG+G    IK  +V   + ++  + +  ++  + VP+ +   +  R +  
Sbjct: 465 SPGDYVVHVHHGIGRFLGIKRMKVGENERDYLHLEYAGEE-YVFVPIEQVNLVQ-RYIGS 522

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           +    R         ++  + W +R +E   K     +  +A+  R L     + 
Sbjct: 523 SDAAPRL-------DKLGSSSWQKR-KERVKK----SVEDLAK--RLLAIYSRRK 563


>gi|307308795|ref|ZP_07588491.1| transcription-repair coupling factor [Sinorhizobium meliloti
           BL225C]
 gi|307317268|ref|ZP_07596709.1| transcription-repair coupling factor [Sinorhizobium meliloti AK83]
 gi|306897356|gb|EFN28101.1| transcription-repair coupling factor [Sinorhizobium meliloti AK83]
 gi|306900801|gb|EFN31412.1| transcription-repair coupling factor [Sinorhizobium meliloti
           BL225C]
          Length = 1169

 Score = 41.3 bits (96), Expect = 0.066,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 42/114 (36%), Gaps = 20/114 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A   G   G ++V+  HG+G    ++  E AG   +   +    D   L +PV     + 
Sbjct: 496 AEVTGLDEGSYVVHAEHGIGRFVGLRTIEAAGAPHDCLEL-VYADDAKLFLPVENIELLS 554

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
            R    +   +  L  + G A      W  R     AK+       +G LI IA
Sbjct: 555 -RY--GSEGTDAVLDKLGGVA------WQAR----KAKLKKRLLDMAGGLIRIA 595


>gi|15965404|ref|NP_385757.1| transcription-repair coupling factor (TRCF) protein [Sinorhizobium
           meliloti 1021]
 gi|15074585|emb|CAC46230.1| Probable transcription-repair coupling factor (TRCF) protein
           [Sinorhizobium meliloti 1021]
          Length = 1171

 Score = 41.3 bits (96), Expect = 0.066,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 42/114 (36%), Gaps = 20/114 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A   G   G ++V+  HG+G    ++  E AG   +   +    D   L +PV     + 
Sbjct: 498 AEVTGLDEGSYVVHAEHGIGRFVGLRTIEAAGAPHDCLEL-VYADDAKLFLPVENIELLS 556

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
            R    +   +  L  + G A      W  R     AK+       +G LI IA
Sbjct: 557 -RY--GSEGTDAVLDKLGGVA------WQAR----KAKLKKRLLDMAGGLIRIA 597


>gi|123968563|ref|YP_001009421.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. AS9601]
 gi|123198673|gb|ABM70314.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. AS9601]
          Length = 1170

 Score = 41.3 bits (96), Expect = 0.066,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 23/43 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G+ IV+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 492 SPGDFIVHKNHGIGKFLKIEKINITGDSRDYLVIQYQDGKISV 534


>gi|119386518|ref|YP_917573.1| transcription-repair coupling factor [Paracoccus denitrificans
           PD1222]
 gi|119377113|gb|ABL71877.1| transcription-repair coupling factor [Paracoccus denitrificans
           PD1222]
          Length = 1154

 Score = 41.3 bits (96), Expect = 0.066,   Method: Composition-based stats.
 Identities = 18/94 (19%), Positives = 33/94 (35%), Gaps = 14/94 (14%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HG+G  T ++  +  G+  +   + +      L +PV          L   
Sbjct: 485 PGDLVVHVEHGIGRYTGLETVKALGVPHDCVALEYAGGD-RLYLPVENIE------LLSR 537

Query: 76  HFVER-ALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           +  E   L  + G A      W  R      +I 
Sbjct: 538 YGHEEGLLDKLGGGA------WQARKARLKERIK 565


>gi|254780947|ref|YP_003065360.1| transcription-repair coupling factor [Candidatus Liberibacter
           asiaticus str. psy62]
 gi|254040624|gb|ACT57420.1| transcription-repair coupling factor [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 1187

 Score = 41.3 bits (96), Expect = 0.067,   Method: Composition-based stats.
 Identities = 27/108 (25%), Positives = 40/108 (37%), Gaps = 17/108 (15%)

Query: 5   QKRDAMRQGF------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
           +K++   Q F        G  IV+  HG+G    +   EV+G   +   + +  D   L 
Sbjct: 488 RKKNVHAQSFFDSSNIEEGAIIVHAEHGIGRFVRLYSIEVSGTFHDCLELHYA-DNAKLF 546

Query: 59  VPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           VPV     I  R  +E   V   L  + G A      W  R +    K
Sbjct: 547 VPVENIDLIS-RYSTEITTVT--LDKLGGSA------WKTR-KANLKK 584


>gi|293396556|ref|ZP_06640832.1| transcription-repair coupling factor [Serratia odorifera DSM 4582]
 gi|291420820|gb|EFE94073.1| transcription-repair coupling factor [Serratia odorifera DSM 4582]
          Length = 1159

 Score = 41.3 bits (96), Expect = 0.068,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+K E+ ++++  D   L VPV     I
Sbjct: 489 PGQPVVHLEHGVGRYVGLTTLEAGGIKAEYLILSYAGDD-KLYVPVSSLHLI 539


>gi|332288167|ref|YP_004419019.1| transcription-repair coupling factor [Gallibacterium anatis UMN179]
 gi|330431063|gb|AEC16122.1| transcription-repair coupling factor [Gallibacterium anatis UMN179]
          Length = 1147

 Score = 41.3 bits (96), Expect = 0.069,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  GM  E+ V+ +  D+  L VPV     I  R +  
Sbjct: 475 KIGQPVVHLEHGVGRYDGLTTLDAGGMVAEYLVLRYA-DEAKLYVPVSSLHLIS-RYVGG 532

Query: 75  AHF 77
              
Sbjct: 533 GEE 535


>gi|163815685|ref|ZP_02207057.1| hypothetical protein COPEUT_01865 [Coprococcus eutactus ATCC 27759]
 gi|158448990|gb|EDP25985.1| hypothetical protein COPEUT_01865 [Coprococcus eutactus ATCC 27759]
          Length = 1186

 Score = 41.3 bits (96), Expect = 0.069,   Method: Composition-based stats.
 Identities = 10/40 (25%), Positives = 22/40 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
             G+++V+  +G+G    I++ EV G   ++ VI + +  
Sbjct: 508 SVGDYVVHEKYGIGVYKGIEKIEVDGALKDYLVIEYAEGG 547


>gi|22298495|ref|NP_681742.1| transcription-repair coupling factor [Thermosynechococcus elongatus
           BP-1]
 gi|22294675|dbj|BAC08504.1| transcription-repair coupling factor [Thermosynechococcus elongatus
           BP-1]
          Length = 1142

 Score = 41.3 bits (96), Expect = 0.069,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 4   QQKRDAMRQ----GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
           +++R A +Q      + G+++V+  HG+G    ++   +     E+ V+ +    + +
Sbjct: 460 KRRRAAAKQVDLNKLQPGDYVVHRQHGIGQFLRLETLTINNETREYLVLQYADGILRV 517


>gi|259416898|ref|ZP_05740818.1| transcription-repair coupling factor [Silicibacter sp. TrichCH4B]
 gi|259348337|gb|EEW60114.1| transcription-repair coupling factor [Silicibacter sp. TrichCH4B]
          Length = 1151

 Score = 41.3 bits (96), Expect = 0.071,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + ++   L +PV       
Sbjct: 470 TEAQSLSPGDLVVHVDHGIGRYIGLEVVTAAGAAHECLLLEYAEES-KLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   ++
Sbjct: 526 ---LLSKYGHDEGLLDKLGGGAWQAKKARLKERIREMADRL 563


>gi|251789258|ref|YP_003003979.1| transcription-repair coupling factor [Dickeya zeae Ech1591]
 gi|247537879|gb|ACT06500.1| transcription-repair coupling factor [Dickeya zeae Ech1591]
          Length = 1150

 Score = 41.3 bits (96), Expect = 0.071,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 479 RPGQPVVHLEHGVGRYAGLTTLEAGGIKAEYLILHYAGED-KLYVPVSSLHLI 530


>gi|226227554|ref|YP_002761660.1| transcription-repair coupling factor [Gemmatimonas aurantiaca T-27]
 gi|226090745|dbj|BAH39190.1| transcription-repair coupling factor [Gemmatimonas aurantiaca T-27]
          Length = 1104

 Score = 41.3 bits (96), Expect = 0.071,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             + G+++V+  HG+G    I++  V    +E  VI ++     L VP+ +   I
Sbjct: 437 ALKPGDYVVHLEHGIGIYRGIEKIFVRESTIESAVIEYEGGD-RLNVPLYRIDQI 490


>gi|293414407|ref|ZP_06657056.1| transcription-repair coupling factor [Escherichia coli B185]
 gi|291434465|gb|EFF07438.1| transcription-repair coupling factor [Escherichia coli B185]
          Length = 1148

 Score = 41.3 bits (96), Expect = 0.072,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +VY  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVYLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|307131510|ref|YP_003883526.1| transcription-repair coupling factor [Dickeya dadantii 3937]
 gi|306529039|gb|ADM98969.1| transcription-repair coupling factor [Dickeya dadantii 3937]
          Length = 1149

 Score = 41.3 bits (96), Expect = 0.072,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG  + +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYSGLTTLEAGGIKAEYLILHYAGED-KLYVPVSSLHLI 529


>gi|303239799|ref|ZP_07326323.1| transcription-repair coupling factor [Acetivibrio cellulolyticus
           CD2]
 gi|302592736|gb|EFL62460.1| transcription-repair coupling factor [Acetivibrio cellulolyticus
           CD2]
          Length = 1177

 Score = 41.3 bits (96), Expect = 0.072,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+ +V+ +HG+G    I++  V  +K ++  I + +D   L VP  +  
Sbjct: 512 NIGDFVVHQSHGIGKYIGIEQLVVENIKKDYLKIQY-QDDAFLYVPTNQLD 561


>gi|197105082|ref|YP_002130459.1| transcription-repair coupling factor [Phenylobacterium zucineum
           HLK1]
 gi|196478502|gb|ACG78030.1| transcription-repair coupling factor [Phenylobacterium zucineum
           HLK1]
          Length = 1162

 Score = 41.3 bits (96), Expect = 0.072,   Method: Composition-based stats.
 Identities = 25/109 (22%), Positives = 45/109 (41%), Gaps = 7/109 (6%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    +K  +V G   +   + +   +  L +PV     + 
Sbjct: 488 AEASALTPGDLVVHIDHGIGRYDGLKTLDVQGAPHDTLELQY-GGEAKLYLPVENIDLL- 545

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAE 117
            R  ++A  V+  L  + G A   R     RA+E   ++  G +   AE
Sbjct: 546 TRYGADAENVQ--LDRLGGAAWQAR---KARAKERLREMADGLIRIAAE 589


>gi|315122360|ref|YP_004062849.1| transcription-repair coupling factor [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313495762|gb|ADR52361.1| transcription-repair coupling factor [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 1185

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G  IV+  HG+G    +   EV+G   +   + +  D   L VPV     I
Sbjct: 505 GSIIVHAEHGIGRFIRLSSIEVSGTSHDCLELHYA-DNAKLFVPVENIDLI 554


>gi|317052468|ref|YP_004113584.1| transcription-repair coupling factor [Desulfurispirillum indicum
           S5]
 gi|316947552|gb|ADU67028.1| transcription-repair coupling factor [Desulfurispirillum indicum
           S5]
          Length = 1048

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 31/129 (24%), Positives = 51/129 (39%), Gaps = 14/129 (10%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           MT      AM    R G+H+V+  +GVG    I+    AG + +F  I + +  + L VP
Sbjct: 385 MTTYLTDLAM---LRPGDHVVHVEYGVGIFRGIENLSAAGTRGDFLKIEYARGDI-LYVP 440

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             K   +  +K   +   +  L  +  K+  KR     RA++    I    +   A    
Sbjct: 441 NDKFHLV--QKYIGSDTGDPKLDRMGSKSWEKR---KSRARKSVEDIAQSLMQTDA---- 491

Query: 121 DLHRTDSQP 129
            L R   + 
Sbjct: 492 -LRRRHKEH 499


>gi|255349143|ref|ZP_05381150.1| transcription-repair coupling factor [Chlamydia trachomatis 70]
 gi|255503680|ref|ZP_05382070.1| transcription-repair coupling factor [Chlamydia trachomatis 70s]
 gi|255507360|ref|ZP_05382999.1| transcription-repair coupling factor [Chlamydia trachomatis
           D(s)2923]
 gi|289525792|emb|CBJ15273.1| transcription-repair coupling factor [Chlamydia trachomatis
           Sweden2]
 gi|296435368|gb|ADH17546.1| transcription-repair coupling factor [Chlamydia trachomatis E/150]
 gi|296439085|gb|ADH21238.1| transcription-repair coupling factor [Chlamydia trachomatis
           E/11023]
          Length = 1079

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 40/91 (43%), Gaps = 11/91 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDA 105
           +      L  + G        W RR++E   
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSE 514


>gi|224543056|ref|ZP_03683595.1| hypothetical protein CATMIT_02256 [Catenibacterium mitsuokai DSM
           15897]
 gi|224523996|gb|EEF93101.1| hypothetical protein CATMIT_02256 [Catenibacterium mitsuokai DSM
           15897]
          Length = 1150

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 3/63 (4%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  +G+G    I+   V G+  ++  IA+  + + L VPV +     +RK S 
Sbjct: 479 KVGDYVVHDTNGIGQYMGIETLVVDGVHKDYLHIAYKGNDI-LYVPVEQFQL--IRKYSS 535

Query: 75  AHF 77
              
Sbjct: 536 RDG 538


>gi|166154965|ref|YP_001653220.1| transcription-repair coupling factor [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
 gi|165930953|emb|CAP06515.1| transcription-repair coupling factor [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
          Length = 1079

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 40/91 (43%), Gaps = 11/91 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDA 105
           +      L  + G        W RR++E   
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSE 514


>gi|166154090|ref|YP_001654208.1| transcription-repair coupling factor [Chlamydia trachomatis 434/Bu]
 gi|301335295|ref|ZP_07223539.1| transcription-repair coupling factor [Chlamydia trachomatis L2tet1]
 gi|165930078|emb|CAP03561.1| transcription-repair coupling factor [Chlamydia trachomatis 434/Bu]
          Length = 1079

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 40/91 (43%), Gaps = 11/91 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDA 105
           +      L  + G        W RR++E   
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSE 514


>gi|158422845|ref|YP_001524137.1| transcription-repair coupling factor [Azorhizobium caulinodans ORS
           571]
 gi|158329734|dbj|BAF87219.1| transcription-repair coupling factor [Azorhizobium caulinodans ORS
           571]
          Length = 1171

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 36/160 (22%), Positives = 56/160 (35%), Gaps = 21/160 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K  E  G   +   I +      L +PV     +  R  SE  
Sbjct: 502 GDLVVHVDHGIGRFIGLKAIEAMGAPHDCLEIHYAGGD-KLFLPVENLELL-TRYGSEDT 559

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDLIAIAEVVRDLHRTDSQPEKSYS 134
             +  L  + G        W  R      +I    G+LI IA   R L         +  
Sbjct: 560 EAQ--LDKLGGGG------WQARKARMKKRIREMAGELIKIAA-ARQLSEAPRLVPAAG- 609

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
              LY+    R   E     +  +  AI+ +  +LSS   
Sbjct: 610 ---LYDEFRARFPYE----ETDDQEAAISAVLDDLSSGHP 642


>gi|312883532|ref|ZP_07743257.1| transcription-repair coupling factor [Vibrio caribbenthicus ATCC
           BAA-2122]
 gi|309368755|gb|EFP96282.1| transcription-repair coupling factor [Vibrio caribbenthicus ATCC
           BAA-2122]
          Length = 1154

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HG+G  T ++  EV G+  E+  + + +++  L VPV 
Sbjct: 482 KPGQPVVHIDHGIGRYTGLQTLEVGGITTEYVTLEY-QNEAKLYVPVA 528


>gi|124023141|ref|YP_001017448.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9303]
 gi|123963427|gb|ABM78183.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9303]
          Length = 1193

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 11/52 (21%), Positives = 26/52 (50%), Gaps = 2/52 (3%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           G+ +V+  HG+G   ++++  ++G   ++ VI +      L V   +   +G
Sbjct: 503 GDFVVHRNHGIGRFLKLEKLAISGEVRDYLVIQYLDG--TLSVAADQLGSLG 552


>gi|34557604|ref|NP_907419.1| transcription-repair coupling factor [Wolinella succinogenes DSM
           1740]
 gi|34483321|emb|CAE10319.1| TRANSCRIPTION-REPAIR COUPLING FACTOR [Wolinella succinogenes]
          Length = 994

 Score = 41.3 bits (96), Expect = 0.073,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 39/85 (45%), Gaps = 9/85 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+++V+  +G+G    I ++ V G   +F ++A+  +   L +PV     I  R +++
Sbjct: 359 RVGDYVVHKDYGIGIFKGIIQERVLGALRDFILLAYQGED-RLLLPVENLDYID-RYVAD 416

Query: 75  AHFVERA-------LKLVRGKARVK 92
           +  +             ++ K R K
Sbjct: 417 SGSIPSVDRLGKGSFAKLKEKIRTK 441


>gi|253989203|ref|YP_003040559.1| transcription-repair coupling factor [Photorhabdus asymbiotica
           subsp. asymbiotica ATCC 43949]
 gi|253780653|emb|CAQ83815.1| transcription-repair coupling factor (trcf) [Photorhabdus
           asymbiotica]
          Length = 1148

 Score = 40.9 bits (95), Expect = 0.074,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++++  D   L VPV     I
Sbjct: 477 RPGQPVVHLEHGVGRYQGLTSLEAGGIKAEYLILSYAGDD-KLYVPVSSLHLI 528


>gi|326772339|ref|ZP_08231624.1| transcription-repair coupling factor [Actinomyces viscosus C505]
 gi|326638472|gb|EGE39373.1| transcription-repair coupling factor [Actinomyces viscosus C505]
          Length = 778

 Score = 40.9 bits (95), Expect = 0.077,   Method: Composition-based stats.
 Identities = 29/141 (20%), Positives = 47/141 (33%), Gaps = 25/141 (17%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKMCL 57
             + +R         G+ +V+  HGVG   E+  + V G       E+ VI +       
Sbjct: 59  ARRTRRSVDPLSLHAGDLVVHAQHGVGRFIELSRRTVGGPRSSATREYLVIEYAPS---- 114

Query: 58  KVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTM----WSRRAQEYDAKINSGDLI 113
                K    G R L     +++  K V G +     M    W        AK  S    
Sbjct: 115 -----KRGQPGDRLLVPTDALDQVTKYVGGDSPALSKMGGADW--------AKTKSKARK 161

Query: 114 AIAEVVRDLHRTDSQPEKSYS 134
           A+ E+  +L R  +    +  
Sbjct: 162 AVREIAGELVRLYAARAATTG 182


>gi|85858740|ref|YP_460942.1| transcription-repair coupling factor [Syntrophus aciditrophicus SB]
 gi|85721831|gb|ABC76774.1| transcription-repair coupling factor [Syntrophus aciditrophicus SB]
          Length = 1202

 Score = 40.9 bits (95), Expect = 0.077,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 34/67 (50%), Gaps = 2/67 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  HG+G    +++  V G++ +F +I +      L +P+ +   I  R +  
Sbjct: 541 KEGDYVVHKEHGIGLYQGLQKLSVGGIENDFLLINYQSGD-KLYLPIDRLDQIS-RYIGP 598

Query: 75  AHFVERA 81
             +V + 
Sbjct: 599 EGYVPKV 605


>gi|222528653|ref|YP_002572535.1| transcription-repair coupling factor [Caldicellulosiruptor bescii
           DSM 6725]
 gi|222455500|gb|ACM59762.1| transcription-repair coupling factor [Caldicellulosiruptor bescii
           DSM 6725]
          Length = 1141

 Score = 40.9 bits (95), Expect = 0.078,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G     ++  V G   E+  + +  +   L VP      I
Sbjct: 483 KPGDFVVHRTHGIGKFLGFEKITVEGTTKEYVKLEYA-NSSYLYVPTTNLDVI 534


>gi|50120752|ref|YP_049919.1| transcription-repair coupling factor [Pectobacterium atrosepticum
           SCRI1043]
 gi|49611278|emb|CAG74725.1| transcription-repair coupling factor [Pectobacterium atrosepticum
           SCRI1043]
          Length = 1149

 Score = 40.9 bits (95), Expect = 0.078,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 10/89 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYVGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYAGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQE 102
           A      L  + G+A      WSR R + 
Sbjct: 536 ADE-NAPLHKLGGEA------WSRARQKA 557


>gi|33863047|ref|NP_894607.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9313]
 gi|33634964|emb|CAE20950.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9313]
          Length = 1193

 Score = 40.9 bits (95), Expect = 0.078,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 50/118 (42%), Gaps = 18/118 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G   ++++  ++G   ++ VI +      L V   +   +G R  S + 
Sbjct: 503 GDFVVHRNHGIGRFLKLEKLAISGEVRDYLVIEYLDG--TLSVAADQLGSLG-RYRSTSE 559

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              +         R+  T W ++ +E   K+       + +V  DL +  ++  ++  
Sbjct: 560 SPPKL-------NRMGGTTW-QKVKERTRKL-------VRKVAMDLVKLYAERLQAPG 602


>gi|329767249|ref|ZP_08258776.1| transcription-repair coupling factor [Gemella haemolysans M341]
 gi|328836916|gb|EGF86563.1| transcription-repair coupling factor [Gemella haemolysans M341]
          Length = 1183

 Score = 40.9 bits (95), Expect = 0.078,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 8/52 (15%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF--------VIAFDKDKM 55
           Q    G++IV+ +HG+G    I+  EV G+  +F         +I  D + M
Sbjct: 480 QELNVGDYIVHVSHGIGLYEGIENVEVGGVYKDFLKIVYDGGDIIYVDINNM 531


>gi|99081190|ref|YP_613344.1| transcription-repair coupling factor [Ruegeria sp. TM1040]
 gi|99037470|gb|ABF64082.1| transcription-repair coupling factor [Ruegeria sp. TM1040]
          Length = 1149

 Score = 40.9 bits (95), Expect = 0.079,   Method: Composition-based stats.
 Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + ++   L +PV       
Sbjct: 470 TEAQSLSPGDLVVHVDHGIGRYIGLEVVTAAGAAHECLLLEYAEES-KLYLPVENIE--- 525

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   ++
Sbjct: 526 ---LLSKYGHDEGLLDKLGGGAWQAKKARLKERIREMADRL 563


>gi|74317674|ref|YP_315414.1| transcription-repair coupling factor [Thiobacillus denitrificans
           ATCC 25259]
 gi|74057169|gb|AAZ97609.1| transcription-repair coupling factor [Thiobacillus denitrificans
           ATCC 25259]
          Length = 1146

 Score = 40.9 bits (95), Expect = 0.081,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  +GVG    +   ++     EF  + + K    L VPV     I
Sbjct: 467 KPGDPVVHAQYGVGQYLGLATMDLGDGDTEFLQLEYAKGD-KLYVPVANLHLI 518


>gi|241890049|ref|ZP_04777347.1| transcription-repair coupling factor [Gemella haemolysans ATCC
           10379]
 gi|241863671|gb|EER68055.1| transcription-repair coupling factor [Gemella haemolysans ATCC
           10379]
          Length = 1183

 Score = 40.9 bits (95), Expect = 0.083,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 8/52 (15%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFF--------VIAFDKDKM 55
           Q    G++IV+ +HG+G    I+  EV G+  +F         +I  D + M
Sbjct: 480 QELNIGDYIVHVSHGIGLYEGIENVEVGGVFKDFLKIVYDGGDIIYVDINNM 531


>gi|282896750|ref|ZP_06304758.1| Transcription-repair coupling factor [Raphidiopsis brookii D9]
 gi|281198468|gb|EFA73356.1| Transcription-repair coupling factor [Raphidiopsis brookii D9]
          Length = 1202

 Score = 40.9 bits (95), Expect = 0.084,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           R G+ +V+ +HG+G   +++   +     ++ VI +    + +      A  +G
Sbjct: 509 RAGDFVVHRSHGIGKFVKLESLTINDETRDYLVIQYADGVLRV-----AADQVG 557


>gi|302388384|ref|YP_003824206.1| transcription-repair coupling factor [Clostridium saccharolyticum
           WM1]
 gi|302199012|gb|ADL06583.1| transcription-repair coupling factor [Clostridium saccharolyticum
           WM1]
          Length = 1179

 Score = 40.9 bits (95), Expect = 0.085,   Method: Composition-based stats.
 Identities = 24/122 (19%), Positives = 52/122 (42%), Gaps = 15/122 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  HG+G    I++ E  G+  ++  + +  +   L +P  +    G++K + 
Sbjct: 508 SIGDYVVHEDHGLGIYRGIEKIEQDGIIKDYLKVEYADNG-NLYLPATRLD--GIQKYAG 564

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ-PEKSY 133
           A   +  L  + G+       W+R       ++  G +  IA+ +  L+    Q     Y
Sbjct: 565 ADAKKPKLNRLGGE------QWNR----TKTRVK-GAVKEIAKELVQLYAARQQTHGFQY 613

Query: 134 SE 135
            E
Sbjct: 614 GE 615


>gi|332297986|ref|YP_004439908.1| transcription-repair coupling factor [Treponema brennaborense DSM
           12168]
 gi|332181089|gb|AEE16777.1| transcription-repair coupling factor [Treponema brennaborense DSM
           12168]
          Length = 1185

 Score = 40.9 bits (95), Expect = 0.087,   Method: Composition-based stats.
 Identities = 18/113 (15%), Positives = 46/113 (40%), Gaps = 14/113 (12%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  +G+G    I+  +  G + ++  + +D +++ + +P+ +   +  R +  
Sbjct: 522 NPGDYVVHVNYGIGLFKGIERVKAMGNERDYIKLEYDDEEI-VFIPIEQVNLVQ-RYIGN 579

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
                R         R+    W  R      K+    +  IA+ + DL+    
Sbjct: 580 EGCAPRL-------DRLGSKSWENR----KNKVKK-SVEDIAQKLIDLYSRRK 620


>gi|296111607|ref|YP_003621989.1| transcription-repair coupling factor [Leuconostoc kimchii IMSNU
           11154]
 gi|295833139|gb|ADG41020.1| transcription-repair coupling factor [Leuconostoc kimchii IMSNU
           11154]
          Length = 1174

 Score = 40.9 bits (95), Expect = 0.087,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    ++     G K ++  IA+ K+   + +PV +   I
Sbjct: 492 NVGDYVVHVNHGIGRYEGLQTMTSDGGKQDYLSIAYQKNA-KIFIPVTQLNLI 543


>gi|282900454|ref|ZP_06308403.1| Transcription-repair coupling factor [Cylindrospermopsis
           raciborskii CS-505]
 gi|281194647|gb|EFA69595.1| Transcription-repair coupling factor [Cylindrospermopsis
           raciborskii CS-505]
          Length = 1171

 Score = 40.9 bits (95), Expect = 0.087,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           R G+ +V+ +HG+G   +++   +     ++ VI +    + +      A  +G
Sbjct: 509 RAGDFVVHRSHGIGKFVKLESLTINDETRDYLVIQYADGVLRV-----AADQVG 557


>gi|271500156|ref|YP_003333181.1| transcription-repair coupling factor [Dickeya dadantii Ech586]
 gi|270343711|gb|ACZ76476.1| transcription-repair coupling factor [Dickeya dadantii Ech586]
          Length = 1150

 Score = 40.9 bits (95), Expect = 0.087,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 479 RPGQPVVHLEHGVGRYAGLTTLEAGGIKAEYLILHYAGED-KLYVPVSSLHLI 530


>gi|325067341|ref|ZP_08126014.1| transcription-repair coupling factor [Actinomyces oris K20]
          Length = 619

 Score = 40.9 bits (95), Expect = 0.087,   Method: Composition-based stats.
 Identities = 29/141 (20%), Positives = 47/141 (33%), Gaps = 25/141 (17%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKMCL 57
             + +R         G+ +V+  HGVG   E+  + V G       E+ VI +       
Sbjct: 1   ARRTRRSVDPLSLHAGDLVVHAQHGVGRFIELSRRTVGGARSSATREYLVIEYAPS---- 56

Query: 58  KVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTM----WSRRAQEYDAKINSGDLI 113
                K    G R L     +++  K V G +     M    W        AK  S    
Sbjct: 57  -----KRGQPGDRLLVPTDALDQVTKYVGGDSPALSKMGGADW--------AKTKSKARK 103

Query: 114 AIAEVVRDLHRTDSQPEKSYS 134
           A+ E+  +L R  +    +  
Sbjct: 104 AVREIAGELVRLYAARAATTG 124


>gi|260072636|gb|ACX30534.1| transcription-repair coupling factor [uncultured SUP05 cluster
           bacterium]
 gi|269468648|gb|EEZ80288.1| transcription-repair coupling factor (superfamily II helicase)
           [uncultured SUP05 cluster bacterium]
          Length = 1143

 Score = 40.9 bits (95), Expect = 0.088,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  +GVG    +K Q       +F ++ +  +   L VP+     I
Sbjct: 478 QIGDPIVHENYGVGRYLGLKTQTFDAQTQDFLMLEYA-NGSKLMVPMTSLNLI 529


>gi|296535472|ref|ZP_06897661.1| transcription-repair coupling factor [Roseomonas cervicalis ATCC
           49957]
 gi|296264193|gb|EFH10629.1| transcription-repair coupling factor [Roseomonas cervicalis ATCC
           49957]
          Length = 1174

 Score = 40.9 bits (95), Expect = 0.090,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 47/114 (41%), Gaps = 20/114 (17%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    ++   V+G   +   + +D     L +PV     +  R  S++ 
Sbjct: 503 GDLVVHQDHGIGRYDGLETLAVSGAPHDCLRLLYDGGD-KLFLPVENIELLS-RFGSDSA 560

Query: 77  FVERALKLVRGKARVKRTMW-SRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
            V  AL  + G      T W +R+A+             IA++   L R  ++ 
Sbjct: 561 GV--ALDKLGG------TSWQNRKAKAKQ---------RIADMAGQLIRIAAER 597


>gi|261822040|ref|YP_003260146.1| transcription-repair coupling factor [Pectobacterium wasabiae
           WPP163]
 gi|261606053|gb|ACX88539.1| transcription-repair coupling factor [Pectobacterium wasabiae
           WPP163]
          Length = 1150

 Score = 40.9 bits (95), Expect = 0.090,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 10/89 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 479 RPGQPVVHLEHGVGRYVGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYAGG 536

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQE 102
           A      L  + G+A      WSR R + 
Sbjct: 537 ADE-NAPLHKLGGEA------WSRARQKA 558


>gi|304385533|ref|ZP_07367877.1| transcription-repair coupling factor [Pediococcus acidilactici DSM
           20284]
 gi|304328037|gb|EFL95259.1| transcription-repair coupling factor [Pediococcus acidilactici DSM
           20284]
          Length = 1165

 Score = 40.9 bits (95), Expect = 0.093,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    +   EV G+  ++  I +      L +PV +   +
Sbjct: 496 KPGDFVVHVNHGIGKYLGMTTMEVDGVHQDYLTIQYQGSG-QLFIPVTQLNLV 547


>gi|270290199|ref|ZP_06196425.1| transcription-repair coupling factor [Pediococcus acidilactici 7_4]
 gi|270281736|gb|EFA27568.1| transcription-repair coupling factor [Pediococcus acidilactici 7_4]
          Length = 1165

 Score = 40.9 bits (95), Expect = 0.093,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    +   EV G+  ++  I +      L +PV +   +
Sbjct: 496 KPGDFVVHVNHGIGKYLGMTTMEVDGVHQDYLTIQYQGSG-QLFIPVTQLNLV 547


>gi|326385186|ref|ZP_08206853.1| transcription-repair coupling factor [Gordonia neofelifaecis NRRL
           B-59395]
 gi|326196090|gb|EGD53297.1| transcription-repair coupling factor [Gordonia neofelifaecis NRRL
           B-59395]
          Length = 1193

 Score = 40.9 bits (95), Expect = 0.094,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V+G + E+ VI +   K       L VP+     +
Sbjct: 514 GDLVVHDQHGIGKFVEMIERTVSGARREYLVIEYAPGKRGQPGDRLYVPMDALDQL 569


>gi|163760200|ref|ZP_02167283.1| transcription-repair coupling factor (TRCF) protein [Hoeflea
           phototrophica DFL-43]
 gi|162282599|gb|EDQ32887.1| transcription-repair coupling factor (TRCF) protein [Hoeflea
           phototrophica DFL-43]
          Length = 1168

 Score = 40.9 bits (95), Expect = 0.094,   Method: Composition-based stats.
 Identities = 27/122 (22%), Positives = 47/122 (38%), Gaps = 18/122 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           +   G   G ++V+  HG+G    ++  E AG       + +      L +PV     + 
Sbjct: 497 SEVSGLDEGSYVVHAEHGIGQFIGLRTIEAAGAPHACLELHYA-GDAKLFLPVENIELL- 554

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R  S++  V+  L  + G A      W  R     AK+    L+ +AE    L R  ++
Sbjct: 555 TRYGSDSAEVQ--LDRLGGVA------WQSR----KAKLKK-RLLDMAE---GLIRIAAE 598

Query: 129 PE 130
             
Sbjct: 599 RH 600


>gi|84516196|ref|ZP_01003556.1| transcription-repair coupling factor [Loktanella vestfoldensis
           SKA53]
 gi|84509892|gb|EAQ06349.1| transcription-repair coupling factor [Loktanella vestfoldensis
           SKA53]
          Length = 1148

 Score = 40.9 bits (95), Expect = 0.094,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           +       G+ +V+  HGVG    ++     G   E  +IA+ ++   L +PV    
Sbjct: 470 SEANSLAPGDLVVHVDHGVGRFEGMEVVTALGAAHECLLIAYAEET-KLYLPVENIE 525


>gi|325293164|ref|YP_004279028.1| transcription-repair coupling factor [Agrobacterium sp. H13-3]
 gi|325061017|gb|ADY64708.1| transcription-repair coupling factor [Agrobacterium sp. H13-3]
          Length = 1165

 Score = 40.5 bits (94), Expect = 0.097,   Method: Composition-based stats.
 Identities = 26/109 (23%), Positives = 42/109 (38%), Gaps = 16/109 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           G   G  +V+  HG+G    ++  E AG       + +  D   L +PV     +  R  
Sbjct: 497 GLDEGSLVVHAEHGIGRFVGLQTIEAAGAPRACLELHYA-DDAKLFLPVENIDLLS-RY- 553

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA-EVVR 120
             +   E  L  + G A      W  R     AK+    L+ +A E++R
Sbjct: 554 -GSDAAEATLDKLGGGA------WQMR----KAKLKK-RLLDMADELIR 590


>gi|15889082|ref|NP_354763.1| transcription-repair coupling factor [Agrobacterium tumefaciens
           str. C58]
 gi|15156884|gb|AAK87548.1| transcription-repair coupling factor [Agrobacterium tumefaciens
           str. C58]
          Length = 1165

 Score = 40.5 bits (94), Expect = 0.097,   Method: Composition-based stats.
 Identities = 26/109 (23%), Positives = 42/109 (38%), Gaps = 16/109 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           G   G  +V+  HG+G    ++  E AG       + +  D   L +PV     +  R  
Sbjct: 497 GLDEGSLVVHAEHGIGRFVGLQTIEAAGAPRACLELHYA-DDAKLFLPVENIDLLS-RY- 553

Query: 73  SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA-EVVR 120
             +   E  L  + G A      W  R     AK+    L+ +A E++R
Sbjct: 554 -GSDAAEATLDKLGGGA------WQMR----KAKLKK-RLLDMADELIR 590


>gi|153835235|ref|ZP_01987902.1| transcription-repair coupling factor [Vibrio harveyi HY01]
 gi|148868273|gb|EDL67407.1| transcription-repair coupling factor [Vibrio harveyi HY01]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.098,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|320155796|ref|YP_004188175.1| transcription-repair coupling factor [Vibrio vulnificus MO6-24/O]
 gi|319931108|gb|ADV85972.1| transcription-repair coupling factor [Vibrio vulnificus MO6-24/O]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.099,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+K E+ ++ + +++  L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLETLEAGGIKAEYVMLEY-QNEAKLYVPVASLNLI 532


>gi|166031178|ref|ZP_02234007.1| hypothetical protein DORFOR_00864 [Dorea formicigenerans ATCC
           27755]
 gi|166029025|gb|EDR47782.1| hypothetical protein DORFOR_00864 [Dorea formicigenerans ATCC
           27755]
          Length = 1114

 Score = 40.5 bits (94), Expect = 0.099,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I++ EV  +  ++  I++ K    L +P  +   I
Sbjct: 442 KPGDYVVHENHGLGIYQGIEKIEVDKISKDYMKISYAKGG-NLYIPATQLDLI 493


>gi|27365411|ref|NP_760939.1| transcription-repair coupling factor [Vibrio vulnificus CMCP6]
 gi|37680549|ref|NP_935158.1| transcription-repair coupling factor [Vibrio vulnificus YJ016]
 gi|27361558|gb|AAO10466.1| transcription-repair coupling factor [Vibrio vulnificus CMCP6]
 gi|37199297|dbj|BAC95129.1| transcription-repair coupling factor [Vibrio vulnificus YJ016]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.099,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+K E+ ++ + +++  L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLETLEAGGIKAEYVMLEY-QNEAKLYVPVASLNLI 532


>gi|156973818|ref|YP_001444725.1| transcription-repair coupling factor [Vibrio harveyi ATCC BAA-1116]
 gi|156525412|gb|ABU70498.1| hypothetical protein VIBHAR_01528 [Vibrio harveyi ATCC BAA-1116]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.100,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|323342263|ref|ZP_08082495.1| transcription-repair-coupling factor [Erysipelothrix rhusiopathiae
           ATCC 19414]
 gi|322463375|gb|EFY08569.1| transcription-repair-coupling factor [Erysipelothrix rhusiopathiae
           ATCC 19414]
          Length = 1138

 Score = 40.5 bits (94), Expect = 0.10,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 43/106 (40%), Gaps = 14/106 (13%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHF 77
           +++V+  +G+G    I  +E+ G+  +F  I +      L VP+ +   +  RK      
Sbjct: 475 DYVVHRQYGIGKYMGITTKEIEGIHKDFMRILYRDGD-ELFVPLEQFNLV--RKFMSREA 531

Query: 78  VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
               L  +        + W    Q+   +I   D+  +A+ +  L+
Sbjct: 532 ASVRLSKLGT------STW----QKNKERIKQ-DVADVADKLVTLY 566


>gi|300723616|ref|YP_003712921.1| transcription-repair ATP-dependent coupling factor [Xenorhabdus
           nematophila ATCC 19061]
 gi|297630138|emb|CBJ90775.1| transcription-repair ATP-dependent coupling factor [Xenorhabdus
           nematophila ATCC 19061]
          Length = 1148

 Score = 40.5 bits (94), Expect = 0.10,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 9/92 (9%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R +  A 
Sbjct: 479 GQPVVHLDHGVGRYQGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYVGGAE 536

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
                L  + G+A      WS+  Q+   K+ 
Sbjct: 537 E-SAPLHKLGGEA------WSKARQKAAEKVR 561


>gi|153854681|ref|ZP_01995931.1| hypothetical protein DORLON_01929 [Dorea longicatena DSM 13814]
 gi|149752785|gb|EDM62716.1| hypothetical protein DORLON_01929 [Dorea longicatena DSM 13814]
          Length = 1126

 Score = 40.5 bits (94), Expect = 0.10,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HGVG    I++  V  +  ++  I++ +    L +P  +   I
Sbjct: 442 KPGDYVVHENHGVGVYQGIEKIVVDKISKDYMKISYAQGG-NLYIPATQLDLI 493


>gi|320540384|ref|ZP_08040034.1| putative transcription-repair coupling factor [Serratia symbiotica
           str. Tucson]
 gi|320029315|gb|EFW11344.1| putative transcription-repair coupling factor [Serratia symbiotica
           str. Tucson]
          Length = 1158

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+K E+ ++++  +   L VPV     I
Sbjct: 486 PGQPVVHLEHGVGRYVGLTTLEAGGIKAEYLILSYAGED-KLYVPVSSLHLI 536


>gi|261346027|ref|ZP_05973671.1| transcription-repair coupling factor [Providencia rustigianii DSM
           4541]
 gi|282565913|gb|EFB71448.1| transcription-repair coupling factor [Providencia rustigianii DSM
           4541]
          Length = 1148

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G++ E+ ++ +  +   L VPV     I
Sbjct: 477 RPGQPVVHIEHGVGRYQGLTTLEAGGIQAEYLILTYAGND-KLYVPVSSLHLI 528


>gi|27379712|ref|NP_771241.1| transcription-repair coupling factor [Bradyrhizobium japonicum USDA
           110]
 gi|27352864|dbj|BAC49866.1| transcription-repair coupling factor [Bradyrhizobium japonicum USDA
           110]
          Length = 1172

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 27/117 (23%), Positives = 48/117 (41%), Gaps = 11/117 (9%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    ++  +VAG   +   + +  +   L +PV     +  R  S+  
Sbjct: 503 GDIVVHVDHGIGRFVGLQTLDVAGAPHDCLELHYAAET-KLFLPVENIELLS-RYGSDQT 560

Query: 77  FVERALKLVRG-KARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKS 132
            VE  L  + G   + ++     R +E        +LI IA   R LH     P + 
Sbjct: 561 TVE--LDRLGGSGWQTRKAKLKNRIREIAD-----ELIKIAA-ARHLHEAPKLPVQP 609


>gi|319783816|ref|YP_004143292.1| DEAD/DEAH helicase [Mesorhizobium ciceri biovar biserrulae WSM1271]
 gi|317169704|gb|ADV13242.1| transcription-repair coupling factor [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 1165

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 28/130 (21%), Positives = 45/130 (34%), Gaps = 25/130 (19%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    ++  E  G   +   I +  D   L +PV     + 
Sbjct: 491 AEASALSAGDIVVHADHGIGRFIGLRTIEAVGAPHDCLEIHYAGDD-RLFLPVENIELLS 549

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R    +   E  L  + G A      W  R +    K     L+ +A     L R    
Sbjct: 550 -RY--GSDTAEATLDKLGGGA------WQSR-KARLRK----RLLDMA---GQLIRI--- 589

Query: 129 PEKSYSERQL 138
                +ERQ+
Sbjct: 590 ----AAERQM 595


>gi|328473273|gb|EGF44121.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           10329]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|317499346|ref|ZP_07957616.1| transcription-repair coupling factor [Lachnospiraceae bacterium
           5_1_63FAA]
 gi|316893381|gb|EFV15593.1| transcription-repair coupling factor [Lachnospiraceae bacterium
           5_1_63FAA]
          Length = 948

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 20/40 (50%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
             G+++V+  HGVG    I++    G++ ++  I +    
Sbjct: 505 NIGDYVVHEKHGVGIYRGIEKITTDGVEKDYISIEYQGGD 544


>gi|269960991|ref|ZP_06175360.1| transcription-repair coupling factor [Vibrio harveyi 1DA3]
 gi|269834210|gb|EEZ88300.1| transcription-repair coupling factor [Vibrio harveyi 1DA3]
          Length = 1123

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 451 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 502


>gi|167623544|ref|YP_001673838.1| transcription-repair coupling factor [Shewanella halifaxensis
           HAW-EB4]
 gi|167353566|gb|ABZ76179.1| transcription-repair coupling factor [Shewanella halifaxensis
           HAW-EB4]
          Length = 1157

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     ++  +  G+  E+ V+ +      L VPV     I  R    
Sbjct: 486 KVGQPIVHLDHGVARYQGLETLDTGGLVAEYLVLEYSGGD-KLYVPVSSLHLIS-RYSVG 543

Query: 75  AHF 77
              
Sbjct: 544 PDE 546


>gi|153837338|ref|ZP_01990005.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           AQ3810]
 gi|149749369|gb|EDM60142.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           AQ3810]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|134297990|ref|YP_001111486.1| transcription-repair coupling factor [Desulfotomaculum reducens
           MI-1]
 gi|134050690|gb|ABO48661.1| transcription-repair coupling factor [Desulfotomaculum reducens
           MI-1]
          Length = 1169

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 31/72 (43%), Gaps = 8/72 (11%)

Query: 2   TFQQKRDAMRQG----FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             Q+ R   +       + G+++V+  HG+G    +   ++  ++ ++  + +  +   L
Sbjct: 487 RKQRSRPDAKMEPLADLKAGDYVVHVNHGIGRYLGVITLDIGALQKDYLQLQYAGED-KL 545

Query: 58  KVPVGKAIDIGM 69
            VP      +GM
Sbjct: 546 YVPTD---QVGM 554


>gi|28897749|ref|NP_797354.1| transcription-repair coupling factor [Vibrio parahaemolyticus RIMD
           2210633]
 gi|260363824|ref|ZP_05776579.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           K5030]
 gi|260876916|ref|ZP_05889271.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           AN-5034]
 gi|260897942|ref|ZP_05906438.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           Peru-466]
 gi|260903477|ref|ZP_05911872.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           AQ4037]
 gi|28805962|dbj|BAC59238.1| transcription-repair coupling factor [Vibrio parahaemolyticus RIMD
           2210633]
 gi|308085487|gb|EFO35182.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           Peru-466]
 gi|308093632|gb|EFO43327.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           AN-5034]
 gi|308110343|gb|EFO47883.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           AQ4037]
 gi|308113858|gb|EFO51398.1| transcription-repair coupling factor [Vibrio parahaemolyticus
           K5030]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|91225270|ref|ZP_01260438.1| transcription-repair coupling factor [Vibrio alginolyticus 12G01]
 gi|91189909|gb|EAS76181.1| transcription-repair coupling factor [Vibrio alginolyticus 12G01]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|269967617|ref|ZP_06181667.1| transcription-repair coupling factor [Vibrio alginolyticus 40B]
 gi|269827704|gb|EEZ81988.1| transcription-repair coupling factor [Vibrio alginolyticus 40B]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|167747443|ref|ZP_02419570.1| hypothetical protein ANACAC_02163 [Anaerostipes caccae DSM 14662]
 gi|317471172|ref|ZP_07930543.1| transcription-repair coupling factor [Anaerostipes sp. 3_2_56FAA]
 gi|167652805|gb|EDR96934.1| hypothetical protein ANACAC_02163 [Anaerostipes caccae DSM 14662]
 gi|316901387|gb|EFV23330.1| transcription-repair coupling factor [Anaerostipes sp. 3_2_56FAA]
          Length = 1175

 Score = 40.5 bits (94), Expect = 0.11,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 24/56 (42%), Gaps = 3/56 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
              + +    + F     G+++V+  HGVG    I++  V  ++ ++  I +    
Sbjct: 490 AAFKGKGEKIKNFADISIGDYVVHEKHGVGIYRGIEKITVNNVEKDYISIEYKGGD 545


>gi|318606131|emb|CBY27629.1| transcription-repair coupling factor [Yersinia enterocolitica
           subsp. palearctica Y11]
          Length = 1148

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G A      WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHKLGGDA------WSRARQKVAEKVR 562


>gi|327399449|ref|YP_004340318.1| transcription-repair coupling factor [Hippea maritima DSM 10411]
 gi|327182078|gb|AEA34259.1| transcription-repair coupling factor [Hippea maritima DSM 10411]
          Length = 1032

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 7   RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAID 66
           R      F  G+ IV+  +G+     +K+ ++   + +FF + FD+    + VPV  +  
Sbjct: 377 RKPKNVEFEIGDRIVHKKYGIAQFNGLKKIKIEDKQEDFFELEFDEGD-KVYVPVYNSDA 435

Query: 67  I 67
           +
Sbjct: 436 L 436


>gi|323496023|ref|ZP_08101086.1| transcription-repair coupling factor [Vibrio sinaloensis DSM 21326]
 gi|323318914|gb|EGA71862.1| transcription-repair coupling factor [Vibrio sinaloensis DSM 21326]
          Length = 1154

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMTTEYVTLEY-QNDAKLYVPVASLNLI 532


>gi|225568648|ref|ZP_03777673.1| hypothetical protein CLOHYLEM_04726 [Clostridium hylemonae DSM
           15053]
 gi|225162576|gb|EEG75195.1| hypothetical protein CLOHYLEM_04726 [Clostridium hylemonae DSM
           15053]
          Length = 1113

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I++ EV  +  ++  I++ K    L +P  +   I
Sbjct: 442 KPGDYVVHENHGLGIYQGIEKIEVDKVAKDYMKISYAKGG-NLYIPATQLDLI 493


>gi|157961369|ref|YP_001501403.1| transcription-repair coupling factor [Shewanella pealeana ATCC
           700345]
 gi|157846369|gb|ABV86868.1| transcription-repair coupling factor [Shewanella pealeana ATCC
           700345]
          Length = 1157

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     ++  +  G+  E+ V+ +      L VPV     I  R    
Sbjct: 486 KVGQPIVHLDHGVARYQGLETLDTGGLVAEYLVLEYSGGD-KLYVPVAALNLIS-RYSVG 543

Query: 75  AHF 77
              
Sbjct: 544 PDE 546


>gi|312134559|ref|YP_004001897.1| transcription-repair coupling factor [Caldicellulosiruptor
           owensensis OL]
 gi|311774610|gb|ADQ04097.1| transcription-repair coupling factor [Caldicellulosiruptor
           owensensis OL]
          Length = 1141

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 43/121 (35%), Gaps = 19/121 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +G+G     ++  V G   E+  + +  +   L VP        + K   
Sbjct: 483 KPGDFVVHRTYGIGKFLGFEKITVEGTTKEYVKLEYA-NSSYLYVPTTNLDM--IEKYIG 539

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVV-RDLHRTDSQPEKSY 133
              V+  L  +  K       W R+      K+         EVV +DL    ++ +   
Sbjct: 540 TDDVQPKLSKLGSKE------WQRQ----KQKVK-----KSLEVVAKDLVELYAKRQLGQ 584

Query: 134 S 134
            
Sbjct: 585 G 585


>gi|167766179|ref|ZP_02438232.1| hypothetical protein CLOSS21_00673 [Clostridium sp. SS2/1]
 gi|167712259|gb|EDS22838.1| hypothetical protein CLOSS21_00673 [Clostridium sp. SS2/1]
          Length = 1173

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 20/40 (50%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
             G+++V+  HGVG    I++    G++ ++  I +    
Sbjct: 505 NIGDYVVHEKHGVGIYRGIEKITTDGVEKDYISIEYQGGD 544


>gi|159903468|ref|YP_001550812.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9211]
 gi|159888644|gb|ABX08858.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9211]
          Length = 1169

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 37/81 (45%), Gaps = 7/81 (8%)

Query: 5   QKRDAMR----QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
           +KR A +       RTG+++V+  HG+G   +I++  ++    ++ ++        L+V 
Sbjct: 484 RKRSASKSIDHNKLRTGDYVVHRNHGIGKFIKIEKFVISQESRDYLLVQ--YQDGTLRVA 541

Query: 61  VGKAIDIGMRKLSEAHFVERA 81
             +   +G R  S +    R 
Sbjct: 542 ADQLGSLG-RYRSSSDKSPRI 561


>gi|254453067|ref|ZP_05066504.1| transcription-repair coupling factor [Octadecabacter antarcticus
           238]
 gi|198267473|gb|EDY91743.1| transcription-repair coupling factor [Octadecabacter antarcticus
           238]
          Length = 1154

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 8/70 (11%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI--- 65
              Q    G+ +V+  HGVG    ++     G   E  ++ + +    L +PV       
Sbjct: 477 TETQSLTPGDLVVHVDHGVGRYLGMEVVTALGAAHECLLLEYAESS-KLYLPVENIELLS 535

Query: 66  ----DIGMRK 71
               ++G+  
Sbjct: 536 RYGHEVGLLD 545


>gi|113954991|ref|YP_730883.1| transcription-repair coupling factor [Synechococcus sp. CC9311]
 gi|113882342|gb|ABI47300.1| transcription-repair coupling factor [Synechococcus sp. CC9311]
          Length = 1180

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 11/67 (16%), Positives = 28/67 (41%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       + G+ +V+  HG+G   ++++  ++G   ++ V+        L+V  
Sbjct: 475 RKAASRTVDPNKMQQGDFVVHRNHGIGRFKKLEKLAISGEVRDYLVVQ--YSDGILRVAA 532

Query: 62  GKAIDIG 68
            +   +G
Sbjct: 533 DQLGSLG 539


>gi|83952089|ref|ZP_00960821.1| transcription-repair coupling factor [Roseovarius nubinhibens ISM]
 gi|83837095|gb|EAP76392.1| transcription-repair coupling factor [Roseovarius nubinhibens ISM]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 21/100 (21%), Positives = 39/100 (39%), Gaps = 7/100 (7%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E  ++ + ++   L +PV       
Sbjct: 471 TEAQSLSPGDLVVHVDHGIGRYHGMEVISAAGAAHECLLLEYAENA-RLYLPVENIEL-- 527

Query: 69  MRKLSEAHFVERALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              LS     E  L  + G A + K+     R +E   ++
Sbjct: 528 ---LSRYGHDEGLLDRLGGGAWQAKKAKLKERIREMADRL 564


>gi|254229022|ref|ZP_04922443.1| transcription-repair coupling factor [Vibrio sp. Ex25]
 gi|262394765|ref|YP_003286619.1| transcription-repair coupling factor [Vibrio sp. Ex25]
 gi|151938490|gb|EDN57327.1| transcription-repair coupling factor [Vibrio sp. Ex25]
 gi|262338359|gb|ACY52154.1| transcription-repair coupling factor [Vibrio sp. Ex25]
          Length = 1153

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GMK E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMKTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|47218998|emb|CAG02036.1| unnamed protein product [Tetraodon nigroviridis]
          Length = 1070

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 53/116 (45%), Gaps = 12/116 (10%)

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
              + +  +++ GK  V+     R+ +E   K+NS  ++   E  ++L R  +  E+   
Sbjct: 660 EEELSQLQQVLDGKEEVE-----RQHRENIKKLNS--VVERQE--KELSRLQTDAEELQE 710

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK---STSENQDKA 187
             +  ++AL+   +E+A ++  +   A    E  LS  +   EK   +  + Q++A
Sbjct: 711 NNRSLQAALDTSYKELAELHKTNASRASEAEEAALSRDAQAKEKLSLALEKAQEEA 766


>gi|297572061|ref|YP_003697835.1| transcription-repair coupling factor [Arcanobacterium haemolyticum
           DSM 20595]
 gi|296932408|gb|ADH93216.1| transcription-repair coupling factor [Arcanobacterium haemolyticum
           DSM 20595]
          Length = 1168

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 32/75 (42%), Gaps = 8/75 (10%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA---GMKLEFFVIAFDKDKM-- 55
           M  ++K        + G+++V+  HGV    ++ ++ +    G + E+ V+ +   K   
Sbjct: 473 MPKRRKNAVDPLQLKPGDYVVHQRHGVAQFVKLAKRALGGRSGSQREYVVLEYASSKRGN 532

Query: 56  ---CLKVPVGKAIDI 67
               L VP  +   +
Sbjct: 533 PRDQLWVPTDQLDQV 547


>gi|17232707|ref|NP_489255.1| transcriptional-repair coupling factor [Nostoc sp. PCC 7120]
 gi|17134354|dbj|BAB76914.1| transcriptional-repair coupling factor [Nostoc sp. PCC 7120]
          Length = 1185

 Score = 40.5 bits (94), Expect = 0.12,   Method: Composition-based stats.
 Identities = 8/52 (15%), Positives = 25/52 (48%), Gaps = 5/52 (9%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           G+++V+ +HG+G   +++   +     ++ V+ +    + +      A  +G
Sbjct: 516 GDYVVHRSHGIGKFVKLESLTINDETRDYIVVQYADGLLRV-----AADQVG 562


>gi|301335326|ref|ZP_07223570.1| transcription-repair coupling factor [Chlamydia trachomatis L2tet1]
 gi|301336312|ref|ZP_07224514.1| transcription-repair coupling factor [Chlamydia muridarum
           MopnTet14]
          Length = 1081

 Score = 40.1 bits (93), Expect = 0.13,   Method: Composition-based stats.
 Identities = 20/92 (21%), Positives = 41/92 (44%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  D+  L VP  ++  I  R +  
Sbjct: 434 PGETVVHLHNGIGKFIGIEKKPNHLNIETDYLVLEYA-DRARLYVPSDQSYLIS-RYVGA 491

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G        W RR++E   K
Sbjct: 492 SEKAPD-LHHLNG------AKW-RRSRELSEK 515


>gi|119356706|ref|YP_911350.1| transcription-repair coupling factor [Chlorobium phaeobacteroides
           DSM 266]
 gi|119354055|gb|ABL64926.1| transcription-repair coupling factor [Chlorobium phaeobacteroides
           DSM 266]
          Length = 1127

 Score = 40.1 bits (93), Expect = 0.13,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 26/58 (44%), Gaps = 4/58 (6%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           Q  + G+++V+  +G+G    ++   V   + E  ++ ++     L V      +I +
Sbjct: 427 QKLKVGDYVVHENYGIGRFKTLETISVGNSEQECVLVEYEGGD-QLFV---NVQNINL 480


>gi|307942228|ref|ZP_07657579.1| transcription-repair coupling factor [Roseibium sp. TrichSKD4]
 gi|307774514|gb|EFO33724.1| transcription-repair coupling factor [Roseibium sp. TrichSKD4]
          Length = 1162

 Score = 40.1 bits (93), Expect = 0.13,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 41/109 (37%), Gaps = 15/109 (13%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
               G   G+ +V+  HG+G  T +K  E  G   +   + +  D   L +PV     + 
Sbjct: 488 TEASGLSEGDLVVHVEHGIGRFTGLKTIEAVGAPHDCMELQYA-DGAKLYLPVENIELLS 546

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAE 117
            R    +   +  L  + G A      W  R     AK+    ++ IA+
Sbjct: 547 -RY--GSEDSDSQLDKLGGGA------WQAR----KAKLKK-RILEIAD 581


>gi|260768914|ref|ZP_05877848.1| transcription-repair coupling factor [Vibrio furnissii CIP 102972]
 gi|260616944|gb|EEX42129.1| transcription-repair coupling factor [Vibrio furnissii CIP 102972]
          Length = 1153

 Score = 40.1 bits (93), Expect = 0.13,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYVGLQTLEAGGMTTEYVTLEY-QNDAKLYVPVSSLNLI 532


>gi|212716156|ref|ZP_03324284.1| hypothetical protein BIFCAT_01072 [Bifidobacterium catenulatum DSM
           16992]
 gi|212661523|gb|EEB22098.1| hypothetical protein BIFCAT_01072 [Bifidobacterium catenulatum DSM
           16992]
          Length = 1182

 Score = 40.1 bits (93), Expect = 0.13,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 31/72 (43%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM----- 55
           +++       + G+++V+  HG+G   E++++ +         E+ VI +   K      
Sbjct: 492 RRKAIDLMELKAGDYVVHEQHGIGRFLEMRQRTIGAGANQTTREYLVIEYASSKRGAPAD 551

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 552 KLFIPTDQLDQV 563


>gi|254508504|ref|ZP_05120622.1| transcription-repair coupling factor [Vibrio parahaemolyticus 16]
 gi|219548529|gb|EED25536.1| transcription-repair coupling factor [Vibrio parahaemolyticus 16]
          Length = 1153

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+  + + ++   L VPV     I
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMTTEYVTLEY-QNDAKLYVPVASLNLI 532


>gi|78186513|ref|YP_374556.1| transcription-repair coupling factor [Chlorobium luteolum DSM 273]
 gi|78166415|gb|ABB23513.1| Transcription-repair coupling factor [Chlorobium luteolum DSM 273]
          Length = 1109

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 19/112 (16%), Positives = 37/112 (33%), Gaps = 28/112 (25%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI---- 67
           Q  + G+H+V+  +GVG    ++       + E  ++ ++     L V V     +    
Sbjct: 409 QKLKVGDHVVHEDYGVGIFRSLETITAGNSEQECVLVEYEGGD-QLFVNVQNINLLSKYA 467

Query: 68  ---GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
              G R +                  +    W+ R      K+ S  +  IA
Sbjct: 468 ASEGSRPVLSK---------------LGSPKWAAR----KEKVRS-KIRDIA 499


>gi|52424271|ref|YP_087408.1| Mfd protein [Mannheimia succiniciproducens MBEL55E]
 gi|52306323|gb|AAU36823.1| Mfd protein [Mannheimia succiniciproducens MBEL55E]
          Length = 1148

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 39/94 (41%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E AG+K E+ ++ +  +   L VPV     I  R +  
Sbjct: 482 KIGQPVVHLDHGVGRYGGLVTLENAGIKAEYLLLTYA-NDAKLYVPVANLHLIS-RYVGG 539

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           +              ++    W++  ++   KI 
Sbjct: 540 SEETAPL-------HKLGSDSWAKARRKAAEKIR 566


>gi|220926926|ref|YP_002502228.1| transcription-repair coupling factor [Methylobacterium nodulans ORS
           2060]
 gi|219951533|gb|ACL61925.1| transcription-repair coupling factor [Methylobacterium nodulans ORS
           2060]
          Length = 1190

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 41/120 (34%), Gaps = 19/120 (15%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q    G+ +V+  HG+G  T +K    AG   +   I +      L +PV       +  
Sbjct: 517 QALEAGDLVVHADHGIGRFTGLKTVTAAGAPHDCLEIQYSGG--LLLLPVENIE---LLT 571

Query: 72  LSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK 131
              +   +  L  + G A      W  R     AK+       I E+   L +  ++   
Sbjct: 572 RYGSEEADVPLDKLGGGA------WQAR----KAKLK----RRILEMAGALIKVAAERFL 617


>gi|310815553|ref|YP_003963517.1| transcription-repair coupling factor [Ketogulonicigenium vulgare
           Y25]
 gi|308754288|gb|ADO42217.1| transcription-repair coupling factor [Ketogulonicigenium vulgare
           Y25]
          Length = 1152

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 27/143 (18%), Positives = 49/143 (34%), Gaps = 42/143 (29%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI------- 67
             G+ +V+  HGVG    ++    AG   E  V+ + +    L +PV     +       
Sbjct: 478 SPGDLVVHVEHGVGRYLGLEVITAAGAPYECLVLEYAESA-KLYLPVVNIELLSRYGHEE 536

Query: 68  --------------------GMRKLSE---AHFVERALKLVRGKARVKRTMWSRR----- 99
                                +R +++       ERAL+    +      +W +      
Sbjct: 537 GLLDKLGGGAWQAKKARLKERIRMIADSLIRVAAERALRT-APEVDPPSEIWEQFLARFP 595

Query: 100 AQEYDAKINSGDLIAIAEVVRDL 122
            QE D ++      AI +V+ DL
Sbjct: 596 YQETDDQLQ-----AIGDVIGDL 613


>gi|15604448|ref|NP_220966.1| transcription-repair coupling factor [Rickettsia prowazekii str.
           Madrid E]
 gi|6226643|sp|O05955|MFD_RICPR RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|3861142|emb|CAA15042.1| TRANSCRIPTION-REPAIR COUPLING FACTOR (mfd) [Rickettsia prowazekii]
 gi|292572220|gb|ADE30135.1| Transcription-repair coupling factor [Rickettsia prowazekii Rp22]
          Length = 1120

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + GE +V+  HG+G   +++  ++ G   +F  I +  +   L VPV     I
Sbjct: 457 KEGEFVVHKDHGIGQFLKLEAFKIQGKLHDFLKILYFGND-KLYVPVENIEVI 508


>gi|282890191|ref|ZP_06298721.1| hypothetical protein pah_c014o047 [Parachlamydia acanthamoebae str.
           Hall's coccus]
 gi|281499848|gb|EFB42137.1| hypothetical protein pah_c014o047 [Parachlamydia acanthamoebae str.
           Hall's coccus]
          Length = 1103

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 32/67 (47%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVP 60
           +      +       G+ +V+  HG+G    ++++    G+  EFF+I + ++   L VP
Sbjct: 442 STYHTPPSDSYHLVPGDMVVHLNHGIGRFLGLEKKLNHNGVLSEFFLIEYAENG-KLYVP 500

Query: 61  VGKAIDI 67
           + +A  +
Sbjct: 501 LNQAHLV 507


>gi|257068518|ref|YP_003154773.1| transcription-repair coupling factor Mfd [Brachybacterium faecium
           DSM 4810]
 gi|256559336|gb|ACU85183.1| transcription-repair coupling factor Mfd [Brachybacterium faecium
           DSM 4810]
          Length = 1211

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           R G+H+V+  HGVG   E+  + V         E+ VI +   K       L VP  +  
Sbjct: 513 RPGDHVVHAHHGVGRFVEMTRRAVGSGAKRTTREYLVIEYAPSKKGQPGDRLYVPSDQLD 572

Query: 66  DI 67
            +
Sbjct: 573 QV 574


>gi|254468808|ref|ZP_05082214.1| transcription-repair coupling factor [beta proteobacterium KB13]
 gi|207087618|gb|EDZ64901.1| transcription-repair coupling factor [beta proteobacterium KB13]
          Length = 1120

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HGVG    + + ++ G   EF ++ ++K+   L VPV +   I
Sbjct: 455 SVGDPVVHENHGVGRYQGLVQLDMLGSINEFLLLTYEKED-KLYVPVTQLNSI 506


>gi|269798420|ref|YP_003312320.1| transcription-repair coupling factor [Veillonella parvula DSM 2008]
 gi|269095049|gb|ACZ25040.1| transcription-repair coupling factor [Veillonella parvula DSM 2008]
          Length = 1098

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    +K  E  G+  ++  IA+      L +P      +
Sbjct: 427 PGDYVVHSMHGIGKYIGLKTIETEGIHRDYIEIAYAGTD-KLFLPANNLDQL 477


>gi|268589233|ref|ZP_06123454.1| transcription-repair coupling factor [Providencia rettgeri DSM
           1131]
 gi|291315491|gb|EFE55944.1| transcription-repair coupling factor [Providencia rettgeri DSM
           1131]
          Length = 1147

 Score = 40.1 bits (93), Expect = 0.14,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  D   L VPV     I
Sbjct: 477 RPGQPVVHIEHGVGRYQGLITLEAGGIKAEYLILTYAGDD-KLYVPVSSLHLI 528


>gi|291458171|ref|ZP_06597561.1| transcription-repair coupling factor [Oribacterium sp. oral taxon
           078 str. F0262]
 gi|291419254|gb|EFE92973.1| transcription-repair coupling factor [Oribacterium sp. oral taxon
           078 str. F0262]
          Length = 1125

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 25/122 (20%), Positives = 47/122 (38%), Gaps = 17/122 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+ +HG+G    I+     G+  ++  I +  D   L +P  K    G++K   
Sbjct: 453 SPGDYVVHESHGIGIYRGIERISTDGVTKDYIQIEY-GDGGRLYLPATKLE--GIQKYGS 509

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +      L  + G      + W         K  S    A+ EV ++L    S  + +  
Sbjct: 510 SEGAAPKLNKLNG------SDW--------QKTKSRVRHAVKEVAKELVALYSARQSASG 555

Query: 135 ER 136
            R
Sbjct: 556 HR 557


>gi|315180610|gb|ADT87524.1| transcription-repair coupling factor [Vibrio furnissii NCTC 11218]
          Length = 1125

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+  + + ++   L VPV     I
Sbjct: 453 KPGQPVVHIDHGIGRYVGLQTLEAGGMTTEYVTLEY-QNDAKLYVPVSSLNLI 504


>gi|329577443|gb|EGG58892.1| conserved domain protein [Enterococcus faecalis TX1467]
          Length = 542

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 10/34 (29%), Positives = 21/34 (61%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVI 48
           +TG+++V+  HG+G    ++  EV G+  ++  I
Sbjct: 509 KTGDYVVHANHGIGKYIGMETLEVDGVHQDYMTI 542


>gi|262201520|ref|YP_003272728.1| transcription-repair coupling factor [Gordonia bronchialis DSM
           43247]
 gi|262084867|gb|ACY20835.1| transcription-repair coupling factor [Gordonia bronchialis DSM
           43247]
          Length = 1195

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 5/56 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HG+G   E+ E+ V+G + E+ V+ +   K       L VP+     +
Sbjct: 515 GDLVVHDQHGIGKFVEMIERTVSGARREYLVLEYAPSKRGQPGDRLYVPMDALDQL 570


>gi|225351843|ref|ZP_03742866.1| hypothetical protein BIFPSEUDO_03444 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225157090|gb|EEG70429.1| hypothetical protein BIFPSEUDO_03444 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 1182

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 31/72 (43%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM----- 55
           +++       + G+++V+  HG+G   E++++ +         E+ VI +   K      
Sbjct: 492 RRKAIDLMELKAGDYVVHEQHGIGRFLEMRQRTIGAGANQTTREYLVIEYASSKRGAPAD 551

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 552 KLFIPTDQLDQV 563


>gi|209525598|ref|ZP_03274136.1| transcription-repair coupling factor [Arthrospira maxima CS-328]
 gi|209493931|gb|EDZ94248.1| transcription-repair coupling factor [Arthrospira maxima CS-328]
          Length = 1167

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 8/54 (14%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+++V+  HG+G   +++   +     ++ V+ +    + +      A  +G
Sbjct: 497 QPGDYVVHRQHGIGKFVKLESLTINQEIRDYLVLQYADGTLRV-----AADQVG 545


>gi|46202166|ref|ZP_00053648.2| COG1197: Transcription-repair coupling factor (superfamily II
           helicase) [Magnetospirillum magnetotacticum MS-1]
          Length = 1131

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 26/127 (20%), Positives = 45/127 (35%), Gaps = 18/127 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    +   EV+G   +   + +D     L VPV       
Sbjct: 458 AEASALAEGDLVVHVEHGIGRYDGLVALEVSGAPHDCLRVIYDGGD-KLFVPVENI---- 512

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
              +      E+A   +    ++  T W  R     AK+    +  IA+    L    +Q
Sbjct: 513 --DVLTRFGSEQAGVSL---DKLGGTAWQAR----KAKLKK-RIRDIAD---QLIGIAAQ 559

Query: 129 PEKSYSE 135
            +    E
Sbjct: 560 RKMRQGE 566


>gi|78212830|ref|YP_381609.1| transcription-repair coupling factor [Synechococcus sp. CC9605]
 gi|78197289|gb|ABB35054.1| transcription-repair coupling factor [Synechococcus sp. CC9605]
          Length = 1192

 Score = 40.1 bits (93), Expect = 0.15,   Method: Composition-based stats.
 Identities = 23/133 (17%), Positives = 54/133 (40%), Gaps = 18/133 (13%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       R G+ +V+  HG+G    +++  ++G   ++ V+ +      L+V  
Sbjct: 487 RKAASRTVDPNKMRPGDFVVHRNHGIGRFKAMEKLAMSGDIRDYLVVQYADG--ILRVAA 544

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +   +G R  + +    +         R+  T W++ A+E   K       A+ +V  D
Sbjct: 545 DQLGSLG-RYRATSETPPQL-------NRMGGTAWNK-AKERAKK-------AVRKVALD 588

Query: 122 LHRTDSQPEKSYS 134
           L +  ++ +++  
Sbjct: 589 LVKLYAERQQAAG 601


>gi|313892911|ref|ZP_07826488.1| transcription-repair coupling factor [Veillonella sp. oral taxon
           158 str. F0412]
 gi|313442264|gb|EFR60679.1| transcription-repair coupling factor [Veillonella sp. oral taxon
           158 str. F0412]
          Length = 1055

 Score = 40.1 bits (93), Expect = 0.16,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    +K  E  G+  ++  IA+      L +P      +
Sbjct: 427 PGDYVVHSMHGIGKYIGLKTIETEGIHRDYIEIAYAGTD-KLFLPANNLDQL 477


>gi|283783133|ref|YP_003373887.1| transcription-repair coupling factor [Gardnerella vaginalis 409-05]
 gi|283441749|gb|ADB14215.1| transcription-repair coupling factor [Gardnerella vaginalis 409-05]
          Length = 1202

 Score = 40.1 bits (93), Expect = 0.16,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 30/72 (41%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKM----- 55
           +++       + G+ +V+  HG+G    +K++ +A        E+ VI +   K      
Sbjct: 518 RRKAIDLMELKPGDFVVHEQHGIGRFVGMKQRNIAVSGGSATREYLVIEYAPSKRNAPND 577

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 578 KLFIPTDQLDLV 589


>gi|260435284|ref|ZP_05789254.1| transcription-repair coupling factor [Synechococcus sp. WH 8109]
 gi|260413158|gb|EEX06454.1| transcription-repair coupling factor [Synechococcus sp. WH 8109]
          Length = 1203

 Score = 40.1 bits (93), Expect = 0.16,   Method: Composition-based stats.
 Identities = 23/133 (17%), Positives = 54/133 (40%), Gaps = 18/133 (13%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       R G+ +V+  HG+G    +++  ++G   ++ V+ +      L+V  
Sbjct: 498 RKAASRTVDPNKMRPGDFVVHRNHGIGRFKAMEKLAMSGDIRDYLVVQYADG--ILRVAA 555

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +   +G R  + +    +         R+  T W++ A+E   K       A+ +V  D
Sbjct: 556 DQLGSLG-RYRATSETPPQL-------NRMGGTAWNK-AKERAKK-------AVRKVALD 599

Query: 122 LHRTDSQPEKSYS 134
           L +  ++ +++  
Sbjct: 600 LVKLYAERQQAAG 612


>gi|57237967|ref|YP_179216.1| transcription-repair coupling factor [Campylobacter jejuni RM1221]
 gi|205355835|ref|ZP_03222604.1| transcription repair coupling factor [Campylobacter jejuni subsp.
           jejuni CG8421]
 gi|57166771|gb|AAW35550.1| transcription-repair coupling factor [Campylobacter jejuni RM1221]
 gi|205346269|gb|EDZ32903.1| transcription repair coupling factor [Campylobacter jejuni subsp.
           jejuni CG8421]
 gi|315058526|gb|ADT72855.1| Transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni S3]
          Length = 978

 Score = 40.1 bits (93), Expect = 0.16,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|213051995|ref|ZP_03344873.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. E00-7866]
          Length = 718

 Score = 39.7 bits (92), Expect = 0.16,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|153951893|ref|YP_001397800.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           doylei 269.97]
 gi|152939339|gb|ABS44080.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           doylei 269.97]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.16,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|296128756|ref|YP_003636006.1| transcription-repair coupling factor [Cellulomonas flavigena DSM
           20109]
 gi|296020571|gb|ADG73807.1| transcription-repair coupling factor [Cellulomonas flavigena DSM
           20109]
          Length = 1214

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           R G+ +V+  HGVG   E+ ++ +         E+ V+ +   K       L VP  +  
Sbjct: 527 RPGDFVVHEQHGVGRFVELVQRTIGSGAAAATREYLVVEYASSKRGQPGDRLYVPTDQLD 586

Query: 66  DI 67
            +
Sbjct: 587 QV 588


>gi|284926314|gb|ADC28666.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni IA3902]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|238783787|ref|ZP_04627806.1| Transcription-repair-coupling factor [Yersinia bercovieri ATCC
           43970]
 gi|238715338|gb|EEQ07331.1| Transcription-repair-coupling factor [Yersinia bercovieri ATCC
           43970]
          Length = 725

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 529


>gi|206889345|ref|YP_002248930.1| transcription-repair coupling factor [Thermodesulfovibrio
           yellowstonii DSM 11347]
 gi|206741283|gb|ACI20340.1| transcription-repair coupling factor [Thermodesulfovibrio
           yellowstonii DSM 11347]
          Length = 1042

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G++IV+  HG+G    IK Q+  G + +  V+ +    + L VP      I
Sbjct: 377 NEGDYIVHKEHGIGIFRGIKRQKYEGTEEDVLVLEYKDGDI-LYVPTWNIGKI 428


>gi|86150348|ref|ZP_01068574.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni CF93-6]
 gi|85839173|gb|EAQ56436.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni CF93-6]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|88596440|ref|ZP_01099677.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 84-25]
 gi|218562699|ref|YP_002344478.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni NCTC 11168]
 gi|88191281|gb|EAQ95253.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 84-25]
 gi|112360405|emb|CAL35202.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni NCTC 11168]
 gi|315929931|gb|EFV09089.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 305]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|297243627|ref|ZP_06927558.1| transcription-repair coupling factor [Gardnerella vaginalis AMD]
 gi|296888378|gb|EFH27119.1| transcription-repair coupling factor [Gardnerella vaginalis AMD]
          Length = 1202

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 30/72 (41%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKM----- 55
           +++       + G+ +V+  HG+G    +K++ +A        E+ VI +   K      
Sbjct: 518 RRKAIDLMELKPGDFVVHEQHGIGRFVGMKQRNIAVSGGSATREYLVIEYAPSKRNAPND 577

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 578 KLFIPTDQLDLV 589


>gi|332703850|ref|ZP_08423938.1| transcription-repair coupling factor [Desulfovibrio africanus str.
           Walvis Bay]
 gi|332553999|gb|EGJ51043.1| transcription-repair coupling factor [Desulfovibrio africanus str.
           Walvis Bay]
          Length = 1158

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 44/101 (43%), Gaps = 18/101 (17%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL-- 72
           R G+ +V+  +G+G    ++   +  +  ++ +I FD +   L +PV +     +R +  
Sbjct: 487 RPGDLLVHRDYGLGRFGGLERLTIGDVANDYLLIHFDGED-KLFLPVDR-----LRLVQR 540

Query: 73  -SEAHFVERALKLVRGKARVKRTMWSR---RAQEYDAKINS 109
                 ++ +L  +RG      T W     RA++   KI  
Sbjct: 541 YQGPEGLDPSLDSLRG------TRWKHTTERAKKAIEKIAQ 575


>gi|315124568|ref|YP_004066572.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni ICDCCJ07001]
 gi|315018290|gb|ADT66383.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni ICDCCJ07001]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|157415346|ref|YP_001482602.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 81116]
 gi|157386310|gb|ABV52625.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 81116]
 gi|307747987|gb|ADN91257.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni M1]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|37523406|ref|NP_926783.1| transcription-repair coupling factor [Gloeobacter violaceus PCC
           7421]
 gi|35214410|dbj|BAC91778.1| transcription-repair coupling factor [Gloeobacter violaceus PCC
           7421]
          Length = 1154

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 10/43 (23%), Positives = 24/43 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G+ +V+ +HG+G   ++++  V+G   E+ VI +    + +
Sbjct: 488 NPGDFVVHRSHGIGRFAKLEKLTVSGSAREYLVIEYADGILRV 530


>gi|86151063|ref|ZP_01069279.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 260.94]
 gi|86153028|ref|ZP_01071233.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni HB93-13]
 gi|121613373|ref|YP_001000763.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|85842233|gb|EAQ59479.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 260.94]
 gi|85843913|gb|EAQ61123.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni HB93-13]
 gi|87249115|gb|EAQ72076.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 81-176]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|298291681|ref|YP_003693620.1| transcription-repair coupling factor [Starkeya novella DSM 506]
 gi|296928192|gb|ADH89001.1| transcription-repair coupling factor [Starkeya novella DSM 506]
          Length = 1170

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 34/163 (20%), Positives = 59/163 (36%), Gaps = 27/163 (16%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K  E  G   +   I + +    L +PV     +  R  SE  
Sbjct: 500 GDLVVHVDHGIGRFIGLKTIEAMGAPHDCLEIHYAEGS-KLFLPVENLELLS-RYGSEDT 557

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSER 136
             +  L  + G        W  R     A++ S     I E+  +L +  +Q +   + R
Sbjct: 558 EAQ--LDRLGGGG------WQAR----KARMKS----RIREMAAELIKVAAQRQLHEAPR 601

Query: 137 -----QLYESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                 LY+    R   E     +  +  AI  +  +L S   
Sbjct: 602 LVPAAGLYDEFRARFPYE----ETEDQDAAIESVFDDLGSGHP 640


>gi|283956482|ref|ZP_06373962.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|283792202|gb|EFC30991.1| transcription-repair coupling factor [Campylobacter jejuni subsp.
           jejuni 1336]
          Length = 978

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            ++K   +    + G++IV+  +GVG    ++   ++G K EF  I +      L +PV 
Sbjct: 333 TRKKASLIIDELKNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|254412667|ref|ZP_05026440.1| transcription-repair coupling factor [Microcoleus chthonoplastes
           PCC 7420]
 gi|196180402|gb|EDX75393.1| transcription-repair coupling factor [Microcoleus chthonoplastes
           PCC 7420]
          Length = 1192

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 10/54 (18%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
            G+++V+  HG+G   +++   +     E+ VI +    + +      A  +G+
Sbjct: 526 PGDYVVHKNHGIGQFVKLESLTLNHQTREYLVIKYADGLLRV-----AADQVGV 574


>gi|270261435|ref|ZP_06189708.1| hypothetical protein SOD_a06670 [Serratia odorifera 4Rx13]
 gi|270044919|gb|EFA18010.1| hypothetical protein SOD_a06670 [Serratia odorifera 4Rx13]
          Length = 1159

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+K E+ ++++  +   L VPV     I
Sbjct: 489 PGQPVVHLEHGVGRYVGLTTLEAGGIKAEYLILSYSGED-KLYVPVSSLHLI 539


>gi|227873322|ref|ZP_03991584.1| transcription-repair coupling factor [Oribacterium sinus F0268]
 gi|227840837|gb|EEJ51205.1| transcription-repair coupling factor [Oribacterium sinus F0268]
          Length = 1138

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 48/119 (40%), Gaps = 15/119 (12%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+++V+ +HG+G    I+     G+  ++  I    D   L +PV K    G+ K +   
Sbjct: 468 GDYVVHESHGIGIYEGIERIVTDGVSKDYLKI-LYGDGGNLYLPVNKLD--GIEKYAGKE 524

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH-RTDSQPEKSYS 134
                L  + G        W    Q+  +K+  G +  IA+ +  L+ +   +    + 
Sbjct: 525 AKAPKLNRLNGSE------W----QKTKSKVK-GAVREIAKELLALYAKRQEERGYPFG 572


>gi|2073486|emb|CAA72474.1| transcription repair coupling factor [Rickettsia prowazekii]
          Length = 989

 Score = 39.7 bits (92), Expect = 0.17,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + GE +V+  HG+G   +++  ++ G   +F  I +  +   L VPV     I
Sbjct: 326 KEGEFVVHKDHGIGQFLKLEAFKIQGKLHDFLKILYFGND-KLYVPVENIEVI 377


>gi|303230285|ref|ZP_07317052.1| transcription-repair coupling factor [Veillonella atypica
           ACS-134-V-Col7a]
 gi|302515068|gb|EFL57043.1| transcription-repair coupling factor [Veillonella atypica
           ACS-134-V-Col7a]
          Length = 1096

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    +K  E  G+  ++  IA+      L +P      +
Sbjct: 426 SVGDYVVHSMHGIGKYVGLKTIETEGIHRDYIEIAYAGTD-RLYLPASNLDQL 477


>gi|157370240|ref|YP_001478229.1| transcription-repair coupling factor [Serratia proteamaculans 568]
 gi|157322004|gb|ABV41101.1| transcription-repair coupling factor [Serratia proteamaculans 568]
          Length = 1176

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 37/88 (42%), Gaps = 10/88 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++++  +   L VPV     I  R    A
Sbjct: 506 PGQPVVHLEHGVGRYVGLTTLEAGGIKAEYLILSYAGED-KLYVPVSSLHLIS-RYAGGA 563

Query: 76  HFVERALKLVRGKARVKRTMWSR-RAQE 102
                 L  + G A      WSR R + 
Sbjct: 564 DE-NAPLHKLGGDA------WSRARQKA 584


>gi|33152114|ref|NP_873467.1| transcription repair coupling factor [Haemophilus ducreyi 35000HP]
 gi|33148336|gb|AAP95856.1| transcription repair coupling factor [Haemophilus ducreyi 35000HP]
          Length = 1160

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 25/116 (21%), Positives = 51/116 (43%), Gaps = 13/116 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  +   L VPV     I  R +  
Sbjct: 491 KIGQAVVHLENGVGRYAGLTVLDTGGIKAEYLVLNYA-NDAKLYVPVAALHLIS-RYIGG 548

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           A   +  L  +  +       W++  Q+   KI+  D+   AE++    + ++Q  
Sbjct: 549 ADE-QAPLHKLGSE------TWAKNRQKAVEKIH--DI--AAELLDIYAKRETQKG 593


>gi|221195565|ref|ZP_03568620.1| hypothetical protein ATORI0001_0888 [Atopobium rimae ATCC 49626]
 gi|221184752|gb|EEE17144.1| hypothetical protein ATORI0001_0888 [Atopobium rimae ATCC 49626]
          Length = 166

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 9/72 (12%), Positives = 28/72 (38%), Gaps = 7/72 (9%)

Query: 13 GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK-MCLKVPVGKAIDIGMRK 71
           +  G ++V+P  GV  I+ +    + G    + ++       + +  P+    +  +R 
Sbjct: 1  MYAVGNYVVHPGQGVCQISAV----IQGSDGYYTLVPISHKHPIQITFPL--VQEARLRS 54

Query: 72 LSEAHFVERALK 83
          +  +   +  + 
Sbjct: 55 VLSSKEAKVLID 66


>gi|50955304|ref|YP_062592.1| transcription-repair coupling factor [Leifsonia xyli subsp. xyli
           str. CTCB07]
 gi|50951786|gb|AAT89487.1| transcription-repair coupling factor [Leifsonia xyli subsp. xyli
           str. CTCB07]
          Length = 1204

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 12/77 (15%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG-------MKLEFFVIAFDKD 53
           +  ++K        + G+H+V+  HG+G   E+ ++EV+         K E+ V+ +   
Sbjct: 503 LATRRKSVVDPLQLKPGDHVVHETHGIGRFVELTQREVSSGGRNAVKSKREYLVLEYAPS 562

Query: 54  KM-----CLKVPVGKAI 65
           K       L VP  +  
Sbjct: 563 KRGYPGDKLYVPTDQLD 579


>gi|268680233|ref|YP_003304664.1| transcription-repair coupling factor [Sulfurospirillum deleyianum
           DSM 6946]
 gi|268618264|gb|ACZ12629.1| transcription-repair coupling factor [Sulfurospirillum deleyianum
           DSM 6946]
          Length = 989

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+++V+  +G+G    + +  V G   +F +I +  D   L +PV  
Sbjct: 355 KNGDYVVHENYGIGIFKGLTQVSVLGATKDFVLIEYLGDD-KLLLPVEN 402


>gi|57241985|ref|ZP_00369925.1| transcription-repair coupling factor [Campylobacter upsaliensis
           RM3195]
 gi|57017177|gb|EAL53958.1| transcription-repair coupling factor [Campylobacter upsaliensis
           RM3195]
          Length = 974

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ IV+  +GVG    ++   ++G K EF  +++  +   L +PV  
Sbjct: 342 KIGDFIVHEDYGVGKFLGLELLNISGAKKEFVALSYQNND-KLLLPVEN 389


>gi|260776195|ref|ZP_05885090.1| transcription-repair coupling factor [Vibrio coralliilyticus ATCC
           BAA-450]
 gi|260607418|gb|EEX33683.1| transcription-repair coupling factor [Vibrio coralliilyticus ATCC
           BAA-450]
          Length = 1153

 Score = 39.7 bits (92), Expect = 0.18,   Method: Composition-based stats.
 Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HG+G    ++  E  GM  E+  + + ++   L VPV 
Sbjct: 481 KPGQPVVHIDHGIGRYIGLQTLEAGGMTTEYVTLEY-QNDAKLYVPVA 527


>gi|330861382|emb|CBX71615.1| transcription-repair-coupling factor [Yersinia enterocolitica
           W22703]
          Length = 740

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 297 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 354

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G A      WSR  Q+   K+ 
Sbjct: 355 ADE-NAPLHKLGGDA------WSRARQKAAEKVR 381


>gi|303231983|ref|ZP_07318691.1| transcription-repair coupling factor [Veillonella atypica
           ACS-049-V-Sch6]
 gi|302513412|gb|EFL55446.1| transcription-repair coupling factor [Veillonella atypica
           ACS-049-V-Sch6]
          Length = 1096

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    +K  E  G+  ++  IA+      L +P      +
Sbjct: 426 SVGDYVVHSMHGIGKYVGLKTIETEGIHRDYIEIAYAGTD-RLYLPASNLDQL 477


>gi|229817916|ref|ZP_04448198.1| hypothetical protein BIFANG_03203 [Bifidobacterium angulatum DSM
           20098]
 gi|229784520|gb|EEP20634.1| hypothetical protein BIFANG_03203 [Bifidobacterium angulatum DSM
           20098]
          Length = 1198

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 33/72 (45%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-GM---KLEFFVIAFDKDKM----- 55
           +++       +TG+++V+  HG+G   E++++ V  G      E+ VI +   K      
Sbjct: 507 RRKAIDLMELKTGDYVVHEQHGIGRFIEMRQRTVGTGENKATREYLVIEYAPSKRGAPAD 566

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 567 KLFIPTDQLDLV 578


>gi|171910874|ref|ZP_02926344.1| transcription-repair coupling factor [Verrucomicrobium spinosum DSM
           4136]
          Length = 1117

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 27/147 (18%), Positives = 54/147 (36%), Gaps = 44/147 (29%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA----IDI 67
           +  R G+ +V+  +G+G    I+ +E  G + E  ++    +   + VPV +A      +
Sbjct: 434 RELREGDLVVHLDYGIGKYGGIEVRE--GARREEVMVIRYAEDAKVFVPVSQAHLVSRYV 491

Query: 68  GM-------------RKLSEAHFVERALK--------------LVRGKARVKRTMWSRR- 99
           G+             R +      E++++               ++G A    T W    
Sbjct: 492 GVGSRAPTLNKLGDARWVKTRAQAEKSVEEFAAGMLSIAAQRQTLKGHAHPPDTKWQVEF 551

Query: 100 -----AQEYDAKINSGDLIAIAEVVRD 121
                 +E   ++ S     IAE+ RD
Sbjct: 552 EQSFLYRETPDQLKS-----IAEIKRD 573


>gi|83311564|ref|YP_421828.1| transcription-repair coupling factor [Magnetospirillum magneticum
           AMB-1]
 gi|82946405|dbj|BAE51269.1| Transcription-repair coupling factor [Magnetospirillum magneticum
           AMB-1]
          Length = 1134

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 26/127 (20%), Positives = 45/127 (35%), Gaps = 18/127 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    +   EV+G   +   + +D     L VPV       
Sbjct: 461 AEASALAEGDLVVHVEHGIGRYDGLVALEVSGAPHDCLRVLYDGGD-KLFVPVENI---- 515

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
              +      E+A   +    ++  T W  R     AK+    +  IA+    L    +Q
Sbjct: 516 --DVLTRFGSEQAGVSL---DKLGGTAWQAR----KAKLKK-RIRDIAD---QLIGIAAQ 562

Query: 129 PEKSYSE 135
            +    E
Sbjct: 563 RKMRQGE 569


>gi|315638290|ref|ZP_07893471.1| transcription-repair coupling factor [Campylobacter upsaliensis
           JV21]
 gi|315481637|gb|EFU72260.1| transcription-repair coupling factor [Campylobacter upsaliensis
           JV21]
          Length = 974

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ IV+  +GVG    ++   ++G K EF  +++  +   L +PV  
Sbjct: 342 KIGDFIVHEDYGVGKFLGLELLNISGAKKEFVALSYQNND-KLLLPVEN 389


>gi|227111702|ref|ZP_03825358.1| transcription-repair coupling factor [Pectobacterium carotovorum
           subsp. brasiliensis PBR1692]
          Length = 1149

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 10/89 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYAGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYAGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQE 102
           A      L  + G A      WSR R + 
Sbjct: 536 ADE-NAPLHKLGGDA------WSRARQKA 557


>gi|238917833|ref|YP_002931350.1| transcription-repair coupling factor (superfamily II helicase)
           [Eubacterium eligens ATCC 27750]
 gi|238873193|gb|ACR72903.1| transcription-repair coupling factor (superfamily II helicase)
           [Eubacterium eligens ATCC 27750]
          Length = 1206

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 8/39 (20%), Positives = 24/39 (61%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
             G+++V+  +G+G    I++ +V G++ ++  I++  +
Sbjct: 525 NIGDYVVHENYGIGQYKGIEKIKVEGVEKDYIKISYADN 563


>gi|56696942|ref|YP_167304.1| transcription-repair coupling factor [Ruegeria pomeroyi DSS-3]
 gi|56678679|gb|AAV95345.1| transcription-repair coupling factor [Ruegeria pomeroyi DSS-3]
          Length = 1142

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 20/101 (19%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G+ +V+  HG+G    ++    AG   E   + + ++   L +PV       
Sbjct: 463 TETQSLTPGDLVVHVDHGIGRYRGLEVITAAGAAHECIALDYAEEA-RLYLPVENIE--- 518

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  E   L  + G A + K+     R +E   ++
Sbjct: 519 ---LLSKYGHEEGLLDRLGGGAWQAKKAKLKERIREMADRL 556


>gi|261867464|ref|YP_003255386.1| transcription-repair coupling factor [Aggregatibacter
           actinomycetemcomitans D11S-1]
 gi|261412796|gb|ACX82167.1| transcription-repair coupling factor [Aggregatibacter
           actinomycetemcomitans D11S-1]
          Length = 1173

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 32/162 (19%), Positives = 72/162 (44%), Gaps = 25/162 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R +  
Sbjct: 505 QIGQPVVHLEHGVGRYGGLVTLENGGVKAEYLLLNYA-NNSKLYVPVASLHLIS-RYVGG 562

Query: 75  AHFVERALKLVRGKARVKRTMW-SRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +      L  +  +A      W   R++    KI   D+   AE++    + ++Q   S+
Sbjct: 563 SDETAP-LHKLGSEA------WGKARSKA-AEKIR--DV--AAELLDVYAQREAQKGFSF 610

Query: 134 S-ERQL---------YESALNRMVREIAAVNSISEPEAINLI 165
             +R+          +E   ++++   A ++ +++P+A++ +
Sbjct: 611 QYDREEFQQFTATFPFEETHDQLMAINAVISDMTQPKAMDRL 652


>gi|189346300|ref|YP_001942829.1| transcription-repair coupling factor [Chlorobium limicola DSM 245]
 gi|189340447|gb|ACD89850.1| transcription-repair coupling factor [Chlorobium limicola DSM 245]
          Length = 1116

 Score = 39.7 bits (92), Expect = 0.19,   Method: Composition-based stats.
 Identities = 24/124 (19%), Positives = 53/124 (42%), Gaps = 24/124 (19%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  +G+G    ++   V   + E  ++ ++     L V      +I +  LS+
Sbjct: 417 KIGDYVVHEDYGIGIFKSLETITVGNSEQECVLVEYEGGD-QLFV---NVQNINL--LSK 470

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
               E AL  +   +++  + W+ + ++   KI       IA    +L R        Y+
Sbjct: 471 YTAAEGALPSL---SKLGSSKWAAKKEKVRKKIR-----DIAI---NLIRL-------YA 512

Query: 135 ERQL 138
           ER +
Sbjct: 513 ERTM 516


>gi|238795991|ref|ZP_04639503.1| Transcription-repair-coupling factor [Yersinia mollaretii ATCC
           43969]
 gi|238720196|gb|EEQ12000.1| Transcription-repair-coupling factor [Yersinia mollaretii ATCC
           43969]
          Length = 1148

 Score = 39.7 bits (92), Expect = 0.20,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G+A      WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHKLGGEA------WSRARQKAAEKVR 562


>gi|166364821|ref|YP_001657094.1| transcription-repair coupling factor [Microcystis aeruginosa
           NIES-843]
 gi|166087194|dbj|BAG01902.1| transcription-repair coupling factor [Microcystis aeruginosa
           NIES-843]
          Length = 1160

 Score = 39.7 bits (92), Expect = 0.21,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 29/54 (53%), Gaps = 6/54 (11%)

Query: 18  EHIVYPAHGVGTITEIKEQE--VAGMKL--EFFVIAFDKDKMCLKVPVGKAIDI 67
           + +V+  HG+G   ++++QE  ++G+    ++ VI +      L+VP     ++
Sbjct: 491 DFVVHKHHGIGQFIKLEKQESTISGVVQGRDYLVIKYADG--LLRVPADSVDNL 542


>gi|121602625|ref|YP_989090.1| transcription-repair coupling factor [Bartonella bacilliformis
           KC583]
 gi|120614802|gb|ABM45403.1| transcription-repair coupling factor [Bartonella bacilliformis
           KC583]
          Length = 1163

 Score = 39.7 bits (92), Expect = 0.21,   Method: Composition-based stats.
 Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 8/100 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HGVG    +K    AG+  +   I++      L +PV     +  R    + 
Sbjct: 500 GDFVVHIDHGVGQFIGLKTIMTAGILRDCLEISYAGGD-RLFLPVENVELLS-RY--GSE 555

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A   R     R +++  +I  G LI IA
Sbjct: 556 DTDVTLDKLGGVAWQARKT---RFKKHLLQIA-GQLICIA 591


>gi|300087739|ref|YP_003758261.1| transcription-repair coupling factor [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
 gi|299527472|gb|ADJ25940.1| transcription-repair coupling factor [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
          Length = 1148

 Score = 39.7 bits (92), Expect = 0.21,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           GE+IV+  HG+G    I + + AG   ++ +I + K    L VPV +   I
Sbjct: 483 GEYIVHVEHGIGIYRGIVKTKAAGSVSDYILIEYSKGD-RLYVPVDQIGRI 532


>gi|15618800|ref|NP_225086.1| transcription-repair coupling [Chlamydophila pneumoniae CWL029]
 gi|15836424|ref|NP_300948.1| transcription-repair coupling [Chlamydophila pneumoniae J138]
 gi|16752145|ref|NP_445512.1| transcription-repair coupling factor [Chlamydophila pneumoniae
           AR39]
 gi|33242253|ref|NP_877194.1| transcription-repair coupling factor [Chlamydophila pneumoniae
           TW-183]
 gi|4377210|gb|AAD19029.1| Transcription-Repair Coupling [Chlamydophila pneumoniae CWL029]
 gi|7189888|gb|AAF38755.1| transcription-repair coupling factor [Chlamydophila pneumoniae
           AR39]
 gi|8979265|dbj|BAA99099.1| transcription-repair coupling [Chlamydophila pneumoniae J138]
 gi|33236764|gb|AAP98851.1| transcription-repair coupling factor [Chlamydophila pneumoniae
           TW-183]
          Length = 1085

 Score = 39.7 bits (92), Expect = 0.21,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 39/92 (42%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 437 PGETVVHIHNGIGKFLGIEKKPNHLNIETDYLVLEYA-DKARLYVPSNQAYLIS-RYVGT 494

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +               +  + W  R+++   K
Sbjct: 495 SDKAADL-------HHLNSSKWK-RSRDLTEK 518


>gi|226330514|ref|ZP_03806032.1| hypothetical protein PROPEN_04432 [Proteus penneri ATCC 35198]
 gi|225201309|gb|EEG83663.1| hypothetical protein PROPEN_04432 [Proteus penneri ATCC 35198]
          Length = 708

 Score = 39.7 bits (92), Expect = 0.21,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+K E+ ++++  +   L VPV     I
Sbjct: 36 SIGQPVVHLQHGVGRYQGMTTLEAGGVKAEYLMLSYAGND-KLYVPVSSLHLI 87


>gi|49475638|ref|YP_033679.1| transcription repair coupling factor [Bartonella henselae str.
           Houston-1]
 gi|49238445|emb|CAF27673.1| Transcription repair coupling factor [Bartonella henselae str.
           Houston-1]
          Length = 1168

 Score = 39.7 bits (92), Expect = 0.21,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    +K    AG+  +   I +    + L +PV    
Sbjct: 501 GDIVVHIDHGIGQFVGLKTITTAGILRDCLEIKYAGGDL-LFLPVENIE 548


>gi|269302679|gb|ACZ32779.1| transcription-repair coupling factor [Chlamydophila pneumoniae
           LPCoLN]
          Length = 1083

 Score = 39.7 bits (92), Expect = 0.21,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 39/92 (42%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    I+++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 435 PGETVVHIHNGIGKFLGIEKKPNHLNIETDYLVLEYA-DKARLYVPSNQAYLIS-RYVGT 492

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +               +  + W  R+++   K
Sbjct: 493 SDKAADL-------HHLNSSKWK-RSRDLTEK 516


>gi|218134568|ref|ZP_03463372.1| hypothetical protein BACPEC_02471 [Bacteroides pectinophilus ATCC
           43243]
 gi|217989953|gb|EEC55964.1| hypothetical protein BACPEC_02471 [Bacteroides pectinophilus ATCC
           43243]
          Length = 1177

 Score = 39.3 bits (91), Expect = 0.22,   Method: Composition-based stats.
 Identities = 10/44 (22%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
            G+++V+  +G+G    I++ EV G++ ++  I +      L +
Sbjct: 506 IGDYVVHENYGLGIYRGIEKIEVEGIERDYIKIEYSGTD-TLYI 548


>gi|241763660|ref|ZP_04761710.1| flagellin domain protein [Acidovorax delafieldii 2AN]
 gi|241367135|gb|EER61501.1| flagellin domain protein [Acidovorax delafieldii 2AN]
          Length = 522

 Score = 39.3 bits (91), Expect = 0.22,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 3/65 (4%)

Query: 109 SGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           SGD++     VR+L    +    S S+RQ   + +N++  E+  +   +E     L++ +
Sbjct: 85  SGDILQR---VRELAVQSANATNSASDRQALNAEVNQLTSELDRIAKTTEFNGRKLLDGS 141

Query: 169 LSSKS 173
            +S +
Sbjct: 142 FTSAA 146


>gi|87302159|ref|ZP_01084984.1| transcription-repair coupling factor [Synechococcus sp. WH 5701]
 gi|87283084|gb|EAQ75040.1| transcription-repair coupling factor [Synechococcus sp. WH 5701]
          Length = 1187

 Score = 39.3 bits (91), Expect = 0.22,   Method: Composition-based stats.
 Identities = 9/56 (16%), Positives = 24/56 (42%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                R       R G+ +V+  HG+G    +++  ++G   ++ V+ +    + +
Sbjct: 482 RKAASRTVDPNKMRPGDFVVHRNHGIGRFLRLEKLAISGESRDYLVVQYADGLLRV 537


>gi|253688855|ref|YP_003018045.1| transcription-repair coupling factor [Pectobacterium carotovorum
           subsp. carotovorum PC1]
 gi|251755433|gb|ACT13509.1| transcription-repair coupling factor [Pectobacterium carotovorum
           subsp. carotovorum PC1]
          Length = 1150

 Score = 39.3 bits (91), Expect = 0.22,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 10/89 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 479 RPGQPVVHLEHGVGRYAGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYAGG 536

Query: 75  AHFVERALKLVRGKARVKRTMWSR-RAQE 102
           A      L  + G A      WSR R + 
Sbjct: 537 ADE-NAPLHKLGGDA------WSRARQKA 558


>gi|291569965|dbj|BAI92237.1| transcriptional-repair coupling factor [Arthrospira platensis
           NIES-39]
          Length = 1167

 Score = 39.3 bits (91), Expect = 0.23,   Method: Composition-based stats.
 Identities = 8/54 (14%), Positives = 26/54 (48%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+++V+  HG+G   +++   ++    ++ V+ +    + +      A  +G
Sbjct: 497 QPGDYVVHRQHGIGKFVKLESLTISQEIRDYLVLQYADGTLRV-----AADQVG 545


>gi|284054183|ref|ZP_06384393.1| transcription-repair coupling factor [Arthrospira platensis str.
           Paraca]
          Length = 1152

 Score = 39.3 bits (91), Expect = 0.23,   Method: Composition-based stats.
 Identities = 8/54 (14%), Positives = 26/54 (48%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+++V+  HG+G   +++   ++    ++ V+ +    + +      A  +G
Sbjct: 482 QPGDYVVHRQHGIGKFVKLESLTISQEIRDYLVLQYADGTLRV-----AADQVG 530


>gi|332671526|ref|YP_004454534.1| transcription-repair coupling factor [Cellulomonas fimi ATCC 484]
 gi|332340564|gb|AEE47147.1| transcription-repair coupling factor [Cellulomonas fimi ATCC 484]
          Length = 1222

 Score = 39.3 bits (91), Expect = 0.24,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 46/117 (39%), Gaps = 27/117 (23%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           R G+ +V+  HGVG   E+ ++ +         E+ VI +            K    G R
Sbjct: 534 RPGDFVVHEQHGVGRFVELVQRTIGTGANAATREYLVIEYASS---------KRGQPGDR 584

Query: 71  KLSEAHFVERALKLVRGKARVKRTM----WSR---RAQEYDAKINSGDLIAIAEVVR 120
               +  +++  K V G+A     M    W++   RA+    +I        AE++R
Sbjct: 585 LFVPSDQLDQVTKYVGGEAPTLNRMGGGDWAKTKGRARRAVKEIA-------AELIR 634


>gi|291541698|emb|CBL14808.1| transcription-repair coupling factor [Ruminococcus bromii L2-63]
          Length = 1152

 Score = 39.3 bits (91), Expect = 0.24,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    I++ +  G+  ++  I + K  + L VPV +   +
Sbjct: 495 PGDYVVHNVHGIGVFGGIRKIDTHGVIKDYIKIDYAKGDV-LYVPVTQLDMV 545


>gi|254502678|ref|ZP_05114829.1| transcription-repair coupling factor [Labrenzia alexandrii DFL-11]
 gi|222438749|gb|EEE45428.1| transcription-repair coupling factor [Labrenzia alexandrii DFL-11]
          Length = 1161

 Score = 39.3 bits (91), Expect = 0.24,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 44/123 (35%), Gaps = 18/123 (14%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
               G    + +V+  HG+G    +K  E  G   +   + +      L +PV     + 
Sbjct: 488 TEATGLSESDLVVHVEHGIGRFIGLKTVEAIGAPHDCLELQYAGGD-KLYLPVENIELLS 546

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
            R  SE    +  L  + G A      W  R     AK+    ++ IA+    L +T ++
Sbjct: 547 -RYGSEDQEAQ--LDKLGGGA------WQAR----KAKLKK-RILEIAD---GLIKTAAE 589

Query: 129 PEK 131
              
Sbjct: 590 RAL 592


>gi|238754400|ref|ZP_04615756.1| Transcription-repair-coupling factor [Yersinia ruckeri ATCC 29473]
 gi|238707433|gb|EEP99794.1| Transcription-repair-coupling factor [Yersinia ruckeri ATCC 29473]
          Length = 1148

 Score = 39.3 bits (91), Expect = 0.24,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G A      WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHKLGGDA------WSRARQKAAEKVR 562


>gi|210623288|ref|ZP_03293705.1| hypothetical protein CLOHIR_01655 [Clostridium hiranonis DSM 13275]
 gi|210153689|gb|EEA84695.1| hypothetical protein CLOHIR_01655 [Clostridium hiranonis DSM 13275]
          Length = 1147

 Score = 39.3 bits (91), Expect = 0.24,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+   G+G    I +  V G+K ++  I +      L VP+ +   +
Sbjct: 495 NPGDYVVHENSGIGRYIGIDQITVDGIKKDYMKIVYRDGD-NLYVPIDQMDKV 546


>gi|293391342|ref|ZP_06635676.1| transcription-repair coupling factor [Aggregatibacter
           actinomycetemcomitans D7S-1]
 gi|290951876|gb|EFE01995.1| transcription-repair coupling factor [Aggregatibacter
           actinomycetemcomitans D7S-1]
          Length = 1152

 Score = 39.3 bits (91), Expect = 0.24,   Method: Composition-based stats.
 Identities = 32/162 (19%), Positives = 72/162 (44%), Gaps = 25/162 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R +  
Sbjct: 484 QIGQPVVHLEHGVGRYGGLVTLENGGVKAEYLLLNYA-NNSKLYVPVASLHLIS-RYVGG 541

Query: 75  AHFVERALKLVRGKARVKRTMW-SRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY 133
           +      L  +  +A      W   R++    KI   D+   AE++    + ++Q   S+
Sbjct: 542 SDETAP-LHKLGSEA------WGKARSKA-AEKIR--DV--AAELLDVYAQREAQKGFSF 589

Query: 134 S-ERQL---------YESALNRMVREIAAVNSISEPEAINLI 165
             +R+          +E   ++++   A ++ +++P+A++ +
Sbjct: 590 QYDREEFQQFTATFPFEETHDQLMAINAVISDMTQPKAMDRL 631


>gi|227822023|ref|YP_002825994.1| putative transcription-repair coupling factor [Sinorhizobium fredii
           NGR234]
 gi|227341023|gb|ACP25241.1| putative transcription-repair coupling factor [Sinorhizobium fredii
           NGR234]
          Length = 1170

 Score = 39.3 bits (91), Expect = 0.25,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 42/114 (36%), Gaps = 20/114 (17%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A   G   G ++V+  HG+G    ++  E AG   +   +    +   L +PV     + 
Sbjct: 497 AEVTGLDEGSYVVHAEHGIGRFVGLRTIEAAGAPHDCLEL-VYAEDAKLFLPVENIELLS 555

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN------SGDLIAIA 116
            R    +   +  L  + G A      W  R     AK+       +G LI IA
Sbjct: 556 -RY--GSEGTDAILDKLGGVA------WQAR----KAKLKKRLLDMAGGLIRIA 596


>gi|325265261|ref|ZP_08131986.1| transcription-repair coupling factor [Clostridium sp. D5]
 gi|324029440|gb|EGB90730.1| transcription-repair coupling factor [Clostridium sp. D5]
          Length = 1119

 Score = 39.3 bits (91), Expect = 0.25,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 27/53 (50%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           T++ ++       + G+++V+  HG+G    I++ EV  +  ++  I++    
Sbjct: 436 TYEGQKIQNFSELKVGDYVVHENHGLGVYQGIEKIEVDKVTKDYMKISYAGGG 488


>gi|161503691|ref|YP_001570803.1| transcription-repair coupling factor [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:-- str. RSK2980]
 gi|160865038|gb|ABX21661.1| hypothetical protein SARI_01775 [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:--]
          Length = 1148

 Score = 39.3 bits (91), Expect = 0.25,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|238749649|ref|ZP_04611154.1| Transcription-repair-coupling factor [Yersinia rohdei ATCC 43380]
 gi|238712304|gb|EEQ04517.1| Transcription-repair-coupling factor [Yersinia rohdei ATCC 43380]
          Length = 1148

 Score = 39.3 bits (91), Expect = 0.26,   Method: Composition-based stats.
 Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G        WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHRLGGDV------WSRARQKAAEKVR 562


>gi|148273452|ref|YP_001223013.1| putative transcription-repair coupling factor [Clavibacter
           michiganensis subsp. michiganensis NCPPB 382]
 gi|147831382|emb|CAN02340.1| putative transcription-repair coupling factor [Clavibacter
           michiganensis subsp. michiganensis NCPPB 382]
          Length = 1210

 Score = 39.3 bits (91), Expect = 0.26,   Method: Composition-based stats.
 Identities = 18/88 (20%), Positives = 36/88 (40%), Gaps = 13/88 (14%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG-------MKLEFFVIAFDKD 53
           +  ++K        + G+H+V+  HG+G   E+ ++EV+         + E+ VI +   
Sbjct: 504 LATRRKNVVDPLQLKPGDHVVHTTHGIGRFVELTQREVSSGGRNAVKTRREYLVIEYAPS 563

Query: 54  KM-----CLKVPVGKAIDIGMRKLSEAH 76
           K       L VP  +   +  R +    
Sbjct: 564 KRGYPGDKLFVPTDQLDLLS-RYVGGEE 590


>gi|332162083|ref|YP_004298660.1| transcription-repair coupling factor [Yersinia enterocolitica
           subsp. palearctica 105.5R(r)]
 gi|325666313|gb|ADZ42957.1| transcription-repair coupling factor [Yersinia enterocolitica
           subsp. palearctica 105.5R(r)]
          Length = 1148

 Score = 39.3 bits (91), Expect = 0.27,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G A      WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHKLGGDA------WSRARQKAAEKVR 562


>gi|237751094|ref|ZP_04581574.1| transcription-repair coupling factor [Helicobacter bilis ATCC
           43879]
 gi|229373539|gb|EEO23930.1| transcription-repair coupling factor [Helicobacter bilis ATCC
           43879]
          Length = 1042

 Score = 39.3 bits (91), Expect = 0.27,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 1/55 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             + G ++V+  +G+G    IK+  + G   +F  I +  D   L +PV     I
Sbjct: 396 ALKVGAYVVHSEYGIGIFEAIKQVSIMGGLKDFISIIYANDD-RLLLPVENLNMI 449


>gi|123442012|ref|YP_001005995.1| transcription-repair coupling factor [Yersinia enterocolitica
           subsp. enterocolitica 8081]
 gi|122088973|emb|CAL11784.1| transcription-repair coupling factor [Yersinia enterocolitica
           subsp. enterocolitica 8081]
          Length = 1148

 Score = 39.3 bits (91), Expect = 0.27,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G A      WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHKLGGDA------WSRARQKAAEKVR 562


>gi|110598535|ref|ZP_01386804.1| transcription-repair coupling factor [Chlorobium ferrooxidans DSM
           13031]
 gi|110339839|gb|EAT58345.1| transcription-repair coupling factor [Chlorobium ferrooxidans DSM
           13031]
          Length = 1108

 Score = 39.3 bits (91), Expect = 0.27,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 26/58 (44%), Gaps = 4/58 (6%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           Q  + G+++V+  +G+G    ++   V   + E  ++ ++     L V      +I +
Sbjct: 411 QKLKVGDYVVHEDYGIGIFKSLETITVGNSEQESVLVEYEGGD-QLFV---NVQNINL 464


>gi|238762212|ref|ZP_04623184.1| Transcription-repair-coupling factor [Yersinia kristensenii ATCC
           33638]
 gi|238699559|gb|EEP92304.1| Transcription-repair-coupling factor [Yersinia kristensenii ATCC
           33638]
          Length = 1048

 Score = 39.3 bits (91), Expect = 0.27,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R  S 
Sbjct: 378 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RY-SG 434

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
                  L  + G+A      WSR  Q+   K+ 
Sbjct: 435 GADDNAPLHKLGGEA------WSRARQKAAEKVR 462


>gi|315650057|ref|ZP_07903136.1| transcription-repair coupling factor [Eubacterium saburreum DSM
           3986]
 gi|315487686|gb|EFU77990.1| transcription-repair coupling factor [Eubacterium saburreum DSM
           3986]
          Length = 1112

 Score = 39.3 bits (91), Expect = 0.28,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G++IV+  HG+G    I++ E  G+  ++  I +        VPV K   I
Sbjct: 445 VGDYIVHEDHGLGIYRGIEKIERDGIIKDYVKIEYQGGD-NCFVPVSKLNRI 495


>gi|210608664|ref|ZP_03287941.1| hypothetical protein CLONEX_00120 [Clostridium nexile DSM 1787]
 gi|210152921|gb|EEA83927.1| hypothetical protein CLONEX_00120 [Clostridium nexile DSM 1787]
          Length = 1112

 Score = 39.3 bits (91), Expect = 0.28,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I++ EV  +  ++  IA+      L +P  +   I
Sbjct: 442 KVGDYVVHENHGLGIYQGIEKIEVDKVSKDYMKIAYAAGG-NLYIPATQLDLI 493


>gi|319778049|ref|YP_004134479.1| dead/deah box helicase domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317171768|gb|ADV15305.1| DEAD/DEAH box helicase domain protein [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 1129

 Score = 39.0 bits (90), Expect = 0.29,   Method: Composition-based stats.
 Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 12/86 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKAIDIGMRKLS 73
           R G+ +V+  HG+G +  +++ ++AG   +  V+  +      L VPV     I  R  S
Sbjct: 469 RIGDVVVHEDHGLGVLAAVEQVDLAGQHQD--VVRLEYHGGASLLVPVDDFGKI-WRYGS 525

Query: 74  EAHFVERALKLVRGKARVKRTMWSRR 99
           E   V   L  + G+       W +R
Sbjct: 526 EPEAVS--LDRLNGEG------WPKR 543


>gi|269794110|ref|YP_003313565.1| transcription-repair coupling factor Mfd [Sanguibacter keddieii DSM
           10542]
 gi|269096295|gb|ACZ20731.1| transcription-repair coupling factor Mfd [Sanguibacter keddieii DSM
           10542]
          Length = 1212

 Score = 39.0 bits (90), Expect = 0.29,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 9/76 (11%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM- 55
           M  +++        R G+ +V+  HGVG   E+ ++ + G       E+ V+ +   +  
Sbjct: 511 MPSKRRNVVDPLQLRAGDFVVHEQHGVGRFVELVQRTLGGGAAAATREYLVVEYASSRRG 570

Query: 56  ----CLKVPVGKAIDI 67
                L VP  +   +
Sbjct: 571 QPGDRLFVPTDQLDQV 586


>gi|116750898|ref|YP_847585.1| transcription-repair coupling factor [Syntrophobacter fumaroxidans
           MPOB]
 gi|116699962|gb|ABK19150.1| transcription-repair coupling factor [Syntrophobacter fumaroxidans
           MPOB]
          Length = 1189

 Score = 39.0 bits (90), Expect = 0.29,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           Q    G+ +V+  HG+G   E+    V G++ +F ++ +      L VPV K   +
Sbjct: 517 QDLHIGDFVVHVDHGIGVYKELVHLAVRGIESDFLLLEYQDGD-RLYVPVDKLQKV 571


>gi|238789093|ref|ZP_04632882.1| Transcription-repair-coupling factor [Yersinia frederiksenii ATCC
           33641]
 gi|238722857|gb|EEQ14508.1| Transcription-repair-coupling factor [Yersinia frederiksenii ATCC
           33641]
          Length = 1099

 Score = 39.0 bits (90), Expect = 0.29,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G A      WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHKLGGDA------WSRARQKAAEKVR 562


>gi|238791842|ref|ZP_04635479.1| Transcription-repair-coupling factor [Yersinia intermedia ATCC
           29909]
 gi|238728946|gb|EEQ20463.1| Transcription-repair-coupling factor [Yersinia intermedia ATCC
           29909]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.30,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 529


>gi|126696368|ref|YP_001091254.1| transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9301]
 gi|126543411|gb|ABO17653.1| Transcriptional-repair coupling factor [Prochlorococcus marinus
           str. MIT 9301]
          Length = 1169

 Score = 39.0 bits (90), Expect = 0.30,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 23/43 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
             G+ IV+  HG+G   +I++  + G   ++ VI +   K+ +
Sbjct: 492 SPGDFIVHKNHGIGKFLKIEKINLTGDSRDYLVIQYQDGKISV 534


>gi|89075823|ref|ZP_01162207.1| putative transcription-repair coupling factor [Photobacterium sp.
           SKA34]
 gi|89048444|gb|EAR54020.1| putative transcription-repair coupling factor [Photobacterium sp.
           SKA34]
          Length = 1153

 Score = 39.0 bits (90), Expect = 0.30,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+K E+  + + +    L VPV     I
Sbjct: 484 QVGQPVVHIDHGIGRYQGLQTLEAGGIKTEYVTLEY-QGGAKLYVPVASLHLI 535


>gi|90579501|ref|ZP_01235310.1| putative transcription-repair coupling factor [Vibrio angustum S14]
 gi|90439075|gb|EAS64257.1| putative transcription-repair coupling factor [Vibrio angustum S14]
          Length = 1153

 Score = 39.0 bits (90), Expect = 0.31,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+K E+  + + +    L VPV     I
Sbjct: 484 QVGQPVVHIDHGIGRYQGLQTLEAGGIKTEYVTLEY-QGGAKLYVPVASLHLI 535


>gi|119512690|ref|ZP_01631763.1| transcriptional-repair coupling factor [Nodularia spumigena
           CCY9414]
 gi|119462657|gb|EAW43621.1| transcriptional-repair coupling factor [Nodularia spumigena
           CCY9414]
          Length = 1164

 Score = 39.0 bits (90), Expect = 0.31,   Method: Composition-based stats.
 Identities = 9/52 (17%), Positives = 25/52 (48%), Gaps = 5/52 (9%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           G+++V+ +HGVG   +++   +     ++ V+ +    + +      A  +G
Sbjct: 497 GDYVVHRSHGVGKFVKLESLTINHETRDYLVVQYADGILRV-----AADQVG 543


>gi|171743238|ref|ZP_02919045.1| hypothetical protein BIFDEN_02367 [Bifidobacterium dentium ATCC
           27678]
 gi|283455784|ref|YP_003360348.1| transcription-repair coupling factor [Bifidobacterium dentium Bd1]
 gi|171278852|gb|EDT46513.1| hypothetical protein BIFDEN_02367 [Bifidobacterium dentium ATCC
           27678]
 gi|283102418|gb|ADB09524.1| Transcription-repair coupling factor [Bifidobacterium dentium Bd1]
          Length = 1173

 Score = 39.0 bits (90), Expect = 0.31,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 34/72 (47%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM----- 55
           +++       ++G+++V+  HG+G   E++++ +  G      E+ VI +  +K      
Sbjct: 483 RRKAIDLMELKSGDYVVHEQHGIGRFVEMRQRTIGTGANKTTREYLVIEYAPNKRGAPAD 542

Query: 56  CLKVPVGKAIDI 67
            L +P  +   I
Sbjct: 543 KLFIPTDQLDQI 554


>gi|224373507|ref|YP_002607879.1| transcription-repair coupling factor [Nautilia profundicola AmH]
 gi|223589861|gb|ACM93597.1| transcription-repair coupling factor [Nautilia profundicola AmH]
          Length = 974

 Score = 39.0 bits (90), Expect = 0.32,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+ AHG+G    +K+ E+ G   E+  + +  D   L +PV     I
Sbjct: 347 KKGDFVVHEAHGIGKFNGLKKVEILGKVGEYAEVLYANDD-KLLLPVENLNLI 398


>gi|170023947|ref|YP_001720452.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           YPIII]
 gi|169750481|gb|ACA67999.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           YPIII]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 529


>gi|51596765|ref|YP_070956.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           IP 32953]
 gi|186895833|ref|YP_001872945.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           PB1/+]
 gi|51590047|emb|CAH21681.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           IP 32953]
 gi|186698859|gb|ACC89488.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           PB1/+]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 529


>gi|153948693|ref|YP_001400575.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           IP 31758]
 gi|152960188|gb|ABS47649.1| transcription-repair coupling factor [Yersinia pseudotuberculosis
           IP 31758]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 529


>gi|22125678|ref|NP_669101.1| transcription-repair coupling factor [Yersinia pestis KIM 10]
 gi|45441565|ref|NP_993104.1| transcription-repair coupling factor [Yersinia pestis biovar
           Microtus str. 91001]
 gi|108807895|ref|YP_651811.1| transcription-repair coupling factor [Yersinia pestis Antiqua]
 gi|108812169|ref|YP_647936.1| transcription-repair coupling factor [Yersinia pestis Nepal516]
 gi|145599106|ref|YP_001163182.1| transcription-repair coupling factor [Yersinia pestis Pestoides F]
 gi|149366410|ref|ZP_01888444.1| transcription-repair coupling factor [Yersinia pestis CA88-4125]
 gi|162421681|ref|YP_001607245.1| transcription-repair coupling factor [Yersinia pestis Angola]
 gi|165925529|ref|ZP_02221361.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. F1991016]
 gi|165938427|ref|ZP_02226984.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. IP275]
 gi|166008143|ref|ZP_02229041.1| transcription-repair coupling factor [Yersinia pestis biovar
           Antiqua str. E1979001]
 gi|166210634|ref|ZP_02236669.1| transcription-repair coupling factor [Yersinia pestis biovar
           Antiqua str. B42003004]
 gi|167401750|ref|ZP_02307241.1| transcription-repair coupling factor [Yersinia pestis biovar
           Antiqua str. UG05-0454]
 gi|167421853|ref|ZP_02313606.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. MG05-1020]
 gi|167426319|ref|ZP_02318072.1| transcription-repair coupling factor [Yersinia pestis biovar
           Mediaevalis str. K1973002]
 gi|218928761|ref|YP_002346636.1| transcription-repair coupling factor [Yersinia pestis CO92]
 gi|229841610|ref|ZP_04461768.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. PEXU2]
 gi|229843727|ref|ZP_04463870.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. India 195]
 gi|229894469|ref|ZP_04509651.1| transcription-repair coupling factor [Yersinia pestis Pestoides A]
 gi|229902491|ref|ZP_04517610.1| transcription-repair coupling factor [Yersinia pestis Nepal516]
 gi|294504177|ref|YP_003568239.1| transcription-repair coupling factor [Yersinia pestis Z176003]
 gi|21958592|gb|AAM85352.1|AE013781_3 transcription-repair coupling factor [Yersinia pestis KIM 10]
 gi|45436426|gb|AAS61981.1| transcription-repair coupling factor [Yersinia pestis biovar
           Microtus str. 91001]
 gi|108775817|gb|ABG18336.1| transcription-repair coupling factor [Yersinia pestis Nepal516]
 gi|108779808|gb|ABG13866.1| transcription-repair coupling factor [Yersinia pestis Antiqua]
 gi|115347372|emb|CAL20270.1| transcription-repair coupling factor [Yersinia pestis CO92]
 gi|145210802|gb|ABP40209.1| transcription-repair coupling factor [Yersinia pestis Pestoides F]
 gi|149290784|gb|EDM40859.1| transcription-repair coupling factor [Yersinia pestis CA88-4125]
 gi|162354496|gb|ABX88444.1| transcription-repair coupling factor [Yersinia pestis Angola]
 gi|165913542|gb|EDR32162.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. IP275]
 gi|165922638|gb|EDR39789.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. F1991016]
 gi|165992525|gb|EDR44826.1| transcription-repair coupling factor [Yersinia pestis biovar
           Antiqua str. E1979001]
 gi|166207814|gb|EDR52294.1| transcription-repair coupling factor [Yersinia pestis biovar
           Antiqua str. B42003004]
 gi|166960338|gb|EDR56359.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. MG05-1020]
 gi|167048855|gb|EDR60263.1| transcription-repair coupling factor [Yersinia pestis biovar
           Antiqua str. UG05-0454]
 gi|167054674|gb|EDR64478.1| transcription-repair coupling factor [Yersinia pestis biovar
           Mediaevalis str. K1973002]
 gi|229680537|gb|EEO76634.1| transcription-repair coupling factor [Yersinia pestis Nepal516]
 gi|229689335|gb|EEO81398.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. India 195]
 gi|229694073|gb|EEO84121.1| transcription-repair coupling factor [Yersinia pestis biovar
           Orientalis str. PEXU2]
 gi|229703488|gb|EEO90505.1| transcription-repair coupling factor [Yersinia pestis Pestoides A]
 gi|262362294|gb|ACY59015.1| transcription-repair coupling factor [Yersinia pestis D106004]
 gi|294354636|gb|ADE64977.1| transcription-repair coupling factor [Yersinia pestis Z176003]
 gi|320014765|gb|ADV98336.1| transcription-repair coupling factor [Yersinia pestis biovar
           Medievalis str. Harbin 35]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 529


>gi|282850657|ref|ZP_06260036.1| transcription-repair coupling factor [Veillonella parvula ATCC
           17745]
 gi|282580150|gb|EFB85554.1| transcription-repair coupling factor [Veillonella parvula ATCC
           17745]
          Length = 1098

 Score = 39.0 bits (90), Expect = 0.32,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    +K  E  G+  ++  IA+      L +P      +
Sbjct: 427 PGDYVVHNMHGIGKYIGLKTIETEGIHRDYIEIAYAGTD-KLFLPANNLDQL 477


>gi|238758409|ref|ZP_04619586.1| Transcription-repair-coupling factor [Yersinia aldovae ATCC 35236]
 gi|238703313|gb|EEP95853.1| Transcription-repair-coupling factor [Yersinia aldovae ATCC 35236]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.33,   Method: Composition-based stats.
 Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    
Sbjct: 478 RPGQPVVHLEHGVGRYLGLTTLETGGIKAEYLILTYAGED-KLYVPVSSLHLIS-RYSGG 535

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G        WSR  Q+   K+ 
Sbjct: 536 ADE-NAPLHRLGGDV------WSRARQKAAEKVR 562


>gi|320532549|ref|ZP_08033357.1| putative transcription-repair coupling factor [Actinomyces sp. oral
           taxon 171 str. F0337]
 gi|320135236|gb|EFW27376.1| putative transcription-repair coupling factor [Actinomyces sp. oral
           taxon 171 str. F0337]
          Length = 598

 Score = 39.0 bits (90), Expect = 0.33,   Method: Composition-based stats.
 Identities = 28/126 (22%), Positives = 44/126 (34%), Gaps = 25/126 (19%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
           G+ +V+  HGVG   E+  + V G       E+ VI +            K    G R L
Sbjct: 10  GDLVVHAQHGVGRFIELSRRAVGGARSSATREYLVIEYAPS---------KRGQPGDRLL 60

Query: 73  SEAHFVERALKLVRGKARVKRTM----WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
                +++  K V G +     M    W        AK  S    A+ E+  +L R  + 
Sbjct: 61  VPTDALDQVTKYVGGDSPALSKMGGADW--------AKTKSKARKAVREIAGELVRLYAA 112

Query: 129 PEKSYS 134
              +  
Sbjct: 113 RAATTG 118


>gi|220907244|ref|YP_002482555.1| transcription-repair coupling factor [Cyanothece sp. PCC 7425]
 gi|219863855|gb|ACL44194.1| transcription-repair coupling factor [Cyanothece sp. PCC 7425]
          Length = 1169

 Score = 39.0 bits (90), Expect = 0.33,   Method: Composition-based stats.
 Identities = 8/45 (17%), Positives = 23/45 (51%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           + G+++V+  HG+G   +++   +     E+ V+ +    + + V
Sbjct: 499 QPGDYVVHRQHGIGKFLKLESLTINRETREYLVLQYADGLLRVAV 543


>gi|229819510|ref|YP_002881036.1| transcription-repair coupling factor [Beutenbergia cavernae DSM
           12333]
 gi|229565423|gb|ACQ79274.1| transcription-repair coupling factor [Beutenbergia cavernae DSM
           12333]
          Length = 1205

 Score = 39.0 bits (90), Expect = 0.34,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 9/64 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM-----CLKVPVGK 63
             RTG+H+V+  HGVG   E+ ++ +         E+ VI +   K       L VP   
Sbjct: 514 ALRTGDHVVHEQHGVGRFVELVQRSIGSGPAAATREYLVIEYAASKRGQPGDRLYVPTDA 573

Query: 64  AIDI 67
              +
Sbjct: 574 LDQV 577


>gi|302039582|ref|YP_003799904.1| transcription-repair-coupling factor [Candidatus Nitrospira
           defluvii]
 gi|300607646|emb|CBK43979.1| Transcription-repair-coupling factor [Candidatus Nitrospira
           defluvii]
          Length = 1157

 Score = 39.0 bits (90), Expect = 0.34,   Method: Composition-based stats.
 Identities = 23/126 (18%), Positives = 48/126 (38%), Gaps = 15/126 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  +G+     ++   V     +F V+ F      L VP+ +   +  R    
Sbjct: 483 NIGDYVVHMQYGIAKYQGLRRLSVQDFDSDFLVLEFAGTD-KLYVPLDRLSQVQ-RYAGA 540

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEK-SY 133
              V R         R+  T W++      A++   D+  +A  + DL+       + SY
Sbjct: 541 DAHVPRL-------DRLGGTSWAK----TTARVKK-DIEEMAHELVDLYANRELVHRTSY 588

Query: 134 SERQLY 139
            +  + 
Sbjct: 589 GKDSML 594


>gi|331090628|ref|ZP_08339479.1| hypothetical protein HMPREF9477_00122 [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330401068|gb|EGG80663.1| hypothetical protein HMPREF9477_00122 [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 1112

 Score = 39.0 bits (90), Expect = 0.34,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HG+G    I++ +V     ++  I++      L +P  +   I
Sbjct: 442 KIGDYVVHENHGLGIYQGIEKIDVDKTSKDYMKISYAGGG-NLYIPATQLDLI 493


>gi|294794147|ref|ZP_06759284.1| transcription-repair coupling factor [Veillonella sp. 3_1_44]
 gi|294455717|gb|EFG24089.1| transcription-repair coupling factor [Veillonella sp. 3_1_44]
          Length = 1098

 Score = 39.0 bits (90), Expect = 0.34,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    +K  E  G+  ++  IA+      L +P      +
Sbjct: 427 PGDYVVHNMHGIGKYIGLKTIETEGIHRDYIEIAYAGTD-KLFLPANNLDQL 477


>gi|270490329|ref|ZP_06207403.1| transcription-repair coupling factor [Yersinia pestis KIM D27]
 gi|270338833|gb|EFA49610.1| transcription-repair coupling factor [Yersinia pestis KIM D27]
          Length = 901

 Score = 39.0 bits (90), Expect = 0.34,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 231 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 282


>gi|56413798|ref|YP_150873.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Paratyphi A str. ATCC 9150]
 gi|197362721|ref|YP_002142358.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Paratyphi A str. AKU_12601]
 gi|56128055|gb|AAV77561.1| transcription-repair coupling factor (TrcF) [Salmonella enterica
           subsp. enterica serovar Paratyphi A str. ATCC 9150]
 gi|197094198|emb|CAR59702.1| transcription-repair coupling factor (TrcF) [Salmonella enterica
           subsp. enterica serovar Paratyphi A str. AKU_12601]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|315932222|gb|EFV11165.1| carD-like/TRCF domain protein [Campylobacter jejuni subsp. jejuni
          327]
          Length = 90

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
          + G++IV+  +GVG    ++   ++G K EF  I +      L +PV  
Sbjct: 7  KNGDYIVHEDYGVGKFLGLEMIVISGAKKEFVAIEYQNSD-KLLLPVEN 54


>gi|213649271|ref|ZP_03379324.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. J185]
          Length = 1130

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 461 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 518

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 519 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 561


>gi|168467175|ref|ZP_02701017.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Newport str. SL317]
 gi|195630325|gb|EDX48951.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Newport str. SL317]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|204930833|ref|ZP_03221706.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Javiana str. GA_MM04042433]
 gi|204320292|gb|EDZ05496.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Javiana str. GA_MM04042433]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|168239121|ref|ZP_02664179.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Schwarzengrund str. SL480]
 gi|194738344|ref|YP_002114221.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Schwarzengrund str. CVM19633]
 gi|194713846|gb|ACF93067.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Schwarzengrund str. CVM19633]
 gi|197288100|gb|EDY27487.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Schwarzengrund str. SL480]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|154496044|ref|ZP_02034740.1| hypothetical protein BACCAP_00328 [Bacteroides capillosus ATCC
           29799]
 gi|150274599|gb|EDN01663.1| hypothetical protein BACCAP_00328 [Bacteroides capillosus ATCC
           29799]
          Length = 1169

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    + +  V G++ ++  IA+    + L VP  +   +
Sbjct: 492 SVGDLVVHEHHGIGRYQGMVKMPVDGIQKDYVKIAYAGADV-LYVPATQLDLV 543


>gi|307822340|ref|ZP_07652572.1| transcription-repair coupling factor [Methylobacter tundripaludum
           SV96]
 gi|307736906|gb|EFO07751.1| transcription-repair coupling factor [Methylobacter tundripaludum
           SV96]
          Length = 1155

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
            G  +V+  HGVG    ++  E+ G+  EF  + +      L VPV     IG
Sbjct: 484 IGSPVVHQEHGVGRYLGLQTLEIGGIASEFLTLEYANHD-KLYVPVSSLHVIG 535


>gi|294792288|ref|ZP_06757436.1| transcription-repair coupling factor [Veillonella sp. 6_1_27]
 gi|294457518|gb|EFG25880.1| transcription-repair coupling factor [Veillonella sp. 6_1_27]
          Length = 1098

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+G    +K  E  G+  ++  IA+      L +P      +
Sbjct: 427 PGDYVVHNMHGIGKYIGLKTIETEGIHRDYIEIAYAGTD-KLFLPANNLDQL 477


>gi|168233095|ref|ZP_02658153.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Kentucky str. CDC 191]
 gi|194470858|ref|ZP_03076842.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Kentucky str. CVM29188]
 gi|194457222|gb|EDX46061.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Kentucky str. CVM29188]
 gi|205332729|gb|EDZ19493.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Kentucky str. CDC 191]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|37526705|ref|NP_930049.1| transcription-repair coupling factor [Photorhabdus luminescens
           subsp. laumondii TTO1]
 gi|36786137|emb|CAE15189.1| transcription-repair coupling factor (TRCF) [Photorhabdus
           luminescens subsp. laumondii TTO1]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.35,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R  + +V+  HGVG    +   E  G+K E+ ++++  +   L VPV     I  R    
Sbjct: 477 RPSQPVVHLEHGVGRYQGLTTLEAGGIKAEYLILSYAGND-KLYVPVSSLHLIS-RYAGG 534

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           A      L  + G+A      W++  Q+   K+ 
Sbjct: 535 ADE-NAPLHKLGGEA------WNKARQKAAEKVR 561


>gi|322616592|gb|EFY13501.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315996572]
 gi|322619893|gb|EFY16767.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-1]
 gi|322622461|gb|EFY19306.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-3]
 gi|322629421|gb|EFY26198.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-4]
 gi|322633907|gb|EFY30645.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-1]
 gi|322636838|gb|EFY33541.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-2]
 gi|322641362|gb|EFY38001.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 531954]
 gi|322645127|gb|EFY41656.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. NC_MB110209-0054]
 gi|322652291|gb|EFY48647.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. OH_2009072675]
 gi|322655642|gb|EFY51944.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. CASC_09SCPH15965]
 gi|322660947|gb|EFY57177.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 19N]
 gi|322665467|gb|EFY61655.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 81038-01]
 gi|322667556|gb|EFY63717.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. MD_MDA09249507]
 gi|322673650|gb|EFY69752.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 414877]
 gi|322677576|gb|EFY73640.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 366867]
 gi|322679759|gb|EFY75798.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 413180]
 gi|322687232|gb|EFY83204.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 446600]
 gi|323194018|gb|EFZ79219.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 609458-1]
 gi|323199427|gb|EFZ84520.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 556150-1]
 gi|323208844|gb|EFZ93782.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 507440-20]
 gi|323210654|gb|EFZ95533.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 556152]
 gi|323217818|gb|EGA02533.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB101509-0077]
 gi|323228043|gb|EGA12184.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB110209-0055]
 gi|323229621|gb|EGA13744.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB111609-0052]
 gi|323232846|gb|EGA16942.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009083312]
 gi|323240118|gb|EGA24162.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009085258]
 gi|323242895|gb|EGA26916.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315731156]
 gi|323255555|gb|EGA39314.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008283]
 gi|323261591|gb|EGA45168.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008284]
 gi|323266985|gb|EGA50470.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008285]
 gi|323272089|gb|EGA55503.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008287]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|219872109|ref|YP_002476484.1| transcription-repair coupling factor [Haemophilus parasuis SH0165]
 gi|219692313|gb|ACL33536.1| transcription-repair coupling factor [Haemophilus parasuis SH0165]
          Length = 1217

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  +   L VPV     I  R +  
Sbjct: 552 KIGQAVVHLENGVGRYGGLTTLDAGGIKAEYLVLHYA-NDAKLYVPVASLHLIS-RYIGG 609

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                  L  +  +A      W++  Q+   KI   D+   AE++    + ++Q   ++ 
Sbjct: 610 TDE-NAPLHKLGSEA------WAKTRQKAAEKIR--DV--AAELLDVYAKREAQKGFAFE 658


>gi|170782785|ref|YP_001711119.1| transcription-repair coupling factor [Clavibacter michiganensis
           subsp. sepedonicus]
 gi|169157355|emb|CAQ02542.1| transcription-repair coupling factor [Clavibacter michiganensis
           subsp. sepedonicus]
          Length = 1210

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 18/88 (20%), Positives = 36/88 (40%), Gaps = 13/88 (14%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG-------MKLEFFVIAFDKD 53
           +  ++K        + G+H+V+  HG+G   E+ ++EV+         + E+ VI +   
Sbjct: 504 LATRRKNVVDPLQLKPGDHVVHTTHGIGKFVELTQREVSSGGRDTVKTRREYLVIEYAPS 563

Query: 54  KM-----CLKVPVGKAIDIGMRKLSEAH 76
           K       L VP  +   +  R +    
Sbjct: 564 KRGYPGDKLFVPTDQLDLLS-RYVGGEE 590


>gi|161614554|ref|YP_001588519.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Paratyphi B str. SPB7]
 gi|161363918|gb|ABX67686.1| hypothetical protein SPAB_02303 [Salmonella enterica subsp.
           enterica serovar Paratyphi B str. SPB7]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|16760091|ref|NP_455708.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. CT18]
 gi|29142138|ref|NP_805480.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. Ty2]
 gi|213425039|ref|ZP_03357789.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. E02-1180]
 gi|25290813|pir||AI0644 transcription-repair coupling factor (TrcF) STY1256 [imported] -
           Salmonella enterica subsp. enterica serovar Typhi
           (strain CT18)
 gi|16502385|emb|CAD08340.1| transcription-repair coupling factor (TrcF) [Salmonella enterica
           subsp. enterica serovar Typhi]
 gi|29137767|gb|AAO69329.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. Ty2]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|302871262|ref|YP_003839898.1| transcription-repair coupling factor [Caldicellulosiruptor
           obsidiansis OB47]
 gi|302574121|gb|ADL41912.1| transcription-repair coupling factor [Caldicellulosiruptor
           obsidiansis OB47]
          Length = 1143

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  +G+G     ++  V G   E+  + +  +   L VP      I
Sbjct: 483 KPGDFVVHRTYGIGKFLGFEKITVEGTTKEYVKLEYA-NSSYLYVPTTNLDMI 534


>gi|152978238|ref|YP_001343867.1| transcription-repair coupling factor [Actinobacillus succinogenes
           130Z]
 gi|150839961|gb|ABR73932.1| transcription-repair coupling factor [Actinobacillus succinogenes
           130Z]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 26/128 (20%), Positives = 55/128 (42%), Gaps = 14/128 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R +  
Sbjct: 482 KIGQPVVHLEHGVGRYGGLVTLENGGVKAEYLLLTYA-NDAKLYVPVAGLHLIS-RYVGG 539

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                          ++    WS+  ++   KI   D+   AE++    + ++Q   ++ 
Sbjct: 540 NEETAPL-------HKLGSDAWSKARRKAAEKIR--DV--AAELLDVYAQREAQKGFAFQ 588

Query: 135 -ERQLYES 141
            ER+ +++
Sbjct: 589 YEREEFQA 596


>gi|240950267|ref|ZP_04754546.1| transcription-repair coupling factor [Actinobacillus minor NM305]
 gi|240295244|gb|EER46045.1| transcription-repair coupling factor [Actinobacillus minor NM305]
          Length = 1150

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 26/120 (21%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  +   L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYGGLTTLDAGGIKAEYLVLHYA-NDAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                  L  +  +A      W++  Q+   KI   D+   AE++    + +SQ   ++ 
Sbjct: 542 TDE-NAPLHKLGSEA------WAKTRQKAAEKIR--DV--AAELLDVYAKRESQKGFAFE 590


>gi|16764571|ref|NP_460186.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhimurium str. LT2]
 gi|62179736|ref|YP_216153.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|167991999|ref|ZP_02573098.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar 4,[5],12:i:- str. CVM23701]
 gi|168264274|ref|ZP_02686247.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Hadar str. RI_05P066]
 gi|194446626|ref|YP_002040470.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Newport str. SL254]
 gi|194449956|ref|YP_002045215.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Heidelberg str. SL476]
 gi|197250617|ref|YP_002146826.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Agona str. SL483]
 gi|224584278|ref|YP_002638076.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Paratyphi C strain RKS4594]
 gi|238910964|ref|ZP_04654801.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Tennessee str. CDC07-0191]
 gi|16419734|gb|AAL20145.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhimurium str. LT2]
 gi|62127369|gb|AAX65072.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|194405289|gb|ACF65511.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Newport str. SL254]
 gi|194408260|gb|ACF68479.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Heidelberg str. SL476]
 gi|197214320|gb|ACH51717.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Agona str. SL483]
 gi|205329787|gb|EDZ16551.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar 4,[5],12:i:- str. CVM23701]
 gi|205347253|gb|EDZ33884.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Hadar str. RI_05P066]
 gi|224468805|gb|ACN46635.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Paratyphi C strain RKS4594]
 gi|261246428|emb|CBG24237.1| transcription-repair coupling factor (TrcF) [Salmonella enterica
           subsp. enterica serovar Typhimurium str. D23580]
 gi|267992993|gb|ACY87878.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhimurium str. 14028S]
 gi|301157757|emb|CBW17249.1| transcription-repair coupling factor (TrcF) [Salmonella enterica
           subsp. enterica serovar Typhimurium str. SL1344]
 gi|312912204|dbj|BAJ36178.1| transcriptional repressor UlaR [Salmonella enterica subsp. enterica
           serovar Typhimurium str. T000240]
 gi|322714206|gb|EFZ05777.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. A50]
 gi|323129485|gb|ADX16915.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhimurium str. 4/74]
 gi|332988107|gb|AEF07090.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhimurium str. UK-1]
          Length = 1148

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|187931883|ref|YP_001891868.1| transcription-repair coupling factor [Francisella tularensis subsp.
           mediasiatica FSC147]
 gi|187712792|gb|ACD31089.1| transcription-repair coupling factor [Francisella tularensis subsp.
           mediasiatica FSC147]
          Length = 1141

 Score = 39.0 bits (90), Expect = 0.36,   Method: Composition-based stats.
 Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           + G H+V+  HG+G    ++  E+ G K EF ++ +  +   + VP+     I +
Sbjct: 475 KPGMHVVHIDHGIGRYGGLESIELNGKKDEFILLRYA-NDAKIYVPITSLNLISI 528


>gi|332829530|gb|EGK02179.1| hypothetical protein HMPREF9455_01813 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 1108

 Score = 38.6 bits (89), Expect = 0.37,   Method: Composition-based stats.
 Identities = 22/125 (17%), Positives = 40/125 (32%), Gaps = 26/125 (20%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q F+ G++IV+  HGVG    +   ++ G   E   + +  +                  
Sbjct: 424 QQFQIGDYIVHIDHGVGQFGGLVRSDMNGKMQELIKLIYLNNDSIF-------------- 469

Query: 72  LSEAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
               H + +  K    +    R        W++       K  S  +  IA  +  L+  
Sbjct: 470 -VSLHALHKISKYRGKEGEPPRINKLGTGAWNK----IKEKTKS-KVKDIARDLIQLYAK 523

Query: 126 DSQPE 130
             Q E
Sbjct: 524 RRQEE 528


>gi|207857277|ref|YP_002243928.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Enteritidis str. P125109]
 gi|206709080|emb|CAR33413.1| transcription-repair coupling factor (TrcF) [Salmonella enterica
           subsp. enterica serovar Enteritidis str. P125109]
          Length = 1148

 Score = 38.6 bits (89), Expect = 0.37,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|205353050|ref|YP_002226851.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Gallinarum str. 287/91]
 gi|205272831|emb|CAR37757.1| transcription-repair coupling factor (TrcF) [Salmonella enterica
           subsp. enterica serovar Gallinarum str. 287/91]
 gi|326628129|gb|EGE34472.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Gallinarum str. 9]
          Length = 1148

 Score = 38.6 bits (89), Expect = 0.37,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|168822320|ref|ZP_02834320.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Weltevreden str. HI_N05-537]
 gi|205341236|gb|EDZ28000.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Weltevreden str. HI_N05-537]
 gi|320086344|emb|CBY96117.1| Transcription-repair-coupling factor TRCF; ATP-dependent helicase
           mfd [Salmonella enterica subsp. enterica serovar
           Weltevreden str. 2007-60-3289-1]
          Length = 1148

 Score = 38.6 bits (89), Expect = 0.37,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|198242225|ref|YP_002215922.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Dublin str. CT_02021853]
 gi|197936741|gb|ACH74074.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Dublin str. CT_02021853]
 gi|326623670|gb|EGE30015.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Dublin str. 3246]
          Length = 1148

 Score = 38.6 bits (89), Expect = 0.37,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|197265670|ref|ZP_03165744.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Saintpaul str. SARA23]
 gi|197243925|gb|EDY26545.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Saintpaul str. SARA23]
          Length = 1148

 Score = 38.6 bits (89), Expect = 0.37,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|200390896|ref|ZP_03217507.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Virchow str. SL491]
 gi|199603341|gb|EDZ01887.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Virchow str. SL491]
          Length = 1148

 Score = 38.6 bits (89), Expect = 0.37,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|315452882|ref|YP_004073152.1| transcription-repair coupling factor [Helicobacter felis ATCC
           49179]
 gi|315131934|emb|CBY82562.1| transcription-repair coupling factor [Helicobacter felis ATCC
           49179]
          Length = 988

 Score = 38.6 bits (89), Expect = 0.38,   Method: Composition-based stats.
 Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           G+ +V+  +GVG    + +Q + G   +F  + +      L VPV  
Sbjct: 361 GDFVVHEDYGVGIFQGLVQQNILGSVRDFIALEYQNHD-RLFVPVEN 406


>gi|269926461|ref|YP_003323084.1| transcription-repair coupling factor [Thermobaculum terrenum ATCC
           BAA-798]
 gi|269790121|gb|ACZ42262.1| transcription-repair coupling factor [Thermobaculum terrenum ATCC
           BAA-798]
          Length = 1150

 Score = 38.6 bits (89), Expect = 0.39,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G ++V+  HGV        +  +G + E+ V+ +      L VPV +   I
Sbjct: 481 QPGSYVVHVDHGVAKYVGNVMRGSSGAEREYLVLEYAGGD-RLYVPVDQIDRI 532


>gi|158337270|ref|YP_001518445.1| transcription-repair coupling factor [Acaryochloris marina
           MBIC11017]
 gi|158307511|gb|ABW29128.1| transcription-repair coupling factor [Acaryochloris marina
           MBIC11017]
          Length = 1164

 Score = 38.6 bits (89), Expect = 0.39,   Method: Composition-based stats.
 Identities = 9/56 (16%), Positives = 25/56 (44%), Gaps = 2/56 (3%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
              +K D  +   + G+ +V+  HG+G   +++   +     E+ V+ +    + +
Sbjct: 479 ATSKKVDPNK--LQPGDFVVHRNHGIGKFLKLESLTLNHETREYLVLQYADGTLRV 532


>gi|319408599|emb|CBI82254.1| transcription repair coupling factor [Bartonella schoenbuchensis
           R1]
          Length = 1166

 Score = 38.6 bits (89), Expect = 0.39,   Method: Composition-based stats.
 Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 8/100 (8%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K    AG+  +   I + +    L +PV     +  R    + 
Sbjct: 499 GDIVVHVDHGIGQFIGLKTIMTAGILRDCLEINYAEGD-RLFLPVENIELLS-RY--GSE 554

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
             +  L  + G A   R     R +++  KI  G LI IA
Sbjct: 555 DTDVTLDKLGGVAWQTR---KARLKKHLLKIA-GQLIRIA 590


>gi|284046682|ref|YP_003397022.1| transcription-repair coupling factor [Conexibacter woesei DSM
           14684]
 gi|283950903|gb|ADB53647.1| transcription-repair coupling factor [Conexibacter woesei DSM
           14684]
          Length = 1112

 Score = 38.6 bits (89), Expect = 0.39,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 4/65 (6%)

Query: 6   KRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           +R    + F   RTG+ +V+  HG+        + VAG+  ++  + +         PV 
Sbjct: 435 RRRGALRSFTDLRTGDIVVHEDHGLARFAGFDTKTVAGVTRDYLNLEYAGSDKVFM-PVD 493

Query: 63  KAIDI 67
           +   I
Sbjct: 494 QFAKI 498


>gi|119774467|ref|YP_927207.1| transcription-repair coupling factor [Shewanella amazonensis SB2B]
 gi|119766967|gb|ABL99537.1| transcription-repair coupling factor [Shewanella amazonensis SB2B]
          Length = 1155

 Score = 38.6 bits (89), Expect = 0.39,   Method: Composition-based stats.
 Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HGVG    ++  +  G+  E+  + +      L VPV 
Sbjct: 482 KVGQPVVHLEHGVGLYQGLETLDTGGLVAEYLKLEYAGGD-KLYVPVS 528


>gi|294505877|ref|YP_003569935.1| transcription-repair coupling factor [Salinibacter ruber M8]
 gi|294342205|emb|CBH22983.1| Transcription-repair coupling factor [Salinibacter ruber M8]
          Length = 1298

 Score = 38.6 bits (89), Expect = 0.40,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 45/118 (38%), Gaps = 17/118 (14%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K+  V   + E   + F  + + L V V     +   K +   
Sbjct: 612 GDFVVHVDHGIGRFDGMKKITVRDNQQEAVRLNFADNDV-LYVNVHALHKLN--KYTGKE 668

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             +  L  +  +       W ++ Q    ++         EV RDL +  ++ + S  
Sbjct: 669 GHQPTLTKLGSE------QWEKKKQRTKDQVK--------EVARDLIKLYAKRKASDG 712


>gi|213617524|ref|ZP_03372350.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-2068]
          Length = 240

 Score = 38.6 bits (89), Expect = 0.40,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 107 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 164

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 165 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 207


>gi|213420794|ref|ZP_03353860.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. E01-6750]
          Length = 367

 Score = 38.6 bits (89), Expect = 0.40,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 54  VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 111

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 112 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 154


>gi|26247258|ref|NP_753298.1| transcription-repair coupling factor [Escherichia coli CFT073]
 gi|26107659|gb|AAN79858.1|AE016759_132 Transcription-repair coupling factor [Escherichia coli CFT073]
          Length = 951

 Score = 38.6 bits (89), Expect = 0.40,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 500 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 557

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 558 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 600


>gi|293394425|ref|ZP_06638723.1| hypothetical protein HMPREF0758_2059 [Serratia odorifera DSM 4582]
 gi|291423050|gb|EFE96281.1| hypothetical protein HMPREF0758_2059 [Serratia odorifera DSM 4582]
          Length = 495

 Score = 38.6 bits (89), Expect = 0.40,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 16/87 (18%)

Query: 102 EYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEA 161
              AK+ +G L   A VVR L R                  + R+  E+A  ++I    A
Sbjct: 357 ANLAKLKTGSLAVTAGVVRALQRDPDNAAL-----------VGRLASELAMADTI--ETA 403

Query: 162 ---INLIEVNLSSKSSKTEKSTSENQD 185
                +I   +S  ++  +K   +  D
Sbjct: 404 FLMRRMITTGMSEPNAAAQKVAMQEGD 430


>gi|33865711|ref|NP_897270.1| transcriptional-repair coupling factor [Synechococcus sp. WH 8102]
 gi|33632881|emb|CAE07692.1| Transcriptional-repair coupling factor [Synechococcus sp. WH 8102]
          Length = 1192

 Score = 38.6 bits (89), Expect = 0.40,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 24/56 (42%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                R       R G+ +V+  HG+G    +++  V+G   ++ V+ +    + +
Sbjct: 487 RKAASRTVDPNKMRPGDFVVHRNHGIGRFKAMEKLAVSGDVRDYLVVQYADGLLRV 542


>gi|330445693|ref|ZP_08309345.1| transcription-repair coupling factor [Photobacterium leiognathi
           subsp. mandapamensis svers.1.1.]
 gi|328489884|dbj|GAA03842.1| transcription-repair coupling factor [Photobacterium leiognathi
           subsp. mandapamensis svers.1.1.]
          Length = 1143

 Score = 38.6 bits (89), Expect = 0.41,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+K E+  + + +    L VPV     I
Sbjct: 474 QIGQPVVHIDHGIGRYQGLQTLEAGGIKTEYVTLEY-QGGAKLYVPVASLHLI 525


>gi|323222138|gb|EGA06523.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB102109-0047]
          Length = 1049

 Score = 38.6 bits (89), Expect = 0.41,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 380 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 437

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 438 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 480


>gi|114764341|ref|ZP_01443569.1| transcription-repair coupling factor [Pelagibaca bermudensis
           HTCC2601]
 gi|114543289|gb|EAU46306.1| transcription-repair coupling factor [Roseovarius sp. HTCC2601]
          Length = 1158

 Score = 38.6 bits (89), Expect = 0.41,   Method: Composition-based stats.
 Identities = 20/101 (19%), Positives = 37/101 (36%), Gaps = 9/101 (8%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
              Q    G  +V+  HG+G    ++    AG   E  ++ + +    L +PV       
Sbjct: 478 TEAQSLTPGNLVVHVDHGIGRYQGMEVISAAGAAHECLLLEYAEGA-RLYLPVENIE--- 533

Query: 69  MRKLSEAHFVER-ALKLVRGKA-RVKRTMWSRRAQEYDAKI 107
              L   +  +   L  + G A + K+     R +E   K+
Sbjct: 534 ---LLSRYGHDEGLLDRLGGGAWQAKKARLKERIREMADKL 571


>gi|319937741|ref|ZP_08012144.1| hypothetical protein HMPREF9488_02980 [Coprobacillus sp. 29_1]
 gi|319807176|gb|EFW03790.1| hypothetical protein HMPREF9488_02980 [Coprobacillus sp. 29_1]
          Length = 148

 Score = 38.6 bits (89), Expect = 0.41,   Method: Composition-based stats.
 Identities = 25/156 (16%), Positives = 54/156 (34%), Gaps = 19/156 (12%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKL 72
            +   ++IVY   G+  + E++  +V         I        +            RK+
Sbjct: 1   MYDQNDYIVY-QDGIARVIEVENNQVIIEDYISQEIKNINHHHII------------RKI 47

Query: 73  SEAHFVERALK---LVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
                ++  L+    +R     ++ +     QE   K    D +   +V++ ++  +   
Sbjct: 48  CSLETIKDILERIEFIRTVYAPQKKVLEELYQEAMMKY---DELEWVKVIKSVYVREKMK 104

Query: 130 EKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
           +    ER     A + +  EI+ +  I E E    I
Sbjct: 105 KAYSFERAYRIQAEHFLNSEISILLQIPEEEVNQYI 140


>gi|312128223|ref|YP_003993097.1| transcription-repair coupling factor [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311778242|gb|ADQ07728.1| transcription-repair coupling factor [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 1141

 Score = 38.6 bits (89), Expect = 0.41,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  +G+G     ++  V G   E+  + +  +   L VP      I
Sbjct: 483 KPGDFVVHRTYGIGKFLGFEKITVEGTTKEYVKLEYA-NSSYLYVPTTNLDVI 534


>gi|308050222|ref|YP_003913788.1| transcription-repair coupling factor [Ferrimonas balearica DSM
           9799]
 gi|307632412|gb|ADN76714.1| transcription-repair coupling factor [Ferrimonas balearica DSM
           9799]
          Length = 1156

 Score = 38.6 bits (89), Expect = 0.41,   Method: Composition-based stats.
 Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HG+G    ++  E  G++ EF ++ +      L VPV 
Sbjct: 482 KVGQPVVHLKHGIGRYLGLETLEAGGLESEFLMLEY-GGGSKLYVPVN 528


>gi|261856564|ref|YP_003263847.1| transcription-repair coupling factor [Halothiobacillus neapolitanus
           c2]
 gi|261837033|gb|ACX96800.1| transcription-repair coupling factor [Halothiobacillus neapolitanus
           c2]
          Length = 1159

 Score = 38.6 bits (89), Expect = 0.41,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G  +V+  HGVG    +   E+ G+  EF ++ +  D   L VPV     I
Sbjct: 489 GAPVVHETHGVGRFGGLVTLEMNGLAQEFLILYYAGDD-KLYVPVSSLELI 538


>gi|144897813|emb|CAM74677.1| Transcription-repair coupling factor (superfamily II helicase)
           [Magnetospirillum gryphiswaldense MSR-1]
          Length = 1098

 Score = 38.6 bits (89), Expect = 0.42,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           A       G+ +V+  HG+G    +   +V+G   +   + +D     L VPV    
Sbjct: 424 AEASALAEGDLVVHLEHGIGRYDGLVTLQVSGAPHDCLRVIYDGGD-KLFVPVENIE 479


>gi|212212451|ref|YP_002303387.1| transcription-repair coupling factor [Coxiella burnetii CbuG_Q212]
 gi|212010861|gb|ACJ18242.1| transcription-repair coupling factor [Coxiella burnetii CbuG_Q212]
          Length = 1157

 Score = 38.6 bits (89), Expect = 0.42,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    ++  + +  + E+  + +  +   + VPV  
Sbjct: 493 IGDPVVHIQHGVGRYLGLQTIKTSDQEAEYLTLQYADND-KIYVPVSS 539


>gi|213860062|ref|ZP_03385766.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. M223]
          Length = 919

 Score = 38.6 bits (89), Expect = 0.43,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 251 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 308

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 309 EE-SAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 351


>gi|154503862|ref|ZP_02040922.1| hypothetical protein RUMGNA_01688 [Ruminococcus gnavus ATCC 29149]
 gi|153795461|gb|EDN77881.1| hypothetical protein RUMGNA_01688 [Ruminococcus gnavus ATCC 29149]
          Length = 1121

 Score = 38.6 bits (89), Expect = 0.43,   Method: Composition-based stats.
 Identities = 9/39 (23%), Positives = 22/39 (56%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           + G+++V+  HG+G    I++ EV  +  ++  I++   
Sbjct: 443 KVGDYVVHENHGLGIYQGIEKIEVDKITKDYMKISYAGG 481


>gi|165923977|ref|ZP_02219809.1| transcription-repair coupling factor [Coxiella burnetii RSA 334]
 gi|165916585|gb|EDR35189.1| transcription-repair coupling factor [Coxiella burnetii RSA 334]
          Length = 1157

 Score = 38.6 bits (89), Expect = 0.43,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    ++  + +  + E+  + +  +   + VPV  
Sbjct: 493 IGDPVVHIQHGVGRYLGLQTIKTSDQEAEYLTLQYADND-KIYVPVSS 539


>gi|161831377|ref|YP_001597022.1| transcription-repair coupling factor [Coxiella burnetii RSA 331]
 gi|161763244|gb|ABX78886.1| transcription-repair coupling factor [Coxiella burnetii RSA 331]
          Length = 1157

 Score = 38.6 bits (89), Expect = 0.43,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    ++  + +  + E+  + +  +   + VPV  
Sbjct: 493 IGDPVVHIQHGVGRYLGLQTIKTSDQEAEYLTLQYADND-KIYVPVSS 539


>gi|167855057|ref|ZP_02477830.1| transcription-repair coupling factor [Haemophilus parasuis 29755]
 gi|167853795|gb|EDS25036.1| transcription-repair coupling factor [Haemophilus parasuis 29755]
          Length = 1149

 Score = 38.6 bits (89), Expect = 0.44,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  +   L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYGGLTTLDAGGIKAEYLVLHYA-NDAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                  L  +  +A      W++  Q+   KI   D+   AE++    + ++Q   ++ 
Sbjct: 542 TDE-NAPLHKLGSEA------WAKTRQKAAEKIR--DV--AAELLDVYAKREAQKGFAFE 590


>gi|157964740|ref|YP_001499564.1| transcription-repair coupling factor [Rickettsia massiliae MTU5]
 gi|157844516|gb|ABV85017.1| Transcription-repair coupling factor [Rickettsia massiliae MTU5]
          Length = 1134

 Score = 38.6 bits (89), Expect = 0.44,   Method: Composition-based stats.
 Identities = 21/119 (17%), Positives = 48/119 (40%), Gaps = 21/119 (17%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKL-EFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
           GE +V+  HG+G   +++  E+ G    +F  I +  +   L +PV          + + 
Sbjct: 472 GEFVVHKDHGIGQFLKLEALEIKGKPQHDFLKILYAGND-KLYIPVESIE------VIKK 524

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +  + A        ++    W +R++    K+       I E+   L +  ++ + + S
Sbjct: 525 YGNDNA-----ELDKLGSVSW-QRSKA---KLK----NRIKEIALHLIQIAAKRKLNSS 570


>gi|154707070|ref|YP_001424606.1| transcription-repair coupling factor [Coxiella burnetii Dugway
           5J108-111]
 gi|154356356|gb|ABS77818.1| transcription-repair coupling factor [Coxiella burnetii Dugway
           5J108-111]
          Length = 1157

 Score = 38.6 bits (89), Expect = 0.44,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    ++  + +  + E+  + +  +   + VPV  
Sbjct: 493 IGDPVVHIQHGVGRYLGLQTIKTSDQEAEYLTLQYADND-KIYVPVSS 539


>gi|124266762|ref|YP_001020766.1| transcription-repair coupling factor [Methylibium petroleiphilum
           PM1]
 gi|124259537|gb|ABM94531.1| transcription-repair coupling factor [Methylibium petroleiphilum
           PM1]
          Length = 1184

 Score = 38.6 bits (89), Expect = 0.45,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    +   ++     EF  + +  DK  L VPV +   I
Sbjct: 512 KVGDPVVHANHGIGRYVGLVNIDLGDGPSEFLHLEYA-DKATLYVPVAQLQLI 563


>gi|71278327|ref|YP_268864.1| transcription-repair coupling factor [Colwellia psychrerythraea
           34H]
 gi|71144067|gb|AAZ24540.1| transcription-repair coupling factor [Colwellia psychrerythraea
           34H]
          Length = 1207

 Score = 38.6 bits (89), Expect = 0.45,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
            G+ +V+  HG+G    ++  E  G+  EF V+++  ++  L VPV     IG
Sbjct: 542 IGQPVVHIEHGIGRYLGLQTIENGGIVTEFLVLSYA-NEAKLYVPVSSLHLIG 593


>gi|42525214|ref|NP_970594.1| transcription-repair coupling factor [Bdellovibrio bacteriovorus
           HD100]
 gi|39577425|emb|CAE81248.1| transcription-repair coupling factor [Bdellovibrio bacteriovorus
           HD100]
          Length = 1172

 Score = 38.6 bits (89), Expect = 0.45,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 4/65 (6%)

Query: 6   KRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           ++ A R  F   + G+ +V+  HG+G    +K   ++G++ E+  + + KDK  L +PV 
Sbjct: 502 QKQAKRLSFGDLKPGDLVVHTKHGIGQYEGLKIMNISGVESEYIQVGY-KDKDKLYLPVY 560

Query: 63  KAIDI 67
           +   +
Sbjct: 561 RVGQL 565


>gi|164685710|ref|ZP_01946737.2| transcription-repair coupling factor [Coxiella burnetii 'MSU Goat
           Q177']
 gi|212218583|ref|YP_002305370.1| transcription-repair coupling factor [Coxiella burnetii CbuK_Q154]
 gi|164601218|gb|EAX32680.2| transcription-repair coupling factor [Coxiella burnetii 'MSU Goat
           Q177']
 gi|212012845|gb|ACJ20225.1| transcription-repair coupling factor [Coxiella burnetii CbuK_Q154]
          Length = 1157

 Score = 38.6 bits (89), Expect = 0.45,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    ++  + +  + E+  + +  +   + VPV  
Sbjct: 493 IGDPVVHIQHGVGRYLGLQTIKTSDQEAEYLTLQYADND-KIYVPVSS 539


>gi|29654454|ref|NP_820146.1| transcription-repair coupling factor [Coxiella burnetii RSA 493]
 gi|29541721|gb|AAO90660.1| transcription-repair coupling factor [Coxiella burnetii RSA 493]
          Length = 1157

 Score = 38.6 bits (89), Expect = 0.45,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    ++  + +  + E+  + +  +   + VPV  
Sbjct: 493 IGDPVVHIQHGVGRYLGLQTIKTSDQEAEYLTLQYADND-KIYVPVSS 539


>gi|313673697|ref|YP_004051808.1| transcription-repair coupling factor [Calditerrivibrio
           nitroreducens DSM 19672]
 gi|312940453|gb|ADR19645.1| transcription-repair coupling factor [Calditerrivibrio
           nitroreducens DSM 19672]
          Length = 1098

 Score = 38.6 bits (89), Expect = 0.46,   Method: Composition-based stats.
 Identities = 13/84 (15%), Positives = 37/84 (44%), Gaps = 9/84 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
             G+++V+  +G+G    ++ + + G++ ++  I ++  ++ L V +       ++K   
Sbjct: 445 EPGDYVVHIDYGIGIFRGLEHKTIGGIEGDYIAIEYEGGEL-LFVSLENI--SHIQKYIG 501

Query: 75  AHFVERALKLVRGKARVKRTMWSR 98
              V   L  ++       T W +
Sbjct: 502 KGDVAVKLNSLQ------NTRWKK 519


>gi|254422402|ref|ZP_05036120.1| transcription-repair coupling factor [Synechococcus sp. PCC 7335]
 gi|196189891|gb|EDX84855.1| transcription-repair coupling factor [Synechococcus sp. PCC 7335]
          Length = 1177

 Score = 38.6 bits (89), Expect = 0.46,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 2/49 (4%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           R  ++IV+  HG+G   +++   V     E+ VI +      L+VPV +
Sbjct: 507 RPKDYIVHRNHGIGQFLKLESLTVDKETREYLVIQYADG--LLRVPVDQ 553


>gi|167468531|ref|ZP_02333235.1| transcription-repair coupling factor [Yersinia pestis FV-1]
          Length = 776

 Score = 38.6 bits (89), Expect = 0.46,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 106 RPGQPVVHLEHGVGRYLGLTTLEAGGIKAEYLILTYAGED-KLYVPVSSLHLI 157


>gi|15639335|ref|NP_218784.1| transcription-repair coupling factor (trcF) [Treponema pallidum
           subsp. pallidum str. Nichols]
 gi|189025577|ref|YP_001933349.1| transcription-repair coupling factor [Treponema pallidum subsp.
           pallidum SS14]
 gi|3322623|gb|AAC65332.1| transcription-repair coupling factor (trcF) [Treponema pallidum
           subsp. pallidum str. Nichols]
 gi|189018152|gb|ACD70770.1| transcription-repair coupling factor [Treponema pallidum subsp.
           pallidum SS14]
          Length = 1140

 Score = 38.6 bits (89), Expect = 0.46,   Method: Composition-based stats.
 Identities = 11/69 (15%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
           + Q+ R      F     G+++V+  +G+G    I+  + A  + ++  + + +++  + 
Sbjct: 461 SVQRARSTPIDTFVELNPGDYVVHAQYGIGLFKGIERIKTAQSERDYVNLLYAQEE-TIL 519

Query: 59  VPVGKAIDI 67
           +P+ +A  +
Sbjct: 520 IPIEQAHLV 528


>gi|291059734|gb|ADD72469.1| transcription-repair coupling factor [Treponema pallidum subsp.
           pallidum str. Chicago]
          Length = 1155

 Score = 38.6 bits (89), Expect = 0.47,   Method: Composition-based stats.
 Identities = 11/69 (15%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
           + Q+ R      F     G+++V+  +G+G    I+  + A  + ++  + + +++  + 
Sbjct: 476 SVQRARSTPIDTFVELNPGDYVVHAQYGIGLFKGIERIKTAQSERDYVNLLYAQEE-TIL 534

Query: 59  VPVGKAIDI 67
           +P+ +A  +
Sbjct: 535 IPIEQAHLV 543


>gi|332885155|gb|EGK05406.1| hypothetical protein HMPREF9456_02607 [Dysgonomonas mossii DSM
           22836]
          Length = 1108

 Score = 38.2 bits (88), Expect = 0.48,   Method: Composition-based stats.
 Identities = 20/126 (15%), Positives = 42/126 (33%), Gaps = 29/126 (23%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q F+ G++IV+  HGVG    +   ++ G   E   + +  + +                
Sbjct: 423 QQFQIGDYIVHIDHGVGQFGGLVRSDMNGKMQELIKLIYLNNDVIF-------------- 468

Query: 72  LSEAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
               H + +  K    +    R        W+        KI       + ++ RDL + 
Sbjct: 469 -VSLHSLHKISKYRGKEGEPPRINKLGTGAWN--------KIKEKTKNKVKDIARDLIQL 519

Query: 126 DSQPEK 131
            ++  +
Sbjct: 520 YAKRRQ 525


>gi|118594716|ref|ZP_01552063.1| transcription-repair coupling factor [Methylophilales bacterium
           HTCC2181]
 gi|118440494|gb|EAV47121.1| transcription-repair coupling factor [Methylophilales bacterium
           HTCC2181]
          Length = 1133

 Score = 38.2 bits (88), Expect = 0.48,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HGVG    + + +      EF V+ +DK    L VPV +   +
Sbjct: 467 SIGDPVVHEQHGVGRYQGLVDLDYGDGMTEFLVLHYDKQD-KLYVPVSQLHLV 518


>gi|213582461|ref|ZP_03364287.1| transcription-repair coupling factor [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-0664]
          Length = 283

 Score = 38.2 bits (88), Expect = 0.49,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 227 VGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLI 277


>gi|219872168|ref|YP_002476543.1| type III restriction enzyme, res subunit [Haemophilus parasuis
           SH0165]
 gi|219692372|gb|ACL33595.1| type III restriction enzyme, res subunit [Haemophilus parasuis
           SH0165]
          Length = 1048

 Score = 38.2 bits (88), Expect = 0.49,   Method: Composition-based stats.
 Identities = 26/152 (17%), Positives = 55/152 (36%), Gaps = 27/152 (17%)

Query: 29  TITEIKEQEVAGMKLEFFVIAFDKDK------MCLKVPVGKAIDIGMRKLSEAHFVERAL 82
           T+  I+ Q ++G     ++   +  K      + L++         +RK+S+   +    
Sbjct: 301 TVKGIEVQNLSGTSGYLYLENIEISKSLPIARLELEIATKNGFKREIRKISKGDNLFEIT 360

Query: 83  KLVR-GKARVKRTMWSRRAQE------YDAKINSG----DLIAIAEVVRDLHRTDSQPEK 131
           K  +  +  V+        +E         KI+ G    D+   A  VR +   ++    
Sbjct: 361 KAQQYHRYVVEDIN----FRESTVYFTNGVKIHIGEALGDVNETA--VRTIQIRETIRSH 414

Query: 132 SYSERQLYESALNRM----VREIAAVNSISEP 159
              ERQL++  +  +    + E+A      E 
Sbjct: 415 LIKERQLFDRGIKVLSLFFIDEVAKYRQYDED 446


>gi|222112255|ref|YP_002554519.1| flagellin domain-containing protein [Acidovorax ebreus TPSY]
 gi|221731699|gb|ACM34519.1| flagellin domain protein [Acidovorax ebreus TPSY]
          Length = 490

 Score = 38.2 bits (88), Expect = 0.50,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 30/59 (50%), Gaps = 3/59 (5%)

Query: 108 NSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIE 166
            SGD++     VR+L    +    S S+RQ  ++ + ++V E+  ++  +E     L++
Sbjct: 84  ASGDILQR---VRELAVQSANASNSASDRQALQAEVGQLVSELDRISQTTEFNGTKLLD 139


>gi|269977848|ref|ZP_06184804.1| crispr-associated protein, Csn1 family [Mobiluncus mulieris 28-1]
 gi|269933928|gb|EEZ90506.1| crispr-associated protein, Csn1 family [Mobiluncus mulieris 28-1]
          Length = 1091

 Score = 38.2 bits (88), Expect = 0.50,   Method: Composition-based stats.
 Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 11/87 (12%)

Query: 108 NSGDLIA----IAEVVRDLHRTDSQPE----KSYSERQLYESALNRMVREIAAVNSISEP 159
            +GD+ +     AEV+ DL             S   RQ  ++A     R+IA+V  I + 
Sbjct: 168 KTGDVFSDDATPAEVLVDLMGRQKVRGADGVLSGKLRQS-DNANEL--RKIASVQGIDDE 224

Query: 160 EAINLIEVNLSSKSSKTEKSTSENQDK 186
               +I+   SSKS K + S     D 
Sbjct: 225 TLNRIIDRVFSSKSPKGKASERVGMDA 251


>gi|91793030|ref|YP_562681.1| transcription-repair coupling factor [Shewanella denitrificans
           OS217]
 gi|91715032|gb|ABE54958.1| transcription-repair coupling factor [Shewanella denitrificans
           OS217]
          Length = 1179

 Score = 38.2 bits (88), Expect = 0.50,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 31/78 (39%), Gaps = 12/78 (15%)

Query: 1   MTFQQKRDAMRQ-----------GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA 49
           +  Q++RD  +Q             + G+ IV+  HGV     ++  +  G+  E+  + 
Sbjct: 482 IAQQRRRDKQKQVSSDALIKDLAELKVGQAIVHLEHGVALYQGLETLDTGGLVAEYLKLE 541

Query: 50  FDKDKMCLKVPVGKAIDI 67
           +      L VPV     I
Sbjct: 542 YAGGD-KLYVPVSSLHLI 558


>gi|307700167|ref|ZP_07637211.1| CRISPR-associated protein, Csn1 family [Mobiluncus mulieris
           FB024-16]
 gi|307614650|gb|EFN93875.1| CRISPR-associated protein, Csn1 family [Mobiluncus mulieris
           FB024-16]
          Length = 1091

 Score = 38.2 bits (88), Expect = 0.50,   Method: Composition-based stats.
 Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 11/87 (12%)

Query: 108 NSGDLIA----IAEVVRDLHRTDSQPE----KSYSERQLYESALNRMVREIAAVNSISEP 159
            +GD+ +     AEV+ DL             S   RQ  ++A     R+IA+V  I + 
Sbjct: 168 KTGDVFSDDATPAEVLVDLMGRQKVRGADGVLSGKLRQS-DNANEL--RKIASVQGIDDE 224

Query: 160 EAINLIEVNLSSKSSKTEKSTSENQDK 186
               +I+   SSKS K + S     D 
Sbjct: 225 TLNRIIDRVFSSKSPKGKASERVGMDA 251


>gi|213692705|ref|YP_002323291.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           infantis ATCC 15697]
 gi|213524166|gb|ACJ52913.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           infantis ATCC 15697]
 gi|320458861|dbj|BAJ69482.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           infantis ATCC 15697]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|170020491|ref|YP_001725445.1| transcription-repair coupling factor [Escherichia coli ATCC 8739]
 gi|169755419|gb|ACA78118.1| transcription-repair coupling factor [Escherichia coli ATCC 8739]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|323976513|gb|EGB71601.1| transcription-repair coupling protein [Escherichia coli TW10509]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|323953199|gb|EGB49065.1| transcription-repair coupling protein [Escherichia coli H252]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|323185763|gb|EFZ71124.1| transcription-repair coupling factor [Escherichia coli 1357]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|312623038|ref|YP_004024651.1| transcription-repair coupling factor [Caldicellulosiruptor
           kronotskyensis 2002]
 gi|312203505|gb|ADQ46832.1| transcription-repair coupling factor [Caldicellulosiruptor
           kronotskyensis 2002]
          Length = 1141

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  +G+G     ++  V G   E+  + +  +   L VP      I
Sbjct: 483 KPGDFVVHRTYGIGKFLGFEKITVEGTTKEYVKLEYA-NSSYLYVPTTNLDVI 534


>gi|229829380|ref|ZP_04455449.1| hypothetical protein GCWU000342_01469 [Shuttleworthia satelles DSM
           14600]
 gi|229792543|gb|EEP28657.1| hypothetical protein GCWU000342_01469 [Shuttleworthia satelles DSM
           14600]
          Length = 395

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 37/103 (35%), Gaps = 22/103 (21%)

Query: 99  RAQEYDAKINSGDLIAIAEV----------VRDLHRTDSQPEKSYSER----QLYESALN 144
           R +  +    +G+L  + EV          +++L +     E S  ER    QL      
Sbjct: 65  RRRTLENIARAGNLEELNEVRLTVLGKRGELKELMKG--MRELSAEERPKFGQLVNDVRQ 122

Query: 145 RMVREIAAVNSISEPE------AINLIEVNLSSKSSKTEKSTS 181
            + +E+A   S  E E      A   I+V L +K  K      
Sbjct: 123 MVEQELADRKSKMEEELLNRKLASETIDVTLPAKKIKLGHRHP 165


>gi|90109237|pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
           Coupling Factor
 gi|90109238|pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
           Coupling Factor
          Length = 1151

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 482 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 539

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 540 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 582


>gi|188491808|ref|ZP_02999078.1| transcription-repair coupling factor [Escherichia coli 53638]
 gi|188487007|gb|EDU62110.1| transcription-repair coupling factor [Escherichia coli 53638]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.52,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|331682620|ref|ZP_08383239.1| transcription-repair coupling factor [Escherichia coli H299]
 gi|331080251|gb|EGI51430.1| transcription-repair coupling factor [Escherichia coli H299]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|331652166|ref|ZP_08353185.1| transcription-repair coupling factor [Escherichia coli M718]
 gi|331050444|gb|EGI22502.1| transcription-repair coupling factor [Escherichia coli M718]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|323175654|gb|EFZ61248.1| transcription-repair coupling factor [Escherichia coli 1180]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|315287490|gb|EFU46901.1| transcription-repair coupling factor [Escherichia coli MS 110-3]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|315135746|dbj|BAJ42905.1| transcription-repair coupling factor [Escherichia coli DH1]
          Length = 1169

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 500 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 557

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 558 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 600


>gi|300938685|ref|ZP_07153409.1| transcription-repair coupling factor [Escherichia coli MS 21-1]
 gi|300456330|gb|EFK19823.1| transcription-repair coupling factor [Escherichia coli MS 21-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|300917885|ref|ZP_07134518.1| transcription-repair coupling factor [Escherichia coli MS 115-1]
 gi|300414875|gb|EFJ98185.1| transcription-repair coupling factor [Escherichia coli MS 115-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|300816816|ref|ZP_07097036.1| transcription-repair coupling factor [Escherichia coli MS 107-1]
 gi|300902508|ref|ZP_07120488.1| transcription-repair coupling factor [Escherichia coli MS 84-1]
 gi|301305647|ref|ZP_07211736.1| transcription-repair coupling factor [Escherichia coli MS 124-1]
 gi|309796542|ref|ZP_07690949.1| transcription-repair coupling factor [Escherichia coli MS 145-7]
 gi|300405409|gb|EFJ88947.1| transcription-repair coupling factor [Escherichia coli MS 84-1]
 gi|300530590|gb|EFK51652.1| transcription-repair coupling factor [Escherichia coli MS 107-1]
 gi|300839075|gb|EFK66835.1| transcription-repair coupling factor [Escherichia coli MS 124-1]
 gi|308119854|gb|EFO57116.1| transcription-repair coupling factor [Escherichia coli MS 145-7]
 gi|315253014|gb|EFU32982.1| transcription-repair coupling factor [Escherichia coli MS 85-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|215486325|ref|YP_002328756.1| transcription-repair coupling factor [Escherichia coli O127:H6 str.
           E2348/69]
 gi|312968807|ref|ZP_07783014.1| transcription-repair coupling factor [Escherichia coli 2362-75]
 gi|215264397|emb|CAS08754.1| transcription-repair coupling factor [Escherichia coli O127:H6 str.
           E2348/69]
 gi|312286209|gb|EFR14122.1| transcription-repair coupling factor [Escherichia coli 2362-75]
 gi|323190466|gb|EFZ75740.1| transcription-repair coupling factor [Escherichia coli RN587/1]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|194433692|ref|ZP_03065968.1| transcription-repair coupling factor [Shigella dysenteriae 1012]
 gi|194418121|gb|EDX34214.1| transcription-repair coupling factor [Shigella dysenteriae 1012]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|82544418|ref|YP_408365.1| transcription-repair coupling factor [Shigella boydii Sb227]
 gi|81245829|gb|ABB66537.1| transcription-repair coupling factor [Shigella boydii Sb227]
 gi|320175622|gb|EFW50714.1| Transcription-repair coupling factor [Shigella dysenteriae CDC
           74-1112]
 gi|320184241|gb|EFW59055.1| Transcription-repair coupling factor [Shigella flexneri CDC 796-83]
 gi|332094450|gb|EGI99499.1| transcription-repair coupling factor [Shigella boydii 3594-74]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|333004926|gb|EGK24446.1| transcription-repair coupling factor [Shigella flexneri VA-6]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|332279698|ref|ZP_08392111.1| transcription-repair coupling factor [Shigella sp. D9]
 gi|332102050|gb|EGJ05396.1| transcription-repair coupling factor [Shigella sp. D9]
          Length = 1169

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 500 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 557

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 558 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 600


>gi|332092875|gb|EGI97943.1| transcription-repair coupling factor [Shigella dysenteriae 155-74]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|332089282|gb|EGI94388.1| transcription-repair coupling factor [Shigella boydii 5216-82]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|331672629|ref|ZP_08373418.1| transcription-repair coupling factor [Escherichia coli TA280]
 gi|331070272|gb|EGI41638.1| transcription-repair coupling factor [Escherichia coli TA280]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|325497055|gb|EGC94914.1| transcription-repair coupling factor [Escherichia fergusonii
           ECD227]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|324113535|gb|EGC07510.1| transcription-repair coupling protein [Escherichia fergusonii B253]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|324005970|gb|EGB75189.1| transcription-repair coupling factor [Escherichia coli MS 57-2]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|323967055|gb|EGB62481.1| transcription-repair coupling protein [Escherichia coli M863]
 gi|327253513|gb|EGE65151.1| transcription-repair coupling factor [Escherichia coli STEC_7v]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|320179184|gb|EFW54142.1| Transcription-repair coupling factor [Shigella boydii ATCC 9905]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|315296619|gb|EFU55914.1| transcription-repair coupling factor [Escherichia coli MS 16-3]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|330910930|gb|EGH39440.1| transcription-repair coupling factor [Escherichia coli AA86]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|301328512|ref|ZP_07221578.1| transcription-repair coupling factor [Escherichia coli MS 78-1]
 gi|307310109|ref|ZP_07589759.1| transcription-repair coupling factor [Escherichia coli W]
 gi|300845119|gb|EFK72879.1| transcription-repair coupling factor [Escherichia coli MS 78-1]
 gi|306909827|gb|EFN40321.1| transcription-repair coupling factor [Escherichia coli W]
 gi|315060391|gb|ADT74718.1| transcription-repair coupling factor [Escherichia coli W]
 gi|323379049|gb|ADX51317.1| transcription-repair coupling factor [Escherichia coli KO11]
 gi|324017516|gb|EGB86735.1| transcription-repair coupling factor [Escherichia coli MS 117-3]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|300821105|ref|ZP_07101254.1| transcription-repair coupling factor [Escherichia coli MS 119-7]
 gi|331676906|ref|ZP_08377602.1| transcription-repair coupling factor [Escherichia coli H591]
 gi|300526404|gb|EFK47473.1| transcription-repair coupling factor [Escherichia coli MS 119-7]
 gi|331075595|gb|EGI46893.1| transcription-repair coupling factor [Escherichia coli H591]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|300928331|ref|ZP_07143866.1| transcription-repair coupling factor [Escherichia coli MS 187-1]
 gi|300463663|gb|EFK27156.1| transcription-repair coupling factor [Escherichia coli MS 187-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|301023324|ref|ZP_07187117.1| transcription-repair coupling factor [Escherichia coli MS 69-1]
 gi|300397049|gb|EFJ80587.1| transcription-repair coupling factor [Escherichia coli MS 69-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|301029579|ref|ZP_07192657.1| transcription-repair coupling factor [Escherichia coli MS 196-1]
 gi|299877574|gb|EFI85785.1| transcription-repair coupling factor [Escherichia coli MS 196-1]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|293404403|ref|ZP_06648397.1| transcription-repair coupling factor [Escherichia coli FVEC1412]
 gi|298380180|ref|ZP_06989785.1| transcription-repair coupling factor [Escherichia coli FVEC1302]
 gi|300896877|ref|ZP_07115367.1| transcription-repair coupling factor [Escherichia coli MS 198-1]
 gi|291428989|gb|EFF02014.1| transcription-repair coupling factor [Escherichia coli FVEC1412]
 gi|298279878|gb|EFI21386.1| transcription-repair coupling factor [Escherichia coli FVEC1302]
 gi|300359284|gb|EFJ75154.1| transcription-repair coupling factor [Escherichia coli MS 198-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|293433403|ref|ZP_06661831.1| transcription-repair coupling factor [Escherichia coli B088]
 gi|331667514|ref|ZP_08368378.1| transcription-repair coupling factor [Escherichia coli TA271]
 gi|291324222|gb|EFE63644.1| transcription-repair coupling factor [Escherichia coli B088]
 gi|320201009|gb|EFW75593.1| Transcription-repair coupling factor [Escherichia coli EC4100B]
 gi|331065099|gb|EGI36994.1| transcription-repair coupling factor [Escherichia coli TA271]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|284920939|emb|CBG34002.1| transcription-repair coupling factor [Escherichia coli 042]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|281600530|gb|ADA73514.1| Transcription-repair coupling factor [Shigella flexneri 2002017]
          Length = 1169

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 500 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 557

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 558 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 600


>gi|300948704|ref|ZP_07162781.1| transcription-repair coupling factor [Escherichia coli MS 116-1]
 gi|300956220|ref|ZP_07168532.1| transcription-repair coupling factor [Escherichia coli MS 175-1]
 gi|301644530|ref|ZP_07244523.1| transcription-repair coupling factor [Escherichia coli MS 146-1]
 gi|331641657|ref|ZP_08342792.1| transcription-repair coupling factor [Escherichia coli H736]
 gi|260449747|gb|ACX40169.1| transcription-repair coupling factor [Escherichia coli DH1]
 gi|300316948|gb|EFJ66732.1| transcription-repair coupling factor [Escherichia coli MS 175-1]
 gi|300451798|gb|EFK15418.1| transcription-repair coupling factor [Escherichia coli MS 116-1]
 gi|301077112|gb|EFK91918.1| transcription-repair coupling factor [Escherichia coli MS 146-1]
 gi|331038455|gb|EGI10675.1| transcription-repair coupling factor [Escherichia coli H736]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|253773863|ref|YP_003036694.1| transcription-repair coupling factor [Escherichia coli
           'BL21-Gold(DE3)pLysS AG']
 gi|253324907|gb|ACT29509.1| transcription-repair coupling factor [Escherichia coli
           'BL21-Gold(DE3)pLysS AG']
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|222032867|emb|CAP75606.1| Transcription-repair-coupling factor [Escherichia coli LF82]
 gi|312945676|gb|ADR26503.1| transcription-repair coupling factor [Escherichia coli O83:H1 str.
           NRG 857C]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|218689066|ref|YP_002397278.1| transcription-repair coupling factor [Escherichia coli ED1a]
 gi|218426630|emb|CAR07458.1| transcription-repair coupling factor [Escherichia coli ED1a]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|218557995|ref|YP_002390908.1| transcription-repair coupling factor [Escherichia coli S88]
 gi|218364764|emb|CAR02454.1| transcription-repair coupling factor [Escherichia coli S88]
 gi|294491241|gb|ADE89997.1| transcription-repair coupling factor [Escherichia coli IHE3034]
 gi|307627415|gb|ADN71719.1| transcription-repair coupling factor [Escherichia coli UM146]
 gi|323957940|gb|EGB53652.1| transcription-repair coupling protein [Escherichia coli H263]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|218548644|ref|YP_002382435.1| transcription-repair coupling factor [Escherichia fergusonii ATCC
           35469]
 gi|218356185|emb|CAQ88802.1| transcription-repair coupling factor [Escherichia fergusonii ATCC
           35469]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|170768251|ref|ZP_02902704.1| transcription-repair coupling factor [Escherichia albertii TW07627]
 gi|170123017|gb|EDS91948.1| transcription-repair coupling factor [Escherichia albertii TW07627]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|170682845|ref|YP_001744064.1| transcription-repair coupling factor [Escherichia coli SMS-3-5]
 gi|170520563|gb|ACB18741.1| transcription-repair coupling factor [Escherichia coli SMS-3-5]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|117623299|ref|YP_852212.1| transcription-repair coupling factor [Escherichia coli APEC O1]
 gi|115512423|gb|ABJ00498.1| transcription-repair coupling factor; mutation frequency decline
           [Escherichia coli APEC O1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|110641290|ref|YP_669020.1| transcription-repair coupling factor [Escherichia coli 536]
 gi|300982404|ref|ZP_07176102.1| transcription-repair coupling factor [Escherichia coli MS 200-1]
 gi|110342882|gb|ABG69119.1| transcription-repair coupling factor [Escherichia coli 536]
 gi|300307241|gb|EFJ61761.1| transcription-repair coupling factor [Escherichia coli MS 200-1]
 gi|324013204|gb|EGB82423.1| transcription-repair coupling factor [Escherichia coli MS 60-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|91210269|ref|YP_540255.1| transcription-repair coupling factor [Escherichia coli UTI89]
 gi|237706900|ref|ZP_04537381.1| transcription-repair coupling factor [Escherichia sp. 3_2_53FAA]
 gi|91071843|gb|ABE06724.1| transcription-repair coupling factor; mutation frequency decline
           [Escherichia coli UTI89]
 gi|226898110|gb|EEH84369.1| transcription-repair coupling factor [Escherichia sp. 3_2_53FAA]
          Length = 1169

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 500 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 557

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 558 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 600


>gi|74311675|ref|YP_310094.1| transcription-repair coupling factor [Shigella sonnei Ss046]
 gi|73855152|gb|AAZ87859.1| transcription-repair coupling factor [Shigella sonnei Ss046]
 gi|323165624|gb|EFZ51411.1| transcription-repair coupling factor [Shigella sonnei 53G]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|30062647|ref|NP_836818.1| transcription-repair coupling factor [Shigella flexneri 2a str.
           2457T]
 gi|30040893|gb|AAP16624.1| transcription-repair coupling factor [Shigella flexneri 2a str.
           2457T]
 gi|313650430|gb|EFS14837.1| transcription-repair coupling factor [Shigella flexneri 2a str.
           2457T]
 gi|332758277|gb|EGJ88600.1| transcription-repair coupling factor [Shigella flexneri 4343-70]
 gi|332759433|gb|EGJ89741.1| transcription-repair coupling factor [Shigella flexneri 2747-71]
 gi|332761054|gb|EGJ91341.1| transcription-repair coupling factor [Shigella flexneri K-671]
 gi|332767336|gb|EGJ97530.1| transcription-repair coupling factor [Shigella flexneri 2930-71]
 gi|333005518|gb|EGK25036.1| transcription-repair coupling factor [Shigella flexneri K-218]
 gi|333019350|gb|EGK38633.1| transcription-repair coupling factor [Shigella flexneri K-304]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|15830746|ref|NP_309519.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           Sakai]
 gi|168751336|ref|ZP_02776358.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4113]
 gi|168757829|ref|ZP_02782836.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4401]
 gi|168764889|ref|ZP_02789896.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4501]
 gi|168771340|ref|ZP_02796347.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4486]
 gi|168783484|ref|ZP_02808491.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4076]
 gi|168790092|ref|ZP_02815099.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC869]
 gi|168802501|ref|ZP_02827508.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC508]
 gi|195938873|ref|ZP_03084255.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4024]
 gi|208809609|ref|ZP_03251946.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4206]
 gi|208815000|ref|ZP_03256179.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4045]
 gi|208822485|ref|ZP_03262804.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4042]
 gi|209399391|ref|YP_002269959.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4115]
 gi|217328545|ref|ZP_03444627.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           TW14588]
 gi|254792497|ref|YP_003077334.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           TW14359]
 gi|261226982|ref|ZP_05941263.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           FRIK2000]
 gi|261256216|ref|ZP_05948749.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           FRIK966]
 gi|291282134|ref|YP_003498952.1| transcription-repair coupling factor [Escherichia coli O55:H7 str.
           CB9615]
 gi|13360956|dbj|BAB34915.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           Sakai]
 gi|188014612|gb|EDU52734.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4113]
 gi|188999153|gb|EDU68139.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4076]
 gi|189355265|gb|EDU73684.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4401]
 gi|189359855|gb|EDU78274.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4486]
 gi|189365183|gb|EDU83599.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4501]
 gi|189370352|gb|EDU88768.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC869]
 gi|189375509|gb|EDU93925.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC508]
 gi|208729410|gb|EDZ79011.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4206]
 gi|208731648|gb|EDZ80336.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4045]
 gi|208737970|gb|EDZ85653.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4042]
 gi|209160791|gb|ACI38224.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC4115]
 gi|209772998|gb|ACI84811.1| transcription-repair coupling factor [Escherichia coli]
 gi|209773000|gb|ACI84812.1| transcription-repair coupling factor [Escherichia coli]
 gi|209773004|gb|ACI84814.1| transcription-repair coupling factor [Escherichia coli]
 gi|209773006|gb|ACI84815.1| transcription-repair coupling factor [Escherichia coli]
 gi|217318972|gb|EEC27398.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           TW14588]
 gi|254591897|gb|ACT71258.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           TW14359]
 gi|290762007|gb|ADD55968.1| transcription-repair coupling factor [Escherichia coli O55:H7 str.
           CB9615]
 gi|320188121|gb|EFW62786.1| Transcription-repair coupling factor [Escherichia coli O157:H7 str.
           EC1212]
 gi|320637565|gb|EFX07365.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           G5101]
 gi|320643126|gb|EFX12327.1| transcription-repair coupling factor [Escherichia coli O157:H- str.
           493-89]
 gi|320648584|gb|EFX17239.1| transcription-repair coupling factor [Escherichia coli O157:H- str.
           H 2687]
 gi|320653898|gb|EFX21972.1| transcription-repair coupling factor [Escherichia coli O55:H7 str.
           3256-97 TW 07815]
 gi|320659379|gb|EFX26948.1| transcription-repair coupling factor [Escherichia coli O55:H7 str.
           USDA 5905]
 gi|320664514|gb|EFX31665.1| transcription-repair coupling factor [Escherichia coli O157:H7 str.
           LSU-61]
 gi|326340418|gb|EGD64221.1| Transcription-repair coupling factor [Escherichia coli O157:H7 str.
           1044]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|16129077|ref|NP_415632.1| transcription-repair coupling factor [Escherichia coli str. K-12
           substr. MG1655]
 gi|89107960|ref|AP_001740.1| transcription-repair coupling factor [Escherichia coli str. K-12
           substr. W3110]
 gi|170080765|ref|YP_001730085.1| transcription-repair coupling factor [Escherichia coli str. K-12
           substr. DH10B]
 gi|238900368|ref|YP_002926164.1| transcription-repair coupling factor [Escherichia coli BW2952]
 gi|256023188|ref|ZP_05437053.1| transcription-repair coupling factor [Escherichia sp. 4_1_40B]
 gi|307137749|ref|ZP_07497105.1| transcription-repair coupling factor [Escherichia coli H736]
 gi|2507063|sp|P30958|MFD_ECOLI RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|1651547|dbj|BAA35929.1| transcription-repair coupling factor [Escherichia coli str. K12
           substr. W3110]
 gi|1787357|gb|AAC74198.1| transcription-repair coupling factor [Escherichia coli str. K-12
           substr. MG1655]
 gi|169888600|gb|ACB02307.1| transcription-repair coupling factor [Escherichia coli str. K-12
           substr. DH10B]
 gi|238863683|gb|ACR65681.1| transcription-repair coupling factor [Escherichia coli BW2952]
 gi|309701385|emb|CBJ00686.1| transcription-repair coupling factor [Escherichia coli ETEC H10407]
 gi|323937854|gb|EGB34118.1| transcription-repair coupling protein [Escherichia coli E1520]
 gi|323942583|gb|EGB38750.1| transcription-repair coupling protein [Escherichia coli E482]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|191168584|ref|ZP_03030368.1| transcription-repair coupling factor [Escherichia coli B7A]
 gi|209918370|ref|YP_002292454.1| transcription-repair coupling factor [Escherichia coli SE11]
 gi|218553691|ref|YP_002386604.1| transcription-repair coupling factor [Escherichia coli IAI1]
 gi|218694647|ref|YP_002402314.1| transcription-repair coupling factor [Escherichia coli 55989]
 gi|260854597|ref|YP_003228488.1| transcription-repair coupling factor Mfd [Escherichia coli O26:H11
           str. 11368]
 gi|190901378|gb|EDV61143.1| transcription-repair coupling factor [Escherichia coli B7A]
 gi|209911629|dbj|BAG76703.1| transcription-repair coupling factor [Escherichia coli SE11]
 gi|218351379|emb|CAU97085.1| transcription-repair coupling factor [Escherichia coli 55989]
 gi|218360459|emb|CAQ98013.1| transcription-repair coupling factor [Escherichia coli IAI1]
 gi|257753246|dbj|BAI24748.1| transcription-repair coupling factor Mfd [Escherichia coli O26:H11
           str. 11368]
 gi|323156751|gb|EFZ42887.1| transcription-repair coupling factor [Escherichia coli EPECa14]
 gi|323175269|gb|EFZ60882.1| transcription-repair coupling factor [Escherichia coli LT-68]
 gi|323947582|gb|EGB43586.1| transcription-repair coupling protein [Escherichia coli H120]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|193066296|ref|ZP_03047347.1| transcription-repair coupling factor [Escherichia coli E22]
 gi|194429791|ref|ZP_03062305.1| transcription-repair coupling factor [Escherichia coli B171]
 gi|260843354|ref|YP_003221132.1| transcription-repair coupling factor Mfd [Escherichia coli O103:H2
           str. 12009]
 gi|192926068|gb|EDV80711.1| transcription-repair coupling factor [Escherichia coli E22]
 gi|194412138|gb|EDX28446.1| transcription-repair coupling factor [Escherichia coli B171]
 gi|257758501|dbj|BAI29998.1| transcription-repair coupling factor Mfd [Escherichia coli O103:H2
           str. 12009]
 gi|323163658|gb|EFZ49480.1| transcription-repair coupling factor [Escherichia coli E128010]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|187730283|ref|YP_001880716.1| transcription-repair coupling factor [Shigella boydii CDC 3083-94]
 gi|187427275|gb|ACD06549.1| transcription-repair coupling factor [Shigella boydii CDC 3083-94]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|333008322|gb|EGK27796.1| transcription-repair coupling factor [Shigella flexneri K-272]
 gi|333019810|gb|EGK39082.1| transcription-repair coupling factor [Shigella flexneri K-227]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|260867476|ref|YP_003233878.1| transcription-repair coupling factor Mfd [Escherichia coli O111:H-
           str. 11128]
 gi|257763832|dbj|BAI35327.1| transcription-repair coupling factor Mfd [Escherichia coli O111:H-
           str. 11128]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|256018630|ref|ZP_05432495.1| transcription-repair coupling factor [Shigella sp. D9]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|209773002|gb|ACI84813.1| transcription-repair coupling factor [Escherichia coli]
 gi|326339337|gb|EGD63151.1| Transcription-repair coupling factor [Escherichia coli O157:H7 str.
           1125]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|227886529|ref|ZP_04004334.1| transcription-repair coupling factor TRCF [Escherichia coli 83972]
 gi|301051097|ref|ZP_07197931.1| transcription-repair coupling factor [Escherichia coli MS 185-1]
 gi|227836733|gb|EEJ47199.1| transcription-repair coupling factor TRCF [Escherichia coli 83972]
 gi|300297269|gb|EFJ53654.1| transcription-repair coupling factor [Escherichia coli MS 185-1]
 gi|307553115|gb|ADN45890.1| transcription-repair coupling factor [Escherichia coli ABU 83972]
 gi|315291014|gb|EFU50379.1| transcription-repair coupling factor [Escherichia coli MS 153-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|299362|gb|AAB26029.1| Mfd protein, transcription repair coupling factor, TRCF=mfd product
           [Escherichia coli, Peptide, 1148 aa]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.53,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|331646372|ref|ZP_08347475.1| transcription-repair coupling factor [Escherichia coli M605]
 gi|331045124|gb|EGI17251.1| transcription-repair coupling factor [Escherichia coli M605]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|315618286|gb|EFU98876.1| transcription-repair coupling factor [Escherichia coli 3431]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|306814036|ref|ZP_07448209.1| transcription-repair coupling factor [Escherichia coli NC101]
 gi|305852673|gb|EFM53121.1| transcription-repair coupling factor [Escherichia coli NC101]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|300922643|ref|ZP_07138740.1| transcription-repair coupling factor [Escherichia coli MS 182-1]
 gi|300420992|gb|EFK04303.1| transcription-repair coupling factor [Escherichia coli MS 182-1]
          Length = 1164

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 595


>gi|283954648|ref|ZP_06372166.1| LOW QUALITY PROTEIN: transcription-repair coupling factor
          [Campylobacter jejuni subsp. jejuni 414]
 gi|283793840|gb|EFC32591.1| LOW QUALITY PROTEIN: transcription-repair coupling factor
          [Campylobacter jejuni subsp. jejuni 414]
          Length = 640

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
          + G++IV+  +GVG    ++   V+G K EF  I +      L +PV  
Sbjct: 7  KNGDYIVHEDYGVGKFLGLEMIVVSGSKKEFVAIEYQNSD-KLLLPVEN 54


>gi|281178224|dbj|BAI54554.1| transcription-repair coupling factor [Escherichia coli SE15]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|254161220|ref|YP_003044328.1| transcription-repair coupling factor [Escherichia coli B str.
           REL606]
 gi|242376916|emb|CAQ31635.1| transcription-repair coupling factor [Escherichia coli BL21(DE3)]
 gi|253973121|gb|ACT38792.1| transcription-repair coupling factor [Escherichia coli B str.
           REL606]
 gi|253977335|gb|ACT43005.1| transcription-repair coupling factor [Escherichia coli BL21(DE3)]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|110805128|ref|YP_688648.1| transcription-repair coupling factor [Shigella flexneri 5 str.
           8401]
 gi|110614676|gb|ABF03343.1| transcription-repair coupling factor [Shigella flexneri 5 str.
           8401]
          Length = 1169

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 500 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 557

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 558 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 600


>gi|56479827|ref|NP_707029.2| transcription-repair coupling factor [Shigella flexneri 2a str.
           301]
 gi|56383378|gb|AAN42736.2| transcription-repair coupling factor [Shigella flexneri 2a str.
           301]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|191173073|ref|ZP_03034606.1| transcription-repair coupling factor [Escherichia coli F11]
 gi|190906618|gb|EDV66224.1| transcription-repair coupling factor [Escherichia coli F11]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|157160641|ref|YP_001457959.1| transcription-repair coupling factor [Escherichia coli HS]
 gi|312971250|ref|ZP_07785428.1| transcription-repair coupling factor [Escherichia coli 1827-70]
 gi|157066321|gb|ABV05576.1| transcription-repair coupling factor [Escherichia coli HS]
 gi|310336452|gb|EFQ01638.1| transcription-repair coupling factor [Escherichia coli 1827-70]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|157158427|ref|YP_001462347.1| transcription-repair coupling factor [Escherichia coli E24377A]
 gi|193070928|ref|ZP_03051859.1| transcription-repair coupling factor [Escherichia coli E110019]
 gi|157080457|gb|ABV20165.1| transcription-repair coupling factor [Escherichia coli E24377A]
 gi|192955782|gb|EDV86254.1| transcription-repair coupling factor [Escherichia coli E110019]
 gi|324117315|gb|EGC11222.1| transcription-repair coupling protein [Escherichia coli E1167]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|119484480|ref|ZP_01619097.1| Transcription-repair coupling factor [Lyngbya sp. PCC 8106]
 gi|119457954|gb|EAW39077.1| Transcription-repair coupling factor [Lyngbya sp. PCC 8106]
          Length = 1147

 Score = 38.2 bits (88), Expect = 0.54,   Method: Composition-based stats.
 Identities = 9/54 (16%), Positives = 25/54 (46%), Gaps = 5/54 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           R G+++V+  HG+G   +++   +     ++ V+ +    + +      A  +G
Sbjct: 467 RPGDYVVHRQHGIGKFLKLESLTINNETRDYLVVQYGDGLLRV-----AADQVG 515


>gi|320197559|gb|EFW72172.1| Transcription-repair coupling factor [Escherichia coli WV_060327]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.55,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|218700384|ref|YP_002408013.1| transcription-repair coupling factor [Escherichia coli IAI39]
 gi|293409480|ref|ZP_06653056.1| transcription-repair coupling factor [Escherichia coli B354]
 gi|218370370|emb|CAR18173.1| transcription-repair coupling factor [Escherichia coli IAI39]
 gi|291469948|gb|EFF12432.1| transcription-repair coupling factor [Escherichia coli B354]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.55,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|163751452|ref|ZP_02158676.1| transcription-repair coupling factor [Shewanella benthica KT99]
 gi|161328666|gb|EDP99815.1| transcription-repair coupling factor [Shewanella benthica KT99]
          Length = 1161

 Score = 38.2 bits (88), Expect = 0.55,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     ++  +  G+  E+  + +      L VPV     I  R    
Sbjct: 490 KVGQPIVHLDHGVAKYQGLETLDTGGLVAEYLKLEYAGGD-KLYVPVSSLHLIS-RYSVG 547

Query: 75  AHF 77
              
Sbjct: 548 PDE 550


>gi|154487169|ref|ZP_02028576.1| hypothetical protein BIFADO_01009 [Bifidobacterium adolescentis
           L2-32]
 gi|154085032|gb|EDN84077.1| hypothetical protein BIFADO_01009 [Bifidobacterium adolescentis
           L2-32]
          Length = 1188

 Score = 38.2 bits (88), Expect = 0.55,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-GM---KLEFFVIAFDKDKM----- 55
           +++       +TG ++V+  HG+G   E++++ +  G      E+ VI +   K      
Sbjct: 498 RRKAIDLMELKTGNYVVHEQHGIGRFVEMRQRTIGKGENQTTREYLVIEYAPSKRGAPAD 557

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 558 KLFIPTDQLDQV 569


>gi|194439730|ref|ZP_03071799.1| transcription-repair coupling factor [Escherichia coli 101-1]
 gi|194421349|gb|EDX37367.1| transcription-repair coupling factor [Escherichia coli 101-1]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.55,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|268684509|ref|ZP_06151371.1| transcription-repair coupling factor [Neisseria gonorrhoeae
           SK-92-679]
 gi|268624793|gb|EEZ57193.1| transcription-repair coupling factor [Neisseria gonorrhoeae
           SK-92-679]
          Length = 1241

 Score = 38.2 bits (88), Expect = 0.55,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 571 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 622


>gi|268599202|ref|ZP_06133369.1| transcription-repair coupling factor [Neisseria gonorrhoeae MS11]
 gi|268603888|ref|ZP_06138055.1| transcription-repair coupling factor [Neisseria gonorrhoeae PID1]
 gi|268682351|ref|ZP_06149213.1| transcription-repair coupling factor [Neisseria gonorrhoeae PID332]
 gi|268583333|gb|EEZ48009.1| transcription-repair coupling factor [Neisseria gonorrhoeae MS11]
 gi|268588019|gb|EEZ52695.1| transcription-repair coupling factor [Neisseria gonorrhoeae PID1]
 gi|268622635|gb|EEZ55035.1| transcription-repair coupling factor [Neisseria gonorrhoeae PID332]
          Length = 1241

 Score = 38.2 bits (88), Expect = 0.55,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 571 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 622


>gi|323962713|gb|EGB58291.1| transcription-repair coupling protein [Escherichia coli H489]
 gi|323973296|gb|EGB68485.1| transcription-repair coupling protein [Escherichia coli TA007]
 gi|332342663|gb|AEE55997.1| transcription-repair coupling factor protein [Escherichia coli
           UMNK88]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|331662525|ref|ZP_08363448.1| transcription-repair coupling factor [Escherichia coli TA143]
 gi|331060947|gb|EGI32911.1| transcription-repair coupling factor [Escherichia coli TA143]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|268686819|ref|ZP_06153681.1| transcription-repair coupling factor [Neisseria gonorrhoeae
           SK-93-1035]
 gi|268627103|gb|EEZ59503.1| transcription-repair coupling factor [Neisseria gonorrhoeae
           SK-93-1035]
          Length = 1241

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 571 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 622


>gi|268601549|ref|ZP_06135716.1| transcription-repair coupling factor [Neisseria gonorrhoeae PID18]
 gi|268585680|gb|EEZ50356.1| transcription-repair coupling factor [Neisseria gonorrhoeae PID18]
          Length = 1241

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 571 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 622


>gi|240080515|ref|ZP_04725058.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae FA19]
 gi|240113117|ref|ZP_04727607.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae MS11]
 gi|240118171|ref|ZP_04732233.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae PID1]
 gi|240123719|ref|ZP_04736675.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae PID332]
 gi|268596647|ref|ZP_06130814.1| transcription-repair coupling factor [Neisseria gonorrhoeae FA19]
 gi|268550435|gb|EEZ45454.1| transcription-repair coupling factor [Neisseria gonorrhoeae FA19]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|240016396|ref|ZP_04722936.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae FA6140]
 gi|240125910|ref|ZP_04738796.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae SK-92-679]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|240013954|ref|ZP_04720867.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae DGI18]
 gi|240121523|ref|ZP_04734485.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae PID24-1]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|218704525|ref|YP_002412044.1| transcription-repair coupling factor [Escherichia coli UMN026]
 gi|218431622|emb|CAR12501.1| transcription-repair coupling factor [Escherichia coli UMN026]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|167646581|ref|YP_001684244.1| transcription-repair coupling factor [Caulobacter sp. K31]
 gi|167349011|gb|ABZ71746.1| transcription-repair coupling factor [Caulobacter sp. K31]
          Length = 1155

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 44/111 (39%), Gaps = 14/111 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    +K  +V G   +   +     +  L +PV     + 
Sbjct: 478 AEASALTPGDLVVHIDHGIGRYEGLKTLDVQGAPHDCLDL-LYGGEAKLYLPVENIDLL- 535

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRR---AQEYDAKINSGDLIAIA 116
            R  ++A  V+  L  + G A      W  R   A+E    +  G LI IA
Sbjct: 536 TRYGTDAENVQ--LDKLGGAA------WQGRKSKAKERLRVMAEG-LIQIA 577


>gi|289450268|ref|YP_003474746.1| transcription-repair coupling factor [Clostridiales genomosp. BVAB3
           str. UPII9-5]
 gi|289184815|gb|ADC91240.1| transcription-repair coupling factor [Clostridiales genomosp. BVAB3
           str. UPII9-5]
          Length = 1241

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HG+G    ++  EV G++ ++  +++  +   L +P+     +
Sbjct: 559 RPGDLVVHDIHGIGIYKGLRSVEVDGVRRDYIWLSYANND-ELYLPMEALDQL 610


>gi|260440312|ref|ZP_05794128.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae DGI2]
 gi|291043604|ref|ZP_06569320.1| transcription-repair coupling factor [Neisseria gonorrhoeae DGI2]
 gi|291012067|gb|EFE04056.1| transcription-repair coupling factor [Neisseria gonorrhoeae DGI2]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|240128422|ref|ZP_04741083.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae SK-93-1035]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|170077902|ref|YP_001734540.1| transcription-repair coupling factor [Synechococcus sp. PCC 7002]
 gi|169885571|gb|ACA99284.1| Transcription-repair coupling factor (TRCF) [Synechococcus sp. PCC
           7002]
          Length = 1162

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 24/53 (45%), Gaps = 6/53 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G++IV+ +HG+G   +I+         E+ V+ +      L++P      +
Sbjct: 497 NPGDYIVHKSHGIGRFIKIETL----QSREYLVLKYADG--ILRIPADSLDTL 543


>gi|59801051|ref|YP_207763.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae FA 1090]
 gi|59717946|gb|AAW89351.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae FA 1090]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|306823175|ref|ZP_07456551.1| transcription-repair coupling factor [Bifidobacterium dentium ATCC
           27679]
 gi|309801612|ref|ZP_07695733.1| transcription-repair coupling factor [Bifidobacterium dentium
           JCVIHMP022]
 gi|304553807|gb|EFM41718.1| transcription-repair coupling factor [Bifidobacterium dentium ATCC
           27679]
 gi|308221744|gb|EFO78035.1| transcription-repair coupling factor [Bifidobacterium dentium
           JCVIHMP022]
          Length = 1173

 Score = 38.2 bits (88), Expect = 0.57,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 33/72 (45%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM----- 55
           +++       ++G+++V+  HG+G   E++++ +  G      E+ VI +   K      
Sbjct: 483 RRKAIDLMELKSGDYVVHEQHGIGRFVEMRQRTIGTGANKTTREYLVIEYAPSKRGAPAD 542

Query: 56  CLKVPVGKAIDI 67
            L +P  +   I
Sbjct: 543 KLFIPTDQLDQI 554


>gi|305431881|ref|ZP_07401048.1| transcription-repair coupling factor [Campylobacter coli JV20]
 gi|304444965|gb|EFM37611.1| transcription-repair coupling factor [Campylobacter coli JV20]
          Length = 978

 Score = 38.2 bits (88), Expect = 0.57,   Method: Composition-based stats.
 Identities = 14/61 (22%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           +++K + +    + G+ IV+  +GVG    ++   ++  K EF  I +      L +PV 
Sbjct: 333 YKRKANLIIDELKIGDFIVHEDYGVGKFLGLEMISISEAKKEFVAIEYQNSD-KLLLPVE 391

Query: 63  K 63
            
Sbjct: 392 N 392


>gi|239999138|ref|ZP_04719062.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae 35/02]
 gi|268594974|ref|ZP_06129141.1| transcription-repair coupling factor [Neisseria gonorrhoeae 35/02]
 gi|268548363|gb|EEZ43781.1| transcription-repair coupling factor [Neisseria gonorrhoeae 35/02]
 gi|317164430|gb|ADV07971.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae TCDC-NG08107]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.57,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|291456465|ref|ZP_06595855.1| transcription-repair coupling factor [Bifidobacterium breve DSM
           20213]
 gi|291381742|gb|EFE89260.1| transcription-repair coupling factor [Bifidobacterium breve DSM
           20213]
          Length = 1196

 Score = 38.2 bits (88), Expect = 0.57,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 517 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 576

Query: 66  DI 67
            +
Sbjct: 577 QV 578


>gi|118602982|ref|YP_904197.1| transcription-repair coupling factor [Candidatus Ruthia magnifica
           str. Cm (Calyptogena magnifica)]
 gi|118567921|gb|ABL02726.1| transcription-repair coupling factor [Candidatus Ruthia magnifica
           str. Cm (Calyptogena magnifica)]
          Length = 1142

 Score = 38.2 bits (88), Expect = 0.57,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  +GVG    +K Q       +F  + +  D   L VP+     I
Sbjct: 477 KMGDAIVHENYGVGRYLGLKPQIFDDQSQDFLTLEYA-DNAKLMVPITSLNLI 528


>gi|15801231|ref|NP_287248.1| transcription-repair coupling factor [Escherichia coli O157:H7
           EDL933]
 gi|12514664|gb|AAG55860.1|AE005321_3 transcription-repair coupling factor; mutation frequency decline
           [Escherichia coli O157:H7 str. EDL933]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.57,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|194098853|ref|YP_002001917.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae NCCP11945]
 gi|240115873|ref|ZP_04729935.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae PID18]
 gi|193934143|gb|ACF29967.1| putative transcription-repair coupling factor [Neisseria
           gonorrhoeae NCCP11945]
          Length = 1234

 Score = 38.2 bits (88), Expect = 0.57,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|291517134|emb|CBK70750.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           longum F8]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.58,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|227546191|ref|ZP_03976240.1| transcription-repair coupling factor helicase [Bifidobacterium
           longum subsp. infantis ATCC 55813]
 gi|227213172|gb|EEI81044.1| transcription-repair coupling factor helicase [Bifidobacterium
           longum subsp. infantis ATCC 55813]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.58,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|145298863|ref|YP_001141704.1| transcription-repair coupling factor [Aeromonas salmonicida subsp.
           salmonicida A449]
 gi|142851635|gb|ABO89956.1| transcription-repair coupling factor [Aeromonas salmonicida subsp.
           salmonicida A449]
          Length = 1154

 Score = 38.2 bits (88), Expect = 0.58,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+ +V+  HGVG    ++  +  G+  EF  + +      L VPV     I
Sbjct: 488 GQPVVHLDHGVGRYLGLETIDAGGLPTEFLTLEYAGGD-KLFVPVTNLHLI 537


>gi|23335259|ref|ZP_00120496.1| COG1197: Transcription-repair coupling factor (superfamily II
           helicase) [Bifidobacterium longum DJO10A]
 gi|189439640|ref|YP_001954721.1| transcription-repair coupling factor (superfamily II helicase)
           [Bifidobacterium longum DJO10A]
 gi|189428075|gb|ACD98223.1| Transcription-repair coupling factor (superfamily II helicase)
           [Bifidobacterium longum DJO10A]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.58,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|322690788|ref|YP_004220358.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|320455644|dbj|BAJ66266.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           longum JCM 1217]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.59,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|317481857|ref|ZP_07940884.1| transcription-repair coupling factor [Bifidobacterium sp.
           12_1_47BFAA]
 gi|316916648|gb|EFV38043.1| transcription-repair coupling factor [Bifidobacterium sp.
           12_1_47BFAA]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.59,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|312133038|ref|YP_004000377.1| mfd [Bifidobacterium longum subsp. longum BBMN68]
 gi|311774027|gb|ADQ03515.1| Mfd [Bifidobacterium longum subsp. longum BBMN68]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.59,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|298253895|ref|ZP_06977482.1| transcription-repair coupling factor [Gardnerella vaginalis 5-1]
 gi|297532038|gb|EFH71013.1| transcription-repair coupling factor [Gardnerella vaginalis 5-1]
          Length = 1202

 Score = 38.2 bits (88), Expect = 0.59,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 30/72 (41%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKM----- 55
           +++       + G+ +V+  HG+G    +K++ +A        E+ VI +   K      
Sbjct: 518 RRKAIDLMELKPGDFVVHEQHGIGCFVGMKQRNIAVSGGSATREYLVIEYAPSKRNAPND 577

Query: 56  CLKVPVGKAIDI 67
            L +P  +   +
Sbjct: 578 KLFIPTDQLDLV 589


>gi|239622194|ref|ZP_04665225.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           infantis CCUG 52486]
 gi|239514191|gb|EEQ54058.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           infantis CCUG 52486]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.59,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|23465592|ref|NP_696195.1| transcription-repair coupling factor [Bifidobacterium longum
           NCC2705]
 gi|23326260|gb|AAN24831.1| transcription-repair coupling factor [Bifidobacterium longum
           NCC2705]
          Length = 1194

 Score = 38.2 bits (88), Expect = 0.59,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|262275596|ref|ZP_06053405.1| transcription-repair coupling factor [Grimontia hollisae CIP
           101886]
 gi|262219404|gb|EEY70720.1| transcription-repair coupling factor [Grimontia hollisae CIP
           101886]
          Length = 1154

 Score = 38.2 bits (88), Expect = 0.60,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HGVG    ++  E  G+  E+  + + +    L VPV     I
Sbjct: 483 QIGQPVVHLEHGVGRYLGLQTLEAGGITTEYMTLEYQQGA-KLYVPVASLHLI 534


>gi|114327500|ref|YP_744657.1| transcription-repair coupling factor [Granulibacter bethesdensis
           CGDNIH1]
 gi|114315674|gb|ABI61734.1| transcription-repair coupling factor [Granulibacter bethesdensis
           CGDNIH1]
          Length = 1149

 Score = 38.2 bits (88), Expect = 0.60,   Method: Composition-based stats.
 Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 12/102 (11%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +    V+G   +   + +D +   L +PV       M     A 
Sbjct: 474 GDLVVHQDHGIGRYDGLVTLTVSGAPHDCLRLLYDGND-KLFLPVENIE---MLSRFGAE 529

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKIN--SGDLIAIA 116
               AL  + G        W  R  +   +I   +G+LI IA
Sbjct: 530 TAGVALDKLGG------VSWQSRKAKMKQRIRDMAGELIRIA 565


>gi|121611311|ref|YP_999118.1| flagellin domain-containing protein [Verminephrobacter eiseniae
           EF01-2]
 gi|121555951|gb|ABM60100.1| flagellin domain protein [Verminephrobacter eiseniae EF01-2]
          Length = 501

 Score = 38.2 bits (88), Expect = 0.60,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 33/65 (50%), Gaps = 3/65 (4%)

Query: 109 SGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           SGD++     VR+L    +    S S+RQ  ++ ++++V E+  +   +E     LI+ +
Sbjct: 85  SGDILQR---VRELAVQSANATNSSSDRQALQAEVSQLVSELDRIAQTTEFNGAKLIDGS 141

Query: 169 LSSKS 173
             ++ 
Sbjct: 142 FGTQP 146


>gi|238022627|ref|ZP_04603053.1| hypothetical protein GCWU000324_02536 [Kingella oralis ATCC 51147]
 gi|237865830|gb|EEP66966.1| hypothetical protein GCWU000324_02536 [Kingella oralis ATCC 51147]
          Length = 1156

 Score = 38.2 bits (88), Expect = 0.62,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 490 SIGDPVVHEEHGIGRYIGLVSMDLGGEAQEMMLLEYA-GEAQLYVPVSQLHLI 541


>gi|269837730|ref|YP_003319958.1| transcription-repair coupling factor [Sphaerobacter thermophilus
           DSM 20745]
 gi|269786993|gb|ACZ39136.1| transcription-repair coupling factor [Sphaerobacter thermophilus
           DSM 20745]
          Length = 1173

 Score = 38.2 bits (88), Expect = 0.62,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+     +   EV+G++ E+ ++ +  +   L +PV +   I
Sbjct: 508 PGQYVVHVEHGIARYGGLVTLEVSGVEREYLLLEYAAND-RLYLPVDQIDRI 558


>gi|259908777|ref|YP_002649133.1| transcription-repair coupling factor [Erwinia pyrifoliae Ep1/96]
 gi|224964399|emb|CAX55908.1| Transcription-repair-coupling factor [Erwinia pyrifoliae Ep1/96]
 gi|283478753|emb|CAY74669.1| Transcription-repair-coupling factor [Erwinia pyrifoliae DSM 12163]
          Length = 1148

 Score = 38.2 bits (88), Expect = 0.62,   Method: Composition-based stats.
 Identities = 29/130 (22%), Positives = 48/130 (36%), Gaps = 22/130 (16%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++++      L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYIGMTTLETGGIKAEYLMLSYA-GDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS- 134
                 L  +   A      WSR  Q+   K+         +V  +L    +Q       
Sbjct: 537 EE-NAPLHKLGSDA------WSRARQKAAEKVR--------DVAAELLDIYAQRAAKTGF 581

Query: 135 ----ERQLYE 140
               ++Q Y+
Sbjct: 582 AFKHDKQQYQ 591


>gi|83816849|ref|YP_444216.1| transcription-repair coupling factor [Salinibacter ruber DSM 13855]
 gi|83758243|gb|ABC46356.1| transcription-repair coupling factor [Salinibacter ruber DSM 13855]
          Length = 1142

 Score = 38.2 bits (88), Expect = 0.62,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 45/118 (38%), Gaps = 17/118 (14%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HG+G    +K+  V   + E   + F  + + L V V     +   K +   
Sbjct: 456 GDFVVHVDHGIGRFDGMKKITVRDNQQEAVRLNFADNDV-LYVNVHALHKLN--KYTGKE 512

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
             +  L  +  +       W ++ Q    ++         EV RDL +  ++ + S  
Sbjct: 513 GHQPTLTKLGSE------QWEKKKQRTKDQVK--------EVARDLIKLYAKRKASDG 556


>gi|294340382|emb|CAZ88763.1| Transcription-repair coupling factor (TRCF) (ATP-dependent helicase
           mfd) [Thiomonas sp. 3As]
          Length = 1160

 Score = 37.8 bits (87), Expect = 0.63,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    + E ++     EF  +    +   L VPV +   IG
Sbjct: 487 QPGDPVVHANHGIGRYQGLAELDLGDGPAEFLHL-VYANDAVLYVPVSQLHLIG 539


>gi|92113691|ref|YP_573619.1| transcription-repair coupling factor [Chromohalobacter salexigens
           DSM 3043]
 gi|91796781|gb|ABE58920.1| transcription-repair coupling factor [Chromohalobacter salexigens
           DSM 3043]
          Length = 1150

 Score = 37.8 bits (87), Expect = 0.64,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+ +HGVG    ++  E  G   EF  + +      L VPV     I
Sbjct: 479 RPGAPVVHQSHGVGRYQGLETLEAGGQAAEFLALEYA-GGAKLYVPVDSLHLI 530


>gi|300974586|ref|ZP_07172647.1| transcription-repair coupling factor [Escherichia coli MS 45-1]
 gi|300410528|gb|EFJ94066.1| transcription-repair coupling factor [Escherichia coli MS 45-1]
          Length = 1164

 Score = 37.8 bits (87), Expect = 0.64,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 495 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 552

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 553 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAGLLDIYAQRAAKE 595


>gi|208435421|ref|YP_002267087.1| transcription-repair coupling factor [Helicobacter pylori G27]
 gi|208433350|gb|ACI28221.1| transcription-repair coupling factor [Helicobacter pylori G27]
          Length = 999

 Score = 37.8 bits (87), Expect = 0.64,   Method: Composition-based stats.
 Identities = 37/178 (20%), Positives = 64/178 (35%), Gaps = 36/178 (20%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD--L 122
             I  R ++++  V                           ++  G  + +   VR   L
Sbjct: 411 HLIA-RYVAQSDSVP-----------------------IKDRLGKGSFLKLKAKVRTKLL 446

Query: 123 HRTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                  E   +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 447 EIASKIIEL-AAERNLILGKKMDVHLAELEIFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|322833632|ref|YP_004213659.1| transcription-repair coupling factor [Rahnella sp. Y9602]
 gi|321168833|gb|ADW74532.1| transcription-repair coupling factor [Rahnella sp. Y9602]
          Length = 1147

 Score = 37.8 bits (87), Expect = 0.66,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHVEHGVGRYLGLTTLETGGITAEYLILTYAGED-KLYVPVSSLHLI 529


>gi|222824038|ref|YP_002575612.1| transcription-repair coupling factor [Campylobacter lari RM2100]
 gi|222539260|gb|ACM64361.1| transcription-repair coupling factor [Campylobacter lari RM2100]
          Length = 979

 Score = 37.8 bits (87), Expect = 0.66,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           R G+ +V+  +G+     ++   +AG K EF  + +  +   L +PV  
Sbjct: 344 RVGDFVVHEDYGIAKFLGLEIIIIAGAKKEFVALGYLNND-KLLLPVEN 391


>gi|257464856|ref|ZP_05629227.1| transcription-repair coupling factor [Actinobacillus minor 202]
 gi|257450516|gb|EEV24559.1| transcription-repair coupling factor [Actinobacillus minor 202]
          Length = 1151

 Score = 37.8 bits (87), Expect = 0.66,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 50/120 (41%), Gaps = 13/120 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  +   L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYGGLTTLDAGGIKAEYLVLHYA-NDAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
                  L  +  +       W++  Q+   KI   D+   AE++    + ++Q   ++ 
Sbjct: 542 TDE-NAPLHKLGSEV------WAKTRQKAAEKIR--DV--AAELLDVYAKREAQKGFAFE 590


>gi|304310931|ref|YP_003810529.1| Transcription repair coupling factor [gamma proteobacterium HdN1]
 gi|301796664|emb|CBL44876.1| Transcription repair coupling factor [gamma proteobacterium HdN1]
          Length = 1162

 Score = 37.8 bits (87), Expect = 0.67,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G  +V+  HGVG    ++   + G   EF  + +      L VPV     I
Sbjct: 486 KIGAPVVHIEHGVGRYHGLQTLTIDGQAQEFLTLEYA-GGSKLYVPVASLQLI 537


>gi|296136148|ref|YP_003643390.1| transcription-repair coupling factor [Thiomonas intermedia K12]
 gi|295796270|gb|ADG31060.1| transcription-repair coupling factor [Thiomonas intermedia K12]
          Length = 1160

 Score = 37.8 bits (87), Expect = 0.67,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    + E ++     EF  +    +   L VPV +   IG
Sbjct: 487 QPGDPVVHANHGIGRYQGLAELDLGDGPAEFLHL-VYANDAVLYVPVSQLHLIG 539


>gi|83645461|ref|YP_433896.1| transcription-repair coupling factor [Hahella chejuensis KCTC 2396]
 gi|83633504|gb|ABC29471.1| transcription-repair coupling factor [Hahella chejuensis KCTC 2396]
          Length = 1149

 Score = 37.8 bits (87), Expect = 0.68,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 38/94 (40%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           +    +V+  HG+G    ++  EV G K EF V+ +  ++  L VPV          +S 
Sbjct: 480 KLNAPVVHIDHGIGRYKGLQSLEVDGQKQEFLVLEYA-NEAKLYVPVSSLHL-----ISR 533

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
              ++  L  +      +   WS   ++   KI 
Sbjct: 534 YAGLDDKLAPINKLGTDR---WSAAKRQAAEKIK 564


>gi|295093547|emb|CBK82638.1| transcription-repair coupling factor [Coprococcus sp. ART55/1]
          Length = 1188

 Score = 37.8 bits (87), Expect = 0.68,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 22/40 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
             G+++V+  +G+G    +++ EV G   ++ VI + +  
Sbjct: 509 SVGDYVVHEKYGIGIYRGLEKIEVDGALKDYLVIEYAEGG 548


>gi|227485004|ref|ZP_03915320.1| transcription-repair coupling factor [Anaerococcus lactolyticus
           ATCC 51172]
 gi|227237001|gb|EEI87016.1| transcription-repair coupling factor [Anaerococcus lactolyticus
           ATCC 51172]
          Length = 1162

 Score = 37.8 bits (87), Expect = 0.68,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  +G+G    + + E   ++ +F +I +  +   L +PV +   +
Sbjct: 497 EIGDYVVHENNGIGIYKGLTKIERNDVEKDFILIEYRGND-KLYIPVDQMNLV 548


>gi|289178790|gb|ADC86036.1| Transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis BB-12]
          Length = 1248

 Score = 37.8 bits (87), Expect = 0.69,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 30/75 (40%), Gaps = 9/75 (12%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM-- 55
             ++++       + G+ +V+  HG+G   E++++           E+ VI +   K   
Sbjct: 555 ARKRRKSIDLMELKPGDFVVHEQHGIGRFIEMRQRTTGSGKNQATREYLVIEYAPSKRNA 614

Query: 56  ---CLKVPVGKAIDI 67
               L +P  +   +
Sbjct: 615 PPDKLFIPTDQLDQV 629


>gi|145219954|ref|YP_001130663.1| transcription-repair coupling factor [Prosthecochloris vibrioformis
           DSM 265]
 gi|145206118|gb|ABP37161.1| transcription-repair coupling factor [Chlorobium phaeovibrioides
           DSM 265]
          Length = 1112

 Score = 37.8 bits (87), Expect = 0.69,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           Q  + G+ +V+  +G+G    ++       + E  ++ ++     L V      +I +
Sbjct: 412 QKLKVGDFVVHEDYGIGRFKALETITAGNSEQECVLVEYEGGD-QLFV---NVQNINL 465


>gi|291535574|emb|CBL08686.1| transcription-repair coupling factor [Roseburia intestinalis M50/1]
          Length = 1176

 Score = 37.8 bits (87), Expect = 0.70,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           T++ ++ A       G+++V+  HG+G    I++ EV     ++  I +    
Sbjct: 491 TYEGEKIASFTDLNIGDYVVHENHGLGIYRGIEKIEVDKTVKDYIKIEYAGGG 543


>gi|240144343|ref|ZP_04742944.1| transcription-repair coupling factor [Roseburia intestinalis L1-82]
 gi|257203687|gb|EEV01972.1| transcription-repair coupling factor [Roseburia intestinalis L1-82]
          Length = 1176

 Score = 37.8 bits (87), Expect = 0.70,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           T++ ++ A       G+++V+  HG+G    I++ EV     ++  I +    
Sbjct: 491 TYEGEKIASFTDLNIGDYVVHENHGLGIYRGIEKIEVDKTVKDYIKIEYAGGG 543


>gi|297620477|ref|YP_003708614.1| putative transcription-repair-coupling factor [Waddlia chondrophila
           WSU 86-1044]
 gi|297375778|gb|ADI37608.1| putative transcription-repair-coupling factor [Waddlia chondrophila
           WSU 86-1044]
          Length = 1092

 Score = 37.8 bits (87), Expect = 0.71,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVP 60
           +              GE +V+  +G+G    ++++    G+  EFF+I +  D   L VP
Sbjct: 437 STYHTTPTDVHDLTPGEVVVHLNNGLGKFIGLEKRPNHLGIDSEFFLIEYA-DDAKLYVP 495

Query: 61  VGKAIDI 67
           V +A  I
Sbjct: 496 VNQAHLI 502


>gi|308186433|ref|YP_003930564.1| Transcription-repair-coupling factor [Pantoea vagans C9-1]
 gi|308056943|gb|ADO09115.1| Transcription-repair-coupling factor [Pantoea vagans C9-1]
          Length = 1154

 Score = 37.8 bits (87), Expect = 0.72,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G++ E+ ++++  +   L VPV     I
Sbjct: 486 PGQPVVHLEHGVGRYIGLTTLEAGGIEAEYLMLSYA-NDAKLYVPVSSLHLI 536


>gi|224369910|ref|YP_002604074.1| Mfd [Desulfobacterium autotrophicum HRM2]
 gi|223692627|gb|ACN15910.1| Mfd [Desulfobacterium autotrophicum HRM2]
          Length = 1165

 Score = 37.8 bits (87), Expect = 0.72,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 31/64 (48%), Gaps = 1/64 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            + +    +  + G+ +V+  HG+G    +   ++ G+  +F +I+F  D   L +PV +
Sbjct: 487 AKSQFITPEELKEGDIVVHLEHGLGRYEGLVTLKLEGISGDFILISFRDDD-RLYLPVDR 545

Query: 64  AIDI 67
              +
Sbjct: 546 MEMV 549


>gi|11992016|gb|AAG42403.1|AF300471_6 Mfd protein [Zymomonas mobilis subsp. mobilis ZM4]
          Length = 1145

 Score = 37.8 bits (87), Expect = 0.72,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +    V     +   +++      L VPV     +
Sbjct: 475 SIGDLVVHSDHGIGCYDGLVSIPVGNAPHDCVALSYQGGD-KLYVPVENIDTL 526


>gi|329889842|ref|ZP_08268185.1| transcription-repair-coupling factor [Brevundimonas diminuta ATCC
           11568]
 gi|328845143|gb|EGF94707.1| transcription-repair-coupling factor [Brevundimonas diminuta ATCC
           11568]
          Length = 744

 Score = 37.8 bits (87), Expect = 0.73,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 45/121 (37%), Gaps = 15/121 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A       G+ +V+  HG+G    ++  E+     +   +     +  L +PV     + 
Sbjct: 70  AEASALTAGDLVVHLDHGIGRYEGLRTLEIQEAPHDCLEL-LYAGESKLYLPVENIDLL- 127

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRR---AQEYDAKINSGDLIAIAEVVRDLHRT 125
            R  ++A  V+  L  + G        W  R   A+E    +  G +   A+  R L  +
Sbjct: 128 TRYGTDAEGVQ--LDRLGG------AGWQARKAKAKERLRAMAEGLIALAAK--RALRVS 177

Query: 126 D 126
           D
Sbjct: 178 D 178


>gi|332295132|ref|YP_004437055.1| transcription-repair coupling factor [Thermodesulfobium narugense
           DSM 14796]
 gi|332178235|gb|AEE13924.1| transcription-repair coupling factor [Thermodesulfobium narugense
           DSM 14796]
          Length = 1111

 Score = 37.8 bits (87), Expect = 0.73,   Method: Composition-based stats.
 Identities = 30/161 (18%), Positives = 57/161 (35%), Gaps = 27/161 (16%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
            + K  +  Q  +  + +V+  HG+G    +K      ++ E+  I +    + L +PV 
Sbjct: 449 TRHKNISSLQELQYNDLVVHTDHGIGRFIGLKLMNFTKIQREYAQILYKDGDI-LYIPVE 507

Query: 63  KAIDIGMRKLSEAHFVERALKLVRGKARVKRTMW---SRRAQEYDAKINSGDLIAIAEVV 119
                 + K       E  L  +R         W    +RA+++  KI       I  V 
Sbjct: 508 --EFTRLSKYIGPDDAE--LSSLR------SNDWTSKKKRAKDFAEKIA----HEI--VF 551

Query: 120 RDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPE 160
            +  R + Q         +Y ++ N  + E+    S    E
Sbjct: 552 IEASRRNVQRP-------IYSNSKNPTIEELELKESFGYEE 585


>gi|329120140|ref|ZP_08248810.1| transcription-repair coupling factor [Neisseria bacilliformis ATCC
           BAA-1200]
 gi|327463671|gb|EGF09989.1| transcription-repair coupling factor [Neisseria bacilliformis ATCC
           BAA-1200]
          Length = 1290

 Score = 37.8 bits (87), Expect = 0.73,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 624 SIGDPVVHEEHGIGRYMGLVSMDLGGEAQEMMLLEYA-GEAQLYVPVSQLHLI 675


>gi|283784907|ref|YP_003364772.1| transcription-repair coupling factor [Citrobacter rodentium ICC168]
 gi|282948361|emb|CBG87947.1| transcription-repair coupling factor [Citrobacter rodentium ICC168]
          Length = 1148

 Score = 37.8 bits (87), Expect = 0.73,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +      L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-GDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|16126087|ref|NP_420651.1| transcription-repair coupling factor [Caulobacter crescentus CB15]
 gi|221234857|ref|YP_002517293.1| transcription-repair coupling factor [Caulobacter crescentus
           NA1000]
 gi|13423283|gb|AAK23819.1| transcription-repair coupling factor [Caulobacter crescentus CB15]
 gi|220964029|gb|ACL95385.1| transcription-repair coupling factor [Caulobacter crescentus
           NA1000]
          Length = 1155

 Score = 37.8 bits (87), Expect = 0.74,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           A       G+ +V+  HG+G    +K  +V G   +   +     +  L +PV    
Sbjct: 478 AEASALTPGDLVVHIDHGIGRYEGLKTLDVQGAPHDCLDL-LYGGEAKLYLPVENID 533


>gi|295689522|ref|YP_003593215.1| transcription-repair coupling factor [Caulobacter segnis ATCC
           21756]
 gi|295431425|gb|ADG10597.1| transcription-repair coupling factor [Caulobacter segnis ATCC
           21756]
          Length = 1155

 Score = 37.8 bits (87), Expect = 0.75,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           A       G+ +V+  HG+G    +K  +V G   +   +     +  L +PV    
Sbjct: 478 AEASALTPGDLVVHIDHGIGRYEGLKTLDVQGAPHDCLDL-LYGGEAKLYLPVENID 533


>gi|325204285|gb|ADY99738.1| transcription-repair coupling factor [Neisseria meningitidis
           M01-240355]
          Length = 1374

 Score = 37.8 bits (87), Expect = 0.75,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 706 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEY-SGEAQLYVPVSQLHLI 757


>gi|307544803|ref|YP_003897282.1| transcription-repair coupling factor [Halomonas elongata DSM 2581]
 gi|307216827|emb|CBV42097.1| K03723 transcription-repair coupling factor (superfamily II
           helicase) [Halomonas elongata DSM 2581]
          Length = 1148

 Score = 37.8 bits (87), Expect = 0.75,   Method: Composition-based stats.
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+ AHGVG    ++  E  G   EF  + +  D   L VPV     I
Sbjct: 477 RPGAPVVHQAHGVGRYLGLETLETGGQAAEFVALEYA-DGAKLYVPVDSLHLI 528


>gi|95930005|ref|ZP_01312745.1| transcription-repair coupling factor [Desulfuromonas acetoxidans
           DSM 684]
 gi|95133974|gb|EAT15633.1| transcription-repair coupling factor [Desulfuromonas acetoxidans
           DSM 684]
          Length = 1158

 Score = 37.8 bits (87), Expect = 0.75,   Method: Composition-based stats.
 Identities = 11/50 (22%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +++V+  HG+G    +++   +GM  +F  + +    M L +PV +   +
Sbjct: 498 DYVVHADHGIGLYLGLEQLSSSGMSGDFLKLEYAGGDM-LYLPVERIEKV 546


>gi|239787601|emb|CAX84069.1| Transcription-repair coupling factor [uncultured bacterium]
          Length = 1178

 Score = 37.8 bits (87), Expect = 0.76,   Method: Composition-based stats.
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 18  EHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + +V+  HGVG    +   EV G+K +F +I +      L  PV     +
Sbjct: 513 DPVVHADHGVGRYGGLHSLEVGGIKNDFLLIHYAGSD-KLYAPVENLDRV 561


>gi|317491827|ref|ZP_07950262.1| transcription-repair coupling factor [Enterobacteriaceae bacterium
           9_2_54FAA]
 gi|316920261|gb|EFV41585.1| transcription-repair coupling factor [Enterobacteriaceae bacterium
           9_2_54FAA]
          Length = 1153

 Score = 37.8 bits (87), Expect = 0.77,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
             G+ +V+  HGVG    +   E  G+K E+ ++ +      L VPV  
Sbjct: 484 SIGQPVVHLEHGVGRYGGMTTLEAGGIKGEYLILTYA-GDAKLYVPVSS 531


>gi|251792001|ref|YP_003006721.1| transcription-repair coupling factor [Aggregatibacter aphrophilus
           NJ8700]
 gi|247533388|gb|ACS96634.1| transcription-repair coupling factor [Aggregatibacter aphrophilus
           NJ8700]
          Length = 1151

 Score = 37.8 bits (87), Expect = 0.77,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R +  
Sbjct: 480 QIGQPVVHLDHGVGRYGGLVSLENGGIKAEYLLLNYA-NDSKLYVPVASLHLIS-RYVGG 537

Query: 75  AHF 77
           A  
Sbjct: 538 ADE 540


>gi|157146181|ref|YP_001453500.1| transcription-repair coupling factor [Citrobacter koseri ATCC
           BAA-895]
 gi|157083386|gb|ABV13064.1| hypothetical protein CKO_01937 [Citrobacter koseri ATCC BAA-895]
          Length = 1148

 Score = 37.8 bits (87), Expect = 0.77,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-NDARLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|323691738|ref|ZP_08105998.1| transcription-repair coupling factor [Clostridium symbiosum
           WAL-14673]
 gi|323504216|gb|EGB20018.1| transcription-repair coupling factor [Clostridium symbiosum
           WAL-14673]
          Length = 1179

 Score = 37.8 bits (87), Expect = 0.77,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 56/129 (43%), Gaps = 14/129 (10%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
            +Q K+         G+++V+ +HG+G    I++ E   +  ++  I +      L +P 
Sbjct: 493 AYQGKKIQSFSELAVGDYVVHESHGLGIYRGIEKIEQDKIVKDYIKIEYRDGG-NLYLPA 551

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +    G++K + A   +  L  + G      T W++       K+  G +  IA+ + +
Sbjct: 552 TRLE--GIQKYAGADAKQPKLNKLGG------TEWNK----TKTKVR-GAVKEIAKELVE 598

Query: 122 LHRTDSQPE 130
           L+ +  + E
Sbjct: 599 LYASRQESE 607


>gi|320094383|ref|ZP_08026169.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           178 str. F0338]
 gi|319978684|gb|EFW10241.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           178 str. F0338]
          Length = 1194

 Score = 37.8 bits (87), Expect = 0.78,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 9/76 (11%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEV----AGMKLEFFVIAFDKDKM- 55
           M  ++++         G++IV+  HG+G   E+  + V    A    ++ VI +   K  
Sbjct: 502 MPSRRRKGVDPLTLHPGDYIVHEQHGIGRFVELVSRTVGRADAAATRDYLVIEYAPSKRG 561

Query: 56  ----CLKVPVGKAIDI 67
                L VP      I
Sbjct: 562 QPGDRLFVPTDALDQI 577


>gi|323492540|ref|ZP_08097688.1| transcription-repair coupling factor [Vibrio brasiliensis LMG
           20546]
 gi|323313327|gb|EGA66443.1| transcription-repair coupling factor [Vibrio brasiliensis LMG
           20546]
          Length = 1153

 Score = 37.8 bits (87), Expect = 0.79,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +TG+ +V+  HG+G    ++  E  GM  E+  + + +++  L VPV     I
Sbjct: 481 QTGQPVVHIDHGIGRYIGLQTLEAGGMTTEYVTLEY-QNEAKLYVPVASLNLI 532


>gi|186475762|ref|YP_001857232.1| transcription-repair coupling factor [Burkholderia phymatum STM815]
 gi|184192221|gb|ACC70186.1| transcription-repair coupling factor [Burkholderia phymatum STM815]
          Length = 1164

 Score = 37.8 bits (87), Expect = 0.80,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + + +    L VPV +
Sbjct: 485 KVGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEY-QGDSKLYVPVSQ 532


>gi|116669806|ref|YP_830739.1| transcription-repair coupling factor [Arthrobacter sp. FB24]
 gi|116609915|gb|ABK02639.1| transcription-repair coupling factor [Arthrobacter sp. FB24]
          Length = 1222

 Score = 37.8 bits (87), Expect = 0.80,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAG---MKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+H+V+  HG+G   E+ +++VAG      E+ V+ +   K       L VP  +   +
Sbjct: 544 GDHVVHEQHGIGRFVELIQRKVAGGGEGVREYLVLEYAPSKRGAPGDRLFVPTDQLDQV 602


>gi|323485663|ref|ZP_08091001.1| hypothetical protein HMPREF9474_02752 [Clostridium symbiosum
           WAL-14163]
 gi|323401013|gb|EGA93373.1| hypothetical protein HMPREF9474_02752 [Clostridium symbiosum
           WAL-14163]
          Length = 1179

 Score = 37.8 bits (87), Expect = 0.81,   Method: Composition-based stats.
 Identities = 25/129 (19%), Positives = 56/129 (43%), Gaps = 14/129 (10%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
            +Q K+         G+++V+ +HG+G    I++ E   +  ++  I +      L +P 
Sbjct: 493 AYQGKKIQSFSELAVGDYVVHESHGLGIYRGIEKIEQDKIVKDYIKIEYRDGG-NLYLPA 551

Query: 62  GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +    G++K + A   +  L  + G      T W++       K+  G +  IA+ + +
Sbjct: 552 TRLE--GIQKYAGADARQPKLNKLGG------TEWNK----TKTKVR-GAVKEIAKELVE 598

Query: 122 LHRTDSQPE 130
           L+ +  + E
Sbjct: 599 LYASRQESE 607


>gi|315634772|ref|ZP_07890054.1| transcription-repair coupling factor [Aggregatibacter segnis ATCC
           33393]
 gi|315476324|gb|EFU67074.1| transcription-repair coupling factor [Aggregatibacter segnis ATCC
           33393]
          Length = 1149

 Score = 37.8 bits (87), Expect = 0.81,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R +  
Sbjct: 480 QIGQPVVHLDHGVGRYGGLVSLENGGIKAEYLLLNYA-NDSKLYVPVASLHLIS-RYVGG 537

Query: 75  AHF 77
           A  
Sbjct: 538 ADE 540


>gi|183601453|ref|ZP_02962823.1| transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis HN019]
 gi|241191047|ref|YP_002968441.1| transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis Bl-04]
 gi|241196453|ref|YP_002970008.1| transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis DSM 10140]
 gi|183219059|gb|EDT89700.1| transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis HN019]
 gi|240249439|gb|ACS46379.1| transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis Bl-04]
 gi|240251007|gb|ACS47946.1| transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis DSM 10140]
 gi|295794036|gb|ADG33571.1| transcription-repair coupling factor [Bifidobacterium animalis
           subsp. lactis V9]
          Length = 1194

 Score = 37.8 bits (87), Expect = 0.81,   Method: Composition-based stats.
 Identities = 12/75 (16%), Positives = 30/75 (40%), Gaps = 9/75 (12%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM-- 55
             ++++       + G+ +V+  HG+G   E++++           E+ VI +   K   
Sbjct: 501 ARKRRKSIDLMELKPGDFVVHEQHGIGRFIEMRQRTTGSGKNQATREYLVIEYAPSKRNA 560

Query: 56  ---CLKVPVGKAIDI 67
               L +P  +   +
Sbjct: 561 PPDKLFIPTDQLDQV 575


>gi|325662342|ref|ZP_08150951.1| hypothetical protein HMPREF0490_01690 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325471344|gb|EGC74567.1| hypothetical protein HMPREF0490_01690 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 1115

 Score = 37.4 bits (86), Expect = 0.83,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 22/40 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           + G+++V+  HG+G    I++ EV  +  ++  I++    
Sbjct: 444 KVGDYVVHENHGLGIYQGIEKIEVDKVAKDYMKISYADGG 483


>gi|212712824|ref|ZP_03320952.1| hypothetical protein PROVALCAL_03921 [Providencia alcalifaciens DSM
           30120]
 gi|212684516|gb|EEB44044.1| hypothetical protein PROVALCAL_03921 [Providencia alcalifaciens DSM
           30120]
          Length = 1148

 Score = 37.4 bits (86), Expect = 0.83,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 477 RPGQPVVHIEHGVGRYQGLITLEAGGIPAEYLILTYAGED-KLYVPVSSLHLI 528


>gi|331086145|ref|ZP_08335227.1| hypothetical protein HMPREF0987_01530 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330406304|gb|EGG85818.1| hypothetical protein HMPREF0987_01530 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 1113

 Score = 37.4 bits (86), Expect = 0.83,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 22/40 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           + G+++V+  HG+G    I++ EV  +  ++  I++    
Sbjct: 442 KVGDYVVHENHGLGIYQGIEKIEVDKVAKDYMKISYADGG 481


>gi|251772784|gb|EES53346.1| transcription-repair coupling factor [Leptospirillum
           ferrodiazotrophum]
          Length = 1145

 Score = 37.4 bits (86), Expect = 0.83,   Method: Composition-based stats.
 Identities = 30/177 (16%), Positives = 60/177 (33%), Gaps = 42/177 (23%)

Query: 11  RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMR 70
           R  F  G+++V+   G+G    ++E  V   + EF VI +                   R
Sbjct: 473 RPTFADGDYVVHLHQGIGRFRGLQEVSVGANRGEFAVIEYLGGD---------------R 517

Query: 71  KLSEAHFVERALKLVRGKARVKR------TMWSR---RAQEYDAKINSGDLIAIAEVVRD 121
                  +++ L     +    R        WS+   R ++   KI+       A++V  
Sbjct: 518 FYLSVDQMDQLLPYQGPEGSAPRIDRLGGKSWSQTKSRVRKQVEKIS-------ADLVML 570

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAV----NSISEPEAINLIEVNLSSKSS 174
             R  +    ++S         + + RE         +  + EAI  +  ++ S + 
Sbjct: 571 YARRKAAEGFAFS-------PESILTREFDQSFPYDLTTDQEEAIQAVLSDMESPTP 620


>gi|296453842|ref|YP_003660985.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           longum JDM301]
 gi|296183273|gb|ADH00155.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           longum JDM301]
          Length = 1194

 Score = 37.4 bits (86), Expect = 0.85,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRTIGTGANKTTREYLVIEYTPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|237731096|ref|ZP_04561577.1| transcription-repair coupling factor [Citrobacter sp. 30_2]
 gi|226906635|gb|EEH92553.1| transcription-repair coupling factor [Citrobacter sp. 30_2]
          Length = 1148

 Score = 37.4 bits (86), Expect = 0.85,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|291617056|ref|YP_003519798.1| Mfd [Pantoea ananatis LMG 20103]
 gi|291152086|gb|ADD76670.1| Mfd [Pantoea ananatis LMG 20103]
 gi|327393507|dbj|BAK10929.1| transcription-repair coupling factor Mfd [Pantoea ananatis AJ13355]
          Length = 1156

 Score = 37.4 bits (86), Expect = 0.86,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 9/93 (9%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G++ E+ ++++  +   L VPV     I  R    A
Sbjct: 486 PGQPVVHLEHGVGRYIGLTTLEAGGIQAEYLMLSYA-NDAKLYVPVSSLHLIS-RYAGGA 543

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
                 L  +   A      WSR  Q+   K+ 
Sbjct: 544 DE-NAPLHKLGSDA------WSRARQKAAEKVR 569


>gi|261494132|ref|ZP_05990635.1| transcription repair coupling factor [Mannheimia haemolytica
           serotype A2 str. BOVINE]
 gi|261496027|ref|ZP_05992437.1| transcription repair coupling factor [Mannheimia haemolytica
           serotype A2 str. OVINE]
 gi|261308277|gb|EEY09570.1| transcription repair coupling factor [Mannheimia haemolytica
           serotype A2 str. OVINE]
 gi|261310298|gb|EEY11498.1| transcription repair coupling factor [Mannheimia haemolytica
           serotype A2 str. BOVINE]
          Length = 1177

 Score = 37.4 bits (86), Expect = 0.87,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  +   L VPV     I  R +  
Sbjct: 510 KIGQAVVHLENGVGRYGGLTVLDAGGIKAEYLVLHYA-NDAKLYVPVASLHLIS-RYIGG 567

Query: 75  AHF 77
           A  
Sbjct: 568 ADE 570


>gi|189500626|ref|YP_001960096.1| transcription-repair coupling factor [Chlorobium phaeobacteroides
           BS1]
 gi|189496067|gb|ACE04615.1| transcription-repair coupling factor [Chlorobium phaeobacteroides
           BS1]
          Length = 1107

 Score = 37.4 bits (86), Expect = 0.87,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 1/54 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           Q    G++IV+  +G+G    ++  EV   + E  ++ +      L V V    
Sbjct: 416 QKLNIGDYIVHEDYGIGIFKALETIEVGDSEQESVLVEYQGGD-QLYVNVQNIR 468


>gi|304397240|ref|ZP_07379119.1| transcription-repair coupling factor [Pantoea sp. aB]
 gi|304355389|gb|EFM19757.1| transcription-repair coupling factor [Pantoea sp. aB]
          Length = 1147

 Score = 37.4 bits (86), Expect = 0.87,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HGVG    +   E  G++ E+ ++++  +   L VPV     I
Sbjct: 478 SPGQPVVHLEHGVGRYIGLTTLEAGGIQAEYLMLSYA-NDAKLYVPVSSLHLI 529


>gi|238920223|ref|YP_002933738.1| transcription-repair coupling factor [Edwardsiella ictaluri 93-146]
 gi|238869792|gb|ACR69503.1| transcription-repair coupling factor, putative [Edwardsiella
           ictaluri 93-146]
          Length = 1153

 Score = 37.4 bits (86), Expect = 0.88,   Method: Composition-based stats.
 Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 9/93 (9%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++++      L VPV     +  R    A
Sbjct: 485 PGQPVVHLEHGVGRYGGMTTLEAGGIKGEYLILSYA-GDAKLYVPVSSLHLLS-RYAGGA 542

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
                 L  + G A      WSR  Q+   K+ 
Sbjct: 543 DD-SAPLHRLGGDA------WSRARQKAAEKVR 568


>gi|163841705|ref|YP_001626109.1| transcription-repair coupling factor [Renibacterium salmoninarum
           ATCC 33209]
 gi|162955181|gb|ABY24696.1| transcription-repair coupling factor [Renibacterium salmoninarum
           ATCC 33209]
          Length = 1278

 Score = 37.4 bits (86), Expect = 0.88,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 7/74 (9%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMK--LEFFVIAFDKDKM--- 55
           M  +++        R G+ +V+  HG+G   E+ +++VAG     E+ V+ +   K    
Sbjct: 587 MPSKRRNAVDPLQLRGGDFVVHEQHGIGRFLELIQRKVAGTDGSREYLVLEYAPSKRGAP 646

Query: 56  --CLKVPVGKAIDI 67
              L VP  +   I
Sbjct: 647 GDRLFVPTDQLDQI 660


>gi|15602906|ref|NP_245978.1| hypothetical protein PM1041 [Pasteurella multocida subsp. multocida
           str. Pm70]
 gi|12721375|gb|AAK03125.1| Mfd [Pasteurella multocida subsp. multocida str. Pm70]
          Length = 1145

 Score = 37.4 bits (86), Expect = 0.89,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+  E+ ++ +  ++  L VPV     I  R +  
Sbjct: 479 KIGQPVVHLDHGVGRYAGLVTLENGGITAEYLLLNYA-NESKLYVPVSSLHLIS-RYVGG 536

Query: 75  AHF 77
           A  
Sbjct: 537 ADE 539


>gi|260577891|ref|ZP_05845822.1| ATP-dependent DNA helicase II [Corynebacterium jeikeium ATCC 43734]
 gi|258603985|gb|EEW17231.1| ATP-dependent DNA helicase II [Corynebacterium jeikeium ATCC 43734]
          Length = 1136

 Score = 37.4 bits (86), Expect = 0.90,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 46/130 (35%), Gaps = 19/130 (14%)

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R ++ A    +  +++RG        W          + +      A+ +RDL    ++ 
Sbjct: 157 RLITGAEHDMQIREILRGTEEDGNRYWP------TNVVPALSYAGFAQQLRDLLLRATER 210

Query: 130 EKSYS---------ERQLYESALNRMVREIAAVNSISEPE---AINLIEVNLSSKSSKTE 177
             S           +R ++E+A  R  +E   V  +S  E   A  L+   L++      
Sbjct: 211 GLSAQQLQQLGVEHDRPMWEAA-GRFQQEYQQVQRLSRSESLNASELLHATLAAFEKPEG 269

Query: 178 KSTSENQDKA 187
           +   E Q + 
Sbjct: 270 EQLVEQQREK 279


>gi|222100017|ref|YP_002534585.1| Transcription-repair coupling factor [Thermotoga neapolitana DSM
           4359]
 gi|221572407|gb|ACM23219.1| Transcription-repair coupling factor [Thermotoga neapolitana DSM
           4359]
          Length = 895

 Score = 37.4 bits (86), Expect = 0.90,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 13/83 (15%)

Query: 17  GEHIVYPAHGVGTITE-IKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
           GE +V+  HG+      I+ + V G   ++  + ++     L VPV K   +  R + + 
Sbjct: 253 GELVVHKEHGIAIFEGMIRLKSVLGE-RDYLKLKYE--DAVLYVPVEKIDRVH-RYIGDP 308

Query: 76  HFVERALKLVRGKARVKRTMWSR 98
             V+          R+ R  W R
Sbjct: 309 SQVKL--------DRLNRGRWKR 323


>gi|260753800|ref|YP_003226693.1| transcription-repair coupling factor [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
 gi|258553163|gb|ACV76109.1| transcription-repair coupling factor [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
          Length = 1167

 Score = 37.4 bits (86), Expect = 0.90,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +    V     +   +++      L VPV     +
Sbjct: 497 SIGDLVVHSDHGIGCYDGLVSIPVGNAPHDCVALSYQGGD-KLYVPVENIDTL 548


>gi|283856518|ref|YP_163381.2| transcription-repair coupling factor [Zymomonas mobilis subsp.
           mobilis ZM4]
 gi|283775523|gb|AAV90270.2| transcription-repair coupling factor [Zymomonas mobilis subsp.
           mobilis ZM4]
          Length = 1167

 Score = 37.4 bits (86), Expect = 0.91,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +    V     +   +++      L VPV     +
Sbjct: 497 SIGDLVVHSDHGIGCYDGLVSIPVGNAPHDCVALSYQGGD-KLYVPVENIDTL 548


>gi|163868353|ref|YP_001609562.1| transcription repair coupling factor [Bartonella tribocorum CIP
           105476]
 gi|161018009|emb|CAK01567.1| transcription repair coupling factor [Bartonella tribocorum CIP
           105476]
          Length = 1166

 Score = 37.4 bits (86), Expect = 0.91,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    +K     G+  +   I +    + L +PV    
Sbjct: 499 GDIVVHIDHGIGQFVGLKTITTTGILRDCLEIKYAGGDL-LFLPVENIE 546


>gi|154507723|ref|ZP_02043365.1| hypothetical protein ACTODO_00205 [Actinomyces odontolyticus ATCC
           17982]
 gi|153797357|gb|EDN79777.1| hypothetical protein ACTODO_00205 [Actinomyces odontolyticus ATCC
           17982]
          Length = 1194

 Score = 37.4 bits (86), Expect = 0.91,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 9/76 (11%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEV----AGMKLEFFVIAFDKDKM- 55
           M  ++++         G++IV+  HG+G   E+  + +    A    ++ VI +   K  
Sbjct: 502 MPSRRRKGVDPLTLHPGDYIVHDQHGIGRFIELVSRTIGRGDAASTRDYLVIEYAPSKRG 561

Query: 56  ----CLKVPVGKAIDI 67
                L VP      I
Sbjct: 562 QPADRLFVPTDALDQI 577


>gi|325200091|gb|ADY95546.1| transcription-repair coupling factor [Neisseria meningitidis
           H44/76]
          Length = 1379

 Score = 37.4 bits (86), Expect = 0.93,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 711 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 762


>gi|312796442|ref|YP_004029364.1| transcription-repair coupling factor [Burkholderia rhizoxinica HKI
           454]
 gi|312168217|emb|CBW75220.1| Transcription-repair coupling factor [Burkholderia rhizoxinica HKI
           454]
          Length = 1165

 Score = 37.4 bits (86), Expect = 0.93,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HGVG    +   ++     EF  +A+ +    L VPV +
Sbjct: 492 KVGDPVVHSQHGVGRYMGLVTMDLGEGDTEFLHLAY-QGDSKLYVPVSQ 539


>gi|82777273|ref|YP_403622.1| transcription-repair coupling factor [Shigella dysenteriae Sd197]
 gi|309788186|ref|ZP_07682792.1| transcription-repair coupling factor [Shigella dysenteriae 1617]
 gi|81241421|gb|ABB62131.1| transcription-repair coupling factor [Shigella dysenteriae Sd197]
 gi|308924038|gb|EFP69539.1| transcription-repair coupling factor [Shigella dysenteriae 1617]
          Length = 1148

 Score = 37.4 bits (86), Expect = 0.93,   Method: Composition-based stats.
 Identities = 29/127 (22%), Positives = 49/127 (38%), Gaps = 16/127 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R     
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGV 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSY-- 133
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E     
Sbjct: 537 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKEGFAFK 584

Query: 134 SERQLYE 140
            ER+ Y+
Sbjct: 585 HEREQYQ 591


>gi|127512559|ref|YP_001093756.1| transcription-repair coupling factor [Shewanella loihica PV-4]
 gi|126637854|gb|ABO23497.1| transcription-repair coupling factor [Shewanella loihica PV-4]
          Length = 1160

 Score = 37.4 bits (86), Expect = 0.93,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  HGV     ++  +  G+  E+  + +      L VPV     I
Sbjct: 486 KVGQPIVHLDHGVALYQGLETLDTGGLVAEYLKLEYAGGD-KLYVPVASLNLI 537


>gi|241762219|ref|ZP_04760301.1| transcription-repair coupling factor [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
 gi|241373266|gb|EER62885.1| transcription-repair coupling factor [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
          Length = 1167

 Score = 37.4 bits (86), Expect = 0.94,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +    V     +   +++      L VPV     +
Sbjct: 497 SIGDLVVHSDHGIGCYDGLVSIPVGNAPHDCVALSYQGGD-KLYVPVENIDTL 548


>gi|225024865|ref|ZP_03714057.1| hypothetical protein EIKCOROL_01753 [Eikenella corrodens ATCC
           23834]
 gi|224942394|gb|EEG23603.1| hypothetical protein EIKCOROL_01753 [Eikenella corrodens ATCC
           23834]
          Length = 1271

 Score = 37.4 bits (86), Expect = 0.94,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 603 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 654


>gi|68536699|ref|YP_251404.1| putative ATP-dependent DNA helicase II [Corynebacterium jeikeium
           K411]
 gi|68264298|emb|CAI37786.1| putative ATP-dependent DNA helicase II [Corynebacterium jeikeium
           K411]
          Length = 1104

 Score = 37.4 bits (86), Expect = 0.94,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 46/130 (35%), Gaps = 19/130 (14%)

Query: 70  RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQP 129
           R ++ A    +  +++RG        W          + +      A+ +RDL    ++ 
Sbjct: 125 RLITGAEHDMQIREILRGTEEDGNRYWP------TNVVPALSYAGFAQQLRDLLLRATER 178

Query: 130 EKSYS---------ERQLYESALNRMVREIAAVNSISEPE---AINLIEVNLSSKSSKTE 177
             S           +R ++E+A  R  +E   V  +S  E   A  L+   L++      
Sbjct: 179 GLSAQQLQQLGVEHDRPMWEAA-GRFQQEYQQVQRLSRSESLNASELLHATLAAFEKPEG 237

Query: 178 KSTSENQDKA 187
           +   E Q + 
Sbjct: 238 EQLVEQQREK 247


>gi|114565647|ref|YP_752801.1| transcription-repair coupling factor [Syntrophomonas wolfei subsp.
           wolfei str. Goettingen]
 gi|114336582|gb|ABI67430.1| Transcription-repair coupling factor - superfamily II helicase
           [Syntrophomonas wolfei subsp. wolfei str. Goettingen]
          Length = 1073

 Score = 37.4 bits (86), Expect = 0.94,   Method: Composition-based stats.
 Identities = 18/122 (14%), Positives = 45/122 (36%), Gaps = 26/122 (21%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+ ++G+G    + + E +G+  E+ ++ +      L +P+ K           
Sbjct: 423 KLGDYVVHESYGIGIFRGVSQVENSGITREYILLEYAGTD-RLYLPLEK----------- 470

Query: 75  AHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQ 128
              ++   K      +  R        W R  ++         +  +AE +  L+     
Sbjct: 471 ---LDLLFKYTSSGDKEPRLNKLGGSAWERTRKKVAQ-----SIQDLAEDLLQLYAHRES 522

Query: 129 PE 130
            E
Sbjct: 523 RE 524


>gi|89897946|ref|YP_515056.1| transcription-repair coupling factor [Chlamydophila felis Fe/C-56]
 gi|89331318|dbj|BAE80911.1| transcription-repair coupling factor-superfamily II helicase
           [Chlamydophila felis Fe/C-56]
          Length = 1084

 Score = 37.4 bits (86), Expect = 0.94,   Method: Composition-based stats.
 Identities = 19/92 (20%), Positives = 41/92 (44%), Gaps = 11/92 (11%)

Query: 16  TGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
            GE +V+  +G+G    ++++     ++ ++ V+ +  DK  L VP  +A  I  R +  
Sbjct: 435 PGETVVHLHNGIGKFIGMEKKPNHLNIETDYLVLEYA-DKARLYVPSDQAYLIS-RYVGT 492

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAK 106
           +      L  + G      + W  R+++   K
Sbjct: 493 SEKTPD-LHNLNG------SKWK-RSRDLSEK 516


>gi|15677148|ref|NP_274301.1| transcription-repair coupling factor [Neisseria meningitidis MC58]
 gi|7226520|gb|AAF41657.1| transcription-repair coupling factor [Neisseria meningitidis MC58]
          Length = 1379

 Score = 37.4 bits (86), Expect = 0.95,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 711 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 762


>gi|161870155|ref|YP_001599325.1| transcription-repair coupling factor [Neisseria meningitidis
           053442]
 gi|161595708|gb|ABX73368.1| transcription-repair coupling factor [Neisseria meningitidis
           053442]
          Length = 1371

 Score = 37.4 bits (86), Expect = 0.96,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 703 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 754


>gi|255691931|ref|ZP_05415606.1| transcription-repair coupling factor [Bacteroides finegoldii DSM
           17565]
 gi|260622336|gb|EEX45207.1| transcription-repair coupling factor [Bacteroides finegoldii DSM
           17565]
          Length = 1123

 Score = 37.4 bits (86), Expect = 0.98,   Method: Composition-based stats.
 Identities = 26/162 (16%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  D +                  
Sbjct: 435 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNDDVVF---------------V 479

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 480 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 531

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 532 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 570


>gi|154483284|ref|ZP_02025732.1| hypothetical protein EUBVEN_00985 [Eubacterium ventriosum ATCC
           27560]
 gi|149735794|gb|EDM51680.1| hypothetical protein EUBVEN_00985 [Eubacterium ventriosum ATCC
           27560]
          Length = 1168

 Score = 37.4 bits (86), Expect = 0.98,   Method: Composition-based stats.
 Identities = 10/39 (25%), Positives = 21/39 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
             G+++V+  HG+G    I++ EV  +  ++  I + K 
Sbjct: 501 NIGDYVVHENHGLGVYRGIEKIEVDHIVKDYIKIEYAKG 539


>gi|299143244|ref|ZP_07036324.1| transcription-repair coupling factor [Peptoniphilus sp. oral taxon
           386 str. F0131]
 gi|298517729|gb|EFI41468.1| transcription-repair coupling factor [Peptoniphilus sp. oral taxon
           386 str. F0131]
          Length = 1161

 Score = 37.4 bits (86), Expect = 0.99,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G     K  EV  +K ++ VI +  +   L +P+     I
Sbjct: 495 NIGDYVVHEVHGIGKYIGTKRLEVQNVKKDYIVIEYKGED-KLFLPIESLNLI 546


>gi|294668965|ref|ZP_06734052.1| transcription-repair coupling factor [Neisseria elongata subsp.
           glycolytica ATCC 29315]
 gi|291309138|gb|EFE50381.1| transcription-repair coupling factor [Neisseria elongata subsp.
           glycolytica ATCC 29315]
          Length = 1072

 Score = 37.4 bits (86), Expect = 0.99,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 404 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 455


>gi|302419335|ref|XP_003007498.1| conserved hypothetical protein [Verticillium albo-atrum VaMs.102]
 gi|261353149|gb|EEY15577.1| conserved hypothetical protein [Verticillium albo-atrum VaMs.102]
          Length = 2491

 Score = 37.4 bits (86), Expect = 0.99,   Method: Composition-based stats.
 Identities = 28/137 (20%), Positives = 56/137 (40%), Gaps = 19/137 (13%)

Query: 62   GKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
                  G+R + E + +E  L  +R +         R  +E++    SG     +EV R 
Sbjct: 1974 ENGERQGLRAVGECNRLESLLAELRTENHKLEQKAMRHQREFEEARESG----ASEVQR- 2028

Query: 122  LHRTDSQPEKSYSE------RQLYESALNRMVREIAAVN---SISEPEAINLIEVNLSSK 172
              R   Q E   +       R+  E  ++++  E+   N     ++ +A  L+E   ++K
Sbjct: 2029 -TRRSMQSEIDEANNQVNYVRRDLEEQISKLQAELDQANVDVESAKAQAEMLVEEVQTNK 2087

Query: 173  SSK----TEKSTSENQD 185
            +++     EK  +E +D
Sbjct: 2088 TTEIEQLKEKHQNEVED 2104


>gi|119898994|ref|YP_934207.1| flagellin [Azoarcus sp. BH72]
 gi|119671407|emb|CAL95320.1| flagellin [Azoarcus sp. BH72]
          Length = 493

 Score = 37.4 bits (86), Expect = 0.99,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 30/64 (46%), Gaps = 3/64 (4%)

Query: 109 SGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           SGD++     +R+L    S    S S+RQ     +N +  E+  + S +E     L++ +
Sbjct: 85  SGDILQR---IRELAVQSSNATNSASDRQALNDEVNALTSELNRIASTTEFNGKKLLDGS 141

Query: 169 LSSK 172
            ++ 
Sbjct: 142 FTTA 145


>gi|325140492|gb|EGC63013.1| transcription-repair coupling factor [Neisseria meningitidis CU385]
          Length = 1305

 Score = 37.4 bits (86), Expect = 1.00,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 637 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 688


>gi|325134475|gb|EGC57120.1| transcription-repair coupling factor [Neisseria meningitidis
           M13399]
          Length = 1305

 Score = 37.4 bits (86), Expect = 1.00,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 637 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 688


>gi|316984071|gb|EFV63049.1| transcription-repair coupling factor [Neisseria meningitidis
           H44/76]
          Length = 1235

 Score = 37.4 bits (86), Expect = 1.00,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 567 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 618


>gi|315656340|ref|ZP_07909231.1| exopolyphosphatase [Mobiluncus curtisii subsp. holmesii ATCC 35242]
 gi|315493342|gb|EFU82942.1| exopolyphosphatase [Mobiluncus curtisii subsp. holmesii ATCC 35242]
          Length = 1123

 Score = 37.4 bits (86), Expect = 1.00,   Method: Composition-based stats.
 Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 11/87 (12%)

Query: 108 NSGDLIA----IAEVVRDLHRTDSQPE----KSYSERQLYESALNRMVREIAAVNSISEP 159
            +GD+ +     AEV+ DL             S   RQ  ++A     R+IA+V  I + 
Sbjct: 200 KTGDVFSDDATPAEVLVDLMGRQKIRGADGMLSGKLRQS-DNANEL--RKIASVQGIDDE 256

Query: 160 EAINLIEVNLSSKSSKTEKSTSENQDK 186
               +I+    S+S K + S     D 
Sbjct: 257 TLNRIIDRVFFSRSPKGKASERVGMDA 283


>gi|261253317|ref|ZP_05945890.1| transcription-repair coupling factor [Vibrio orientalis CIP 102891]
 gi|260936708|gb|EEX92697.1| transcription-repair coupling factor [Vibrio orientalis CIP 102891]
          Length = 1153

 Score = 37.4 bits (86), Expect = 1.00,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+  + + +++  L VPV     I
Sbjct: 481 QPGQPVVHIDHGIGRYIGLQTLEAGGMVTEYVTLEY-QNEAKLYVPVASLNLI 532


>gi|295676504|ref|YP_003605028.1| transcription-repair coupling factor [Burkholderia sp. CCGE1002]
 gi|295436347|gb|ADG15517.1| transcription-repair coupling factor [Burkholderia sp. CCGE1002]
          Length = 1159

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KVGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|225849434|ref|YP_002729599.1| transcription-repair-coupling factor (trcf) (ATP-dependent helicase
           mfd) [Sulfurihydrogenibium azorense Az-Fu1]
 gi|225643749|gb|ACN98799.1| transcription-repair-coupling factor (trcf) (ATP-dependent helicase
           mfd) [Sulfurihydrogenibium azorense Az-Fu1]
          Length = 938

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 9/45 (20%), Positives = 26/45 (57%), Gaps = 1/45 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           + G++I++  +G+G    I+ +E+ G   +F ++ + + +  + V
Sbjct: 289 KEGDYIIHEDYGIGVFKGIETREIRGKVYDFMILEYAEGE-KVYV 332


>gi|329297178|ref|ZP_08254514.1| transcription-repair coupling factor [Plautia stali symbiont]
          Length = 1147

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 9/93 (9%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++++  D   L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYIGLTTLEAGGIVAEYLMLSYA-DDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
                 L  +   A      WSR  Q+   K+ 
Sbjct: 537 DE-NAPLHKLGSDA------WSRARQKAAEKVR 562


>gi|307701502|ref|ZP_07638520.1| transcription-repair coupling factor [Mobiluncus mulieris FB024-16]
 gi|307613294|gb|EFN92545.1| transcription-repair coupling factor [Mobiluncus mulieris FB024-16]
          Length = 1172

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-GMK---LEFFVIAFDKDKMC 56
           +  ++++         GE++V+  HG+G   +++++ +  G K    E+ V+ +   +  
Sbjct: 481 LPTRRRKTIDPLSLSPGEYVVHAQHGIGRFVKLEKRTIGKGNKATSREYVVLEYAPSQRQ 540

Query: 57  -----LKVPVGKAI 65
                L VP     
Sbjct: 541 GSKDLLWVPTDSLD 554


>gi|269976100|ref|ZP_06183099.1| transcription-repair coupling factor [Mobiluncus mulieris 28-1]
 gi|269935693|gb|EEZ92228.1| transcription-repair coupling factor [Mobiluncus mulieris 28-1]
          Length = 1172

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-GMK---LEFFVIAFDKDKMC 56
           +  ++++         GE++V+  HG+G   +++++ +  G K    E+ V+ +   +  
Sbjct: 481 LPTRRRKTIDPLSLSPGEYVVHAQHGIGRFVKLEKRTIGKGNKATSREYVVLEYAPSQRQ 540

Query: 57  -----LKVPVGKAI 65
                L VP     
Sbjct: 541 GSKDLLWVPTDSLD 554


>gi|227876324|ref|ZP_03994437.1| possible transcription-repair coupling factor [Mobiluncus mulieris
           ATCC 35243]
 gi|306817215|ref|ZP_07450962.1| transcription-repair coupling factor [Mobiluncus mulieris ATCC
           35239]
 gi|227843097|gb|EEJ53293.1| possible transcription-repair coupling factor [Mobiluncus mulieris
           ATCC 35243]
 gi|304650017|gb|EFM47295.1| transcription-repair coupling factor [Mobiluncus mulieris ATCC
           35239]
          Length = 1172

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-GMK---LEFFVIAFDKDKMC 56
           +  ++++         GE++V+  HG+G   +++++ +  G K    E+ V+ +   +  
Sbjct: 481 LPTRRRKTIDPLSLSPGEYVVHAQHGIGRFVKLEKRTIGKGNKATSREYVVLEYAPSQRQ 540

Query: 57  -----LKVPVGKAI 65
                L VP     
Sbjct: 541 GSKDLLWVPTDSLD 554


>gi|149376584|ref|ZP_01894344.1| transcription-repair coupling protein Mfd [Marinobacter algicola
           DG893]
 gi|149359102|gb|EDM47566.1| transcription-repair coupling protein Mfd [Marinobacter algicola
           DG893]
          Length = 1038

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    ++   V G   EF ++ +      L VPV     I
Sbjct: 372 RIGAPVVHIDHGVGRYQGLETITVEGEASEFLMLEYA-GGSKLYVPVSSLHLI 423


>gi|329897463|ref|ZP_08272106.1| Transcription-repair coupling factor [gamma proteobacterium
           IMCC3088]
 gi|328921160|gb|EGG28563.1| Transcription-repair coupling factor [gamma proteobacterium
           IMCC3088]
          Length = 1150

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G  +V+  HGVG    ++   VAG   EF  +    +   L VPV     I
Sbjct: 481 GTPVVHLEHGVGRYEGLQTLSVAGETNEFITL-IYAEGAKLYVPVASLHLI 530


>gi|310767325|gb|ADP12275.1| transcription-repair coupling factor [Erwinia sp. Ejp617]
          Length = 1148

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 29/129 (22%), Positives = 48/129 (37%), Gaps = 22/129 (17%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HGVG    +   E  G+K E+ ++++      L VPV     I  R    A 
Sbjct: 480 GQPVVHLEHGVGRYIGMTTLETGGIKAEYLMLSYA-GDAKLYVPVSSLHLIS-RYAGGAE 537

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS-- 134
                L  +   A      WSR  Q+   K+         +V  +L    +Q        
Sbjct: 538 E-NAPLHKLGSDA------WSRARQKAAEKVR--------DVAAELLDIYAQRAAKTGFA 582

Query: 135 ---ERQLYE 140
              ++Q Y+
Sbjct: 583 FKHDKQQYQ 591


>gi|291546543|emb|CBL19651.1| Predicted oxidoreductases of the aldo/keto reductase family
           [Ruminococcus sp. SR1/5]
          Length = 297

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 16/94 (17%), Positives = 33/94 (35%), Gaps = 9/94 (9%)

Query: 55  MCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINS--GDL 112
           + +  PV      GM   +    VE+ LK    +       W+ R       + +    +
Sbjct: 120 VIIMEPVKG----GMLA-TPPEAVEKLLK--EAEPEASTASWAIRFAANLEGVITVLSGM 172

Query: 113 IAIAEVVRDLHRTDSQPEKSYSERQLYESALNRM 146
             +A++  +L         + SE++  + A   M
Sbjct: 173 SNVAQMEDNLSFMKDFNGLTDSEKETLDKAREAM 206


>gi|269139412|ref|YP_003296113.1| transcription-repair coupling factor (superfamily II helicase)
           [Edwardsiella tarda EIB202]
 gi|267985073|gb|ACY84902.1| transcription-repair coupling factor (superfamily II helicase)
           [Edwardsiella tarda EIB202]
 gi|304559308|gb|ADM41972.1| Transcription-repair coupling factor [Edwardsiella tarda FL6-60]
          Length = 1178

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    +   E  G+K E+ ++++      L VPV  
Sbjct: 510 PGQPVVHLEHGVGRYGGMTTLEAGGIKGEYLILSYA-GDAKLYVPVSS 556


>gi|157375968|ref|YP_001474568.1| transcription-repair coupling factor [Shewanella sediminis HAW-EB3]
 gi|157318342|gb|ABV37440.1| transcription-repair coupling factor [Shewanella sediminis HAW-EB3]
          Length = 1157

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     ++  +  G+  E+ ++ +      L VPV     I  R    
Sbjct: 486 KVGQPIVHLDHGVARYMGLETLDTGGLIAEYLMLEYSGGD-KLYVPVSSLHLIS-RYSVG 543

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
               E  L  +  +       W++  ++   KI 
Sbjct: 544 PDE-EANLNKLGNE------TWAKAKRKAVEKIR 570


>gi|323526062|ref|YP_004228215.1| transcription-repair coupling factor [Burkholderia sp. CCGE1001]
 gi|323383064|gb|ADX55155.1| transcription-repair coupling factor [Burkholderia sp. CCGE1001]
          Length = 1160

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KVGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|170692379|ref|ZP_02883542.1| transcription-repair coupling factor [Burkholderia graminis C4D1M]
 gi|170142809|gb|EDT10974.1| transcription-repair coupling factor [Burkholderia graminis C4D1M]
          Length = 1160

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KVGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|220931077|ref|YP_002507985.1| ATP-dependent DNA helicase PcrA [Halothermothrix orenii H 168]
 gi|219992387|gb|ACL68990.1| ATP-dependent DNA helicase PcrA [Halothermothrix orenii H 168]
          Length = 715

 Score = 37.4 bits (86), Expect = 1.0,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 29/52 (55%), Gaps = 5/52 (9%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC 56
           +++++    ++ G+ +V+P  G G I  +  +E  G++L+   I F K K+ 
Sbjct: 657 KEKESKTGEYKVGDTVVHPRWGKGQIVGV--RENRGLELK---INFGKGKVK 703


>gi|113475354|ref|YP_721415.1| transcription-repair coupling factor [Trichodesmium erythraeum
           IMS101]
 gi|110166402|gb|ABG50942.1| transcription-repair coupling factor [Trichodesmium erythraeum
           IMS101]
          Length = 1180

 Score = 37.4 bits (86), Expect = 1.1,   Method: Composition-based stats.
 Identities = 7/56 (12%), Positives = 22/56 (39%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                +       + G+H+V+  HG+G   +++   +     ++  I +    + +
Sbjct: 487 RQATSKQVNPNKLQPGDHVVHRQHGIGKFVKLESLTLNNETRDYLTIQYADGLLRV 542


>gi|307638232|gb|ADN80682.1| Transcription-repair coupling factor [Helicobacter pylori 908]
          Length = 906

 Score = 37.4 bits (86), Expect = 1.1,   Method: Composition-based stats.
 Identities = 38/176 (21%), Positives = 67/176 (38%), Gaps = 32/176 (18%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             I  R + ++  V      + GK    +     RA+  +    +G +I +A        
Sbjct: 411 HLIA-RYVVQSDSVP-VKDRL-GKGSFLKLKTKVRAKLLEI---AGKIIELA-------- 456

Query: 125 TDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                    +ER L     ++  + E+    S         + +AI  I  +LSS 
Sbjct: 457 ---------AERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISRDLSSH 503


>gi|149918007|ref|ZP_01906501.1| protein containing a von Willebrand factor type A domain
            [Plesiocystis pacifica SIR-1]
 gi|149821273|gb|EDM80677.1| protein containing a von Willebrand factor type A domain
            [Plesiocystis pacifica SIR-1]
          Length = 1606

 Score = 37.4 bits (86), Expect = 1.1,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 40/96 (41%), Gaps = 18/96 (18%)

Query: 92   KRTMWSRRAQEYDAKINSG----------------DLIAIAEVVRDLHRTDSQPEKS-YS 134
            +   W R+ + +   + +G                D+ A A +VR L R    PE +   
Sbjct: 1196 ELANW-RQQRVFLDMLQAGVQTEAEIELLVSHFWTDVAAKAFLVRGLQRRLVDPELTRAL 1254

Query: 135  ERQLYESALNRMVREIAAVNSISEPEAINLIEVNLS 170
            ER L+  A++    E+A   + +  +A+ L+E  L 
Sbjct: 1255 ERALFGDAIDLDRLELAVAAAPTNKQALELVEAALE 1290


>gi|294141531|ref|YP_003557509.1| transcription-repair coupling factor [Shewanella violacea DSS12]
 gi|293328000|dbj|BAJ02731.1| transcription-repair coupling factor [Shewanella violacea DSS12]
          Length = 1157

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     ++  +  G+  E+  + +      L VPV     I  R    
Sbjct: 486 KVGQPIVHLDHGVAKYQGLETLDTGGLIAEYLKLEYAGGD-KLYVPVSALHLIS-RYSVG 543

Query: 75  AHF 77
              
Sbjct: 544 PDE 546


>gi|307729622|ref|YP_003906846.1| transcription-repair coupling factor [Burkholderia sp. CCGE1003]
 gi|307584157|gb|ADN57555.1| transcription-repair coupling factor [Burkholderia sp. CCGE1003]
          Length = 1161

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KVGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|190150660|ref|YP_001969185.1| transcription-repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
 gi|189915791|gb|ACE62043.1| transcription-repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
          Length = 712

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 27/116 (23%), Positives = 51/116 (43%), Gaps = 13/116 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           A      L  +  +A      W++  Q+   KI   D+   AE++    + +SQ  
Sbjct: 542 ADETAP-LHKLGSEA------WAKTRQKAAEKIR--DV--AAELLDVYAKRESQKG 586


>gi|325128294|gb|EGC51178.1| transcription-repair coupling factor [Neisseria meningitidis N1568]
          Length = 1305

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 637 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 688


>gi|331657177|ref|ZP_08358139.1| transcription-repair coupling factor [Escherichia coli TA206]
 gi|331055425|gb|EGI27434.1| transcription-repair coupling factor [Escherichia coli TA206]
          Length = 736

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I  R    A
Sbjct: 67  IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 124

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      WSR  Q+   K+       +A  + D++   +  E
Sbjct: 125 EE-NAPLHKLGGDA------WSRARQKAAEKVR-----DVAAELLDIYAQRAAKE 167


>gi|207091918|ref|ZP_03239705.1| transcription-repair coupling factor (trcF) [Helicobacter pylori
           HPKX_438_AG0C1]
          Length = 911

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 37/178 (20%), Positives = 64/178 (35%), Gaps = 36/178 (20%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 264 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 322

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD--L 122
             I  R ++++  V                           ++  G  + +   VR   L
Sbjct: 323 HLIA-RYVAQSDSVPA-----------------------KDRLGKGSFLKLKAKVRTKLL 358

Query: 123 HRTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                  E   +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 359 EIAGKIIEL-AAERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISRDLSSK 415


>gi|209520701|ref|ZP_03269451.1| transcription-repair coupling factor [Burkholderia sp. H160]
 gi|209498863|gb|EDZ98968.1| transcription-repair coupling factor [Burkholderia sp. H160]
          Length = 1159

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KVGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|293189395|ref|ZP_06608118.1| transcription-repair coupling factor [Actinomyces odontolyticus
           F0309]
 gi|292821858|gb|EFF80794.1| transcription-repair coupling factor [Actinomyces odontolyticus
           F0309]
          Length = 767

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 9/76 (11%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEV----AGMKLEFFVIAFDKDKM- 55
           M  ++++         G++IV+  HG+G   E+  + +    A    ++ VI +   K  
Sbjct: 75  MPSRRRKGVDPLTLHPGDYIVHDQHGIGRFIELVSRTIGRGDAASTRDYLVIEYAPSKRG 134

Query: 56  ----CLKVPVGKAIDI 67
                L VP      I
Sbjct: 135 QPADRLFVPTDALDQI 150


>gi|225873674|ref|YP_002755133.1| transcription-repair coupling factor [Acidobacterium capsulatum
           ATCC 51196]
 gi|225794589|gb|ACO34679.1| transcription-repair coupling factor [Acidobacterium capsulatum
           ATCC 51196]
          Length = 1189

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+     +KE    G  LEF ++ F ++   L VP+ +   I
Sbjct: 517 VGDYVVHVEHGIARYLGLKEIAQDGTTLEFMILEFAEEA-KLYVPLTRLDLI 567


>gi|156934399|ref|YP_001438315.1| transcription-repair coupling factor [Cronobacter sakazakii ATCC
           BAA-894]
 gi|156532653|gb|ABU77479.1| hypothetical protein ESA_02230 [Cronobacter sakazakii ATCC BAA-894]
          Length = 1148

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 478 RPGQPVVHLEHGVGRYAGLTTLEAGGITAEYLMLTYA-NDAKLYVPVSSLHLI 529


>gi|313668421|ref|YP_004048705.1| transcription-repair coupling factor [Neisseria lactamica ST-640]
 gi|313005883|emb|CBN87339.1| transcription-repair coupling factor [Neisseria lactamica 020-06]
          Length = 1164

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 494 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 545


>gi|309379212|emb|CBX22169.1| unnamed protein product [Neisseria lactamica Y92-1009]
          Length = 1164

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 494 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 545


>gi|301059200|ref|ZP_07200138.1| transcription-repair coupling factor [delta proteobacterium NaphS2]
 gi|300446690|gb|EFK10517.1| transcription-repair coupling factor [delta proteobacterium NaphS2]
          Length = 1180

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           + G+ +V+  HG+G    +   E+A    +F +I +   K  L +P  +  
Sbjct: 516 KAGDLVVHEEHGIGRYKGLSTMEIAQRIQDFVIIEYAA-KSKLYLPADRVS 565


>gi|284799822|ref|ZP_05984959.2| transcription-repair coupling factor [Neisseria subflava NJ9703]
 gi|284796912|gb|EFC52259.1| transcription-repair coupling factor [Neisseria subflava NJ9703]
          Length = 1164

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 496 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 547


>gi|171058689|ref|YP_001791038.1| transcription-repair coupling factor [Leptothrix cholodnii SP-6]
 gi|170776134|gb|ACB34273.1| transcription-repair coupling factor [Leptothrix cholodnii SP-6]
          Length = 1155

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    +   ++     EF  + +  D+  L VPV +   I
Sbjct: 479 KVGDPVVHANHGIGRYQGLVSIDLGEGPTEFLFLEYA-DQATLYVPVSQLQLI 530


>gi|187923864|ref|YP_001895506.1| transcription-repair coupling factor [Burkholderia phytofirmans
           PsJN]
 gi|187715058|gb|ACD16282.1| transcription-repair coupling factor [Burkholderia phytofirmans
           PsJN]
          Length = 1160

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KVGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|307154808|ref|YP_003890192.1| transcription-repair coupling factor [Cyanothece sp. PCC 7822]
 gi|306985036|gb|ADN16917.1| transcription-repair coupling factor [Cyanothece sp. PCC 7822]
          Length = 1169

 Score = 37.0 bits (85), Expect = 1.1,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%), Gaps = 6/53 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+++V+  HG+G   +++  E      E+ +I +      L++P      +
Sbjct: 505 RPGDYVVHRHHGIGKFIKLEILE----SREYVLIQYADG--TLRIPSDSLDSL 551


>gi|254493915|ref|ZP_05107086.1| LOW QUALITY PROTEIN: transcription-repair coupling factor
           [Neisseria gonorrhoeae 1291]
 gi|226512955|gb|EEH62300.1| LOW QUALITY PROTEIN: transcription-repair coupling factor
           [Neisseria gonorrhoeae 1291]
          Length = 739

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G  T +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 69  NIGDPVVHEEHGIGRYTGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 120


>gi|114563569|ref|YP_751082.1| transcription-repair coupling factor [Shewanella frigidimarina
           NCIMB 400]
 gi|114334862|gb|ABI72244.1| transcription-repair coupling factor [Shewanella frigidimarina
           NCIMB 400]
          Length = 1178

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 12/78 (15%)

Query: 1   MTFQQKRDAMRQ-----------GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA 49
           ++ Q++R+  +Q             + G+ IV+  HGV     ++  +  G+  E+  + 
Sbjct: 477 ISQQRRREKQKQVSTDVLVKNLAELKVGQPIVHLEHGVALYQGLETLDTGGLVAEYLKLE 536

Query: 50  FDKDKMCLKVPVGKAIDI 67
           +      L VPV     I
Sbjct: 537 YSGGD-KLYVPVSSLHLI 553


>gi|332346187|gb|AEE59521.1| conserved hypothetical protein [Escherichia coli UMNK88]
          Length = 485

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 34/84 (40%), Gaps = 4/84 (4%)

Query: 102 EYDAKINSGDLIAIAEVVRDLHR---TDSQPEKSYSERQLYESALNRMVREIAAVNSISE 158
              AK+ SG L   A V++ L R     +   +   E  + ++    ++     V  +SE
Sbjct: 346 ANLAKLRSGSLTVTAGVIKALQRDPDNAALTGRLAGELAMADTVETALLMRRMIVTGMSE 405

Query: 159 PEAINLIEVNLSSKSSKTEKSTSE 182
           P A+ L +  L+    + E    E
Sbjct: 406 PNAM-LQDDALAEGERRIEALDRE 428


>gi|261400667|ref|ZP_05986792.1| transcription-repair coupling factor [Neisseria lactamica ATCC
           23970]
 gi|269209577|gb|EEZ76032.1| transcription-repair coupling factor [Neisseria lactamica ATCC
           23970]
          Length = 1164

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 494 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 545


>gi|294788315|ref|ZP_06753558.1| transcription-repair coupling factor [Simonsiella muelleri ATCC
           29453]
 gi|294483746|gb|EFG31430.1| transcription-repair coupling factor [Simonsiella muelleri ATCC
           29453]
          Length = 1131

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   + +G   E  ++ +  ++  L VPV +   I
Sbjct: 467 NIGDPVVHQEHGIGRYMGLTVMDFSGASTEMMLLEYA-NESQLYVPVSQLHLI 518


>gi|225375822|ref|ZP_03753043.1| hypothetical protein ROSEINA2194_01454 [Roseburia inulinivorans DSM
           16841]
 gi|225212257|gb|EEG94611.1| hypothetical protein ROSEINA2194_01454 [Roseburia inulinivorans DSM
           16841]
          Length = 1183

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 19/40 (47%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
             G+++V+  HG+G    I++ EV     ++  I +    
Sbjct: 504 NIGDYVVHENHGLGIYRGIEKIEVDKTVKDYIKIEYAGGG 543


>gi|119960591|ref|YP_947136.1| transcription-repair coupling factor [Arthrobacter aurescens TC1]
 gi|119947450|gb|ABM06361.1| transcription-repair coupling factor [Arthrobacter aurescens TC1]
          Length = 1210

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 11/78 (14%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMK------LEFFVIAFDKDK 54
           M  +++          G+ +V+  HG+G   E+ +++VAG         E+ V+ +   K
Sbjct: 513 MPSKRRNAVDPLQLHAGDFVVHEQHGIGRFVELIQRKVAGTSSSDAGLREYLVLEYAPSK 572

Query: 55  M-----CLKVPVGKAIDI 67
                  L VP  +   +
Sbjct: 573 RGAPGDRLFVPTDQLDQV 590


>gi|331084270|ref|ZP_08333375.1| transcription-repair coupling factor [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|330401805|gb|EGG81382.1| transcription-repair coupling factor [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 1182

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 22/51 (43%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +  KR         G+++V+  HG+G    I++  V  +  ++  I +   
Sbjct: 500 YSGKRIQSFNELSIGDYVVHENHGLGVYKGIEKITVDKVAKDYIKIEYAGG 550


>gi|254247951|ref|ZP_04941272.1| Transcription-repair coupling factor [Burkholderia cenocepacia
           PC184]
 gi|124872727|gb|EAY64443.1| Transcription-repair coupling factor [Burkholderia cenocepacia
           PC184]
          Length = 1164

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 490 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEY-SGDSKLYVPVAQ 537


>gi|297518235|ref|ZP_06936621.1| transcription-repair coupling factor [Escherichia coli OP50]
          Length = 542

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLI 529


>gi|284928643|ref|YP_003421165.1| transcription-repair coupling factor [cyanobacterium UCYN-A]
 gi|284809102|gb|ADB94807.1| transcription-repair coupling factor [cyanobacterium UCYN-A]
          Length = 1151

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 15/108 (13%), Positives = 38/108 (35%), Gaps = 17/108 (15%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
              +    Q   +G+H+V+ +HG+G    ++         E+ V+        L+VP   
Sbjct: 478 SNAKKVNLQKLNSGDHVVHKSHGIGKFLRLENLS----NREYLVVQ--YSDGVLRVPADS 531

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMW---SRRAQEYDAKIN 108
             ++ +R         +         ++    W    ++ ++   K+ 
Sbjct: 532 LDNL-LRYSCTDSTPPKL-------HKMTGKDWGKLKQKIRKNIKKLA 571


>gi|260589951|ref|ZP_05855864.1| transcription-repair coupling factor [Blautia hansenii DSM 20583]
 gi|260539758|gb|EEX20327.1| transcription-repair coupling factor [Blautia hansenii DSM 20583]
          Length = 1182

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 22/51 (43%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +  KR         G+++V+  HG+G    I++  V  +  ++  I +   
Sbjct: 500 YSGKRIQSFNELSIGDYVVHENHGLGVYKGIEKITVDKVAKDYIKIEYAGG 550


>gi|197302598|ref|ZP_03167653.1| hypothetical protein RUMLAC_01327 [Ruminococcus lactaris ATCC
           29176]
 gi|197298496|gb|EDY33041.1| hypothetical protein RUMLAC_01327 [Ruminococcus lactaris ATCC
           29176]
          Length = 1117

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 22/40 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           + G+++V+  HG+G    I++ EV  +  ++  I++    
Sbjct: 445 KPGDYVVHENHGLGVYQGIEKVEVDKVTRDYMKISYADGG 484


>gi|149278180|ref|ZP_01884318.1| transcription-repair coupling factor [Pedobacter sp. BAL39]
 gi|149230946|gb|EDM36327.1| transcription-repair coupling factor [Pedobacter sp. BAL39]
          Length = 1114

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 8/44 (18%), Positives = 21/44 (47%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +  + G+ + +  HG+G    +++ EV G   E   + +  + +
Sbjct: 435 RDLKPGDFVTHIDHGIGKYAGLEKVEVNGKTQEMIRLVYADNDL 478


>gi|329850695|ref|ZP_08265540.1| transcription-repair coupling factor [Asticcacaulis biprosthecum
           C19]
 gi|328841010|gb|EGF90581.1| transcription-repair coupling factor [Asticcacaulis biprosthecum
           C19]
          Length = 1161

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           A       G+ +V+  HG+G    +K   V     +   + +  +   L +PV    
Sbjct: 486 AEASSLSPGDLVVHIEHGIGRYEGLKTLSVNDAPHDCLELHYAAES-KLYLPVENID 541


>gi|225619936|ref|YP_002721193.1| transcription-repair coupling factor [Brachyspira hyodysenteriae
           WA1]
 gi|225214755|gb|ACN83489.1| transcription-repair coupling factor [Brachyspira hyodysenteriae
           WA1]
          Length = 1247

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G++ V+  +G+G    +  +   G + ++  + + K    L +PV +   +
Sbjct: 520 NVGDYAVHVNYGIGKYLGLTRKMSNGKEKDYITLEYAKGD-KLYIPVEQMNFV 571


>gi|206560380|ref|YP_002231144.1| transcription-repair coupling factor [Burkholderia cenocepacia
           J2315]
 gi|198036421|emb|CAR52317.1| transcription-repair coupling factor [Burkholderia cenocepacia
           J2315]
          Length = 1164

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 490 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEY-SGDSKLYVPVAQ 537


>gi|75762569|ref|ZP_00742423.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74489951|gb|EAO53313.1| CarD-like transcriptional regulator [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 28

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 4/27 (14%), Positives = 14/27 (51%)

Query: 138 LYESALNRMVREIAAVNSISEPEAINL 164
           + ++A   ++ E+  +  I+E +  + 
Sbjct: 1   MLDNAHEFLISELGLIKGITENQIKSF 27


>gi|312172099|emb|CBX80356.1| Transcription-repair-coupling factor [Erwinia amylovora ATCC
           BAA-2158]
          Length = 1148

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 30/130 (23%), Positives = 48/130 (36%), Gaps = 22/130 (16%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++A+      L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYIGMTTLETGGIKAEYLMLAYA-GDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS- 134
                 L  +   A      WSR  Q+   K+         +V  +L    +Q       
Sbjct: 537 EE-NAPLHKLGSDA------WSRARQKAAEKVR--------DVAAELLDIYAQRAAKTGF 581

Query: 135 ----ERQLYE 140
               ++Q Y+
Sbjct: 582 AFKHDKQQYQ 591


>gi|292487974|ref|YP_003530851.1| transcription-repair-coupling factor [Erwinia amylovora CFBP1430]
 gi|292899191|ref|YP_003538560.1| transcription-repair coupling factor (TrcF) [Erwinia amylovora ATCC
           49946]
 gi|291199039|emb|CBJ46150.1| transcription-repair coupling factor (TrcF) [Erwinia amylovora ATCC
           49946]
 gi|291553398|emb|CBA20443.1| Transcription-repair-coupling factor [Erwinia amylovora CFBP1430]
          Length = 1148

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 30/130 (23%), Positives = 48/130 (36%), Gaps = 22/130 (16%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++A+      L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYIGMTTLETGGIKAEYLMLAYA-GDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS- 134
                 L  +   A      WSR  Q+   K+         +V  +L    +Q       
Sbjct: 537 EE-NAPLHKLGSDA------WSRARQKAAEKVR--------DVAAELLDIYAQRAAKTGF 581

Query: 135 ----ERQLYE 140
               ++Q Y+
Sbjct: 582 AFKHDKQQYQ 591


>gi|294636793|ref|ZP_06715130.1| transcription-repair coupling factor [Edwardsiella tarda ATCC
           23685]
 gi|291089984|gb|EFE22545.1| transcription-repair coupling factor [Edwardsiella tarda ATCC
           23685]
          Length = 847

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            G+ +V+  HGVG    +   E  G+K E+ ++++      L VPV  
Sbjct: 179 PGQPVVHLEHGVGRYGGMTTLEAGGIKGEYLILSYA-GDAKLYVPVSS 225


>gi|255065241|ref|ZP_05317096.1| transcription-repair coupling factor [Neisseria sicca ATCC 29256]
 gi|255050662|gb|EET46126.1| transcription-repair coupling factor [Neisseria sicca ATCC 29256]
          Length = 1158

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 490 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 541


>gi|241760119|ref|ZP_04758217.1| transcription-repair coupling factor [Neisseria flavescens SK114]
 gi|241319573|gb|EER56003.1| transcription-repair coupling factor [Neisseria flavescens SK114]
          Length = 1134

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 466 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 517


>gi|170733304|ref|YP_001765251.1| transcription-repair coupling factor [Burkholderia cenocepacia
           MC0-3]
 gi|169816546|gb|ACA91129.1| transcription-repair coupling factor [Burkholderia cenocepacia
           MC0-3]
          Length = 1156

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEY-SGDSKLYVPVAQ 529


>gi|107028877|ref|YP_625972.1| transcription-repair coupling factor [Burkholderia cenocepacia AU
           1054]
 gi|116689965|ref|YP_835588.1| transcription-repair coupling factor [Burkholderia cenocepacia
           HI2424]
 gi|105898041|gb|ABF80999.1| transcription-repair coupling factor [Burkholderia cenocepacia AU
           1054]
 gi|116648054|gb|ABK08695.1| transcription-repair coupling factor [Burkholderia cenocepacia
           HI2424]
          Length = 1156

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEY-SGDSKLYVPVAQ 529


>gi|220912069|ref|YP_002487378.1| transcription-repair coupling factor [Arthrobacter chlorophenolicus
           A6]
 gi|219858947|gb|ACL39289.1| transcription-repair coupling factor [Arthrobacter chlorophenolicus
           A6]
          Length = 1220

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAG---MKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+H+V+  HG+G   E+ +++VAG      E+ V+ +   K       L VP  +   +
Sbjct: 542 GDHVVHEQHGIGRFVELLQRKVAGGSDGVREYLVLEYAPSKRGAPGDRLFVPTDQLDQV 600


>gi|210135730|ref|YP_002302169.1| transcription-repair coupling factor [Helicobacter pylori P12]
 gi|210133698|gb|ACJ08689.1| transcription-repair coupling factor [Helicobacter pylori P12]
          Length = 999

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 37/178 (20%), Positives = 64/178 (35%), Gaps = 36/178 (20%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD--L 122
             I  R ++++  V                           ++  G  + +   VR   L
Sbjct: 411 HLIA-RYVAQSDSVPA-----------------------KDRLGKGSFLKLKAKVRTKLL 446

Query: 123 HRTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                  E   +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 447 EIASKIIEL-AAERNLILGKKMDTHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|167945057|ref|ZP_02532131.1| hypothetical protein Epers_00520 [Endoriftia persephone
           'Hot96_1+Hot96_2']
          Length = 222

 Score = 37.0 bits (85), Expect = 1.2,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 36/102 (35%), Gaps = 13/102 (12%)

Query: 89  ARVKRTMWS------RRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESA 142
               + MW+       R +E    + +GD+  +A ++  L + +     S  E +L  +A
Sbjct: 29  DSPSKNMWAFHDDIRARIKEVRLVLEAGDMQQVA-LLFPLLQDEMTRLMSVEETRLLPNA 87

Query: 143 LNRM-VREIAAVNSISEPEAINLIEVNLSSKSSKTEKSTSEN 183
           L  +   E  A+ +  E      I   L+           E 
Sbjct: 88  LQLLDKSEWQAMRAGDEE-----IGWMLNETPPPYPAPVEEE 124


>gi|302383042|ref|YP_003818865.1| transcription-repair coupling factor [Brevundimonas subvibrioides
           ATCC 15264]
 gi|302193670|gb|ADL01242.1| transcription-repair coupling factor [Brevundimonas subvibrioides
           ATCC 15264]
          Length = 1150

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           A      TG+ +V+  HG+G    +K  ++     +   +        L +PV    
Sbjct: 476 AEASALTTGDLVVHLDHGIGRYEGLKTLDIQEAPHDCLEL-LYAGDSKLYLPVENID 531


>gi|78066724|ref|YP_369493.1| transcription-repair coupling factor [Burkholderia sp. 383]
 gi|77967469|gb|ABB08849.1| transcription-repair coupling factor [Burkholderia sp. 383]
          Length = 1156

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEY-SGDSKLYVPVAQ 529


>gi|325996826|gb|ADZ52231.1| Transcription-repair coupling factor [Helicobacter pylori 2018]
 gi|325998418|gb|ADZ50626.1| Transcription-repair coupling factor [Helicobacter pylori 2017]
          Length = 1001

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 38/176 (21%), Positives = 67/176 (38%), Gaps = 32/176 (18%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             I  R + ++  V      + GK    +     RA+  +    +G +I +A        
Sbjct: 411 HLIA-RYVVQSDSVP-VKDRL-GKGSFLKLKTKVRAKLLEI---AGKIIELA-------- 456

Query: 125 TDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                    +ER L     ++  + E+    S         + +AI  I  +LSS 
Sbjct: 457 ---------AERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISRDLSSH 503


>gi|307250599|ref|ZP_07532540.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|306857340|gb|EFM89455.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
          Length = 1149

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKTEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|218513284|ref|ZP_03510124.1| transcription-repair coupling factor [Rhizobium etli 8C-3]
          Length = 338

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 19 HIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
          ++V+  HG+G    ++  EV G+  ++  I +  D   L +PV +   I
Sbjct: 1  YVVHANHGIGKYIGMETLEVDGVHQDYMTILYQNDD-KLFIPVTQLNLI 48


>gi|325962661|ref|YP_004240567.1| transcription-repair coupling factor Mfd [Arthrobacter
           phenanthrenivorans Sphe3]
 gi|323468748|gb|ADX72433.1| transcription-repair coupling factor Mfd [Arthrobacter
           phenanthrenivorans Sphe3]
          Length = 1221

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 8/59 (13%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAG---MKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+H+V+  HG+G   E+ +++VAG      E+ V+ +   K       L VP  +   +
Sbjct: 543 GDHVVHEQHGIGKFVELIQRKVAGGGDGVREYLVLEYAPSKRGAPGDRLFVPTDQLDQV 601


>gi|226323668|ref|ZP_03799186.1| hypothetical protein COPCOM_01443 [Coprococcus comes ATCC 27758]
 gi|225207852|gb|EEG90206.1| hypothetical protein COPCOM_01443 [Coprococcus comes ATCC 27758]
          Length = 813

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 22/40 (55%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           + G+++V+  HG+G    I++ EV  +  ++  I++    
Sbjct: 141 KPGDYVVHENHGLGIYRGIEKIEVDKVTKDYMKISYADGG 180


>gi|254780073|ref|YP_003058180.1| Transcription-repair coupling factor [Helicobacter pylori B38]
 gi|254001986|emb|CAX30245.1| Transcription-repair coupling factor [Helicobacter pylori B38]
          Length = 995

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 38/177 (21%), Positives = 66/177 (37%), Gaps = 32/177 (18%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            +K          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV  
Sbjct: 351 YRKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVEN 409

Query: 64  AIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLH 123
              I  R ++++  V      + GK    +     RA+          L+ IA       
Sbjct: 410 LHLIA-RYVAQSDSVP-VKDRL-GKGSFLKLKAKVRAK----------LLEIA------- 449

Query: 124 RTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                 E   +ER L     ++  + E+    S         + +AI  I  +LSS 
Sbjct: 450 --SKIIEL-AAERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSH 503


>gi|222085973|ref|YP_002544505.1| transcription-repair coupling factor [Agrobacterium radiobacter
           K84]
 gi|221723421|gb|ACM26577.1| transcription-repair coupling factor [Agrobacterium radiobacter
           K84]
          Length = 1166

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    ++  E AG       + +  D   L +PV    
Sbjct: 499 GLDEGSIVVHAEHGIGRFVGLRTIEAAGAPHACLELQYA-DDAKLFLPVENID 550


>gi|213965538|ref|ZP_03393733.1| transcription-repair coupling factor [Corynebacterium amycolatum
           SK46]
 gi|213951922|gb|EEB63309.1| transcription-repair coupling factor [Corynebacterium amycolatum
           SK46]
          Length = 1215

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 9/62 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVA-GMKL---EFFVIAFDKDKM-----CLKVPVGK 63
             + G+++V+  HG+G   ++ E+ +  G      E+ V+ +   K       L VP+  
Sbjct: 518 ALKAGDYVVHDTHGIGRFVKLTERTIGTGEDQARREYVVLEYAPSKRGGPSDQLYVPMES 577

Query: 64  AI 65
             
Sbjct: 578 LD 579


>gi|255529938|ref|YP_003090310.1| transcription-repair coupling factor [Pedobacter heparinus DSM
           2366]
 gi|255342922|gb|ACU02248.1| transcription-repair coupling factor [Pedobacter heparinus DSM
           2366]
          Length = 1113

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 8/44 (18%), Positives = 21/44 (47%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +  + G+ + +  HG+G    +++ EV G   E   + +  + +
Sbjct: 435 RDLKPGDFVTHIDHGIGKYAGLEKVEVNGKTQEMIRLVYADNDL 478


>gi|218289816|ref|ZP_03494016.1| UvrD/REP helicase [Alicyclobacillus acidocaldarius LAA1]
 gi|218240107|gb|EED07292.1| UvrD/REP helicase [Alicyclobacillus acidocaldarius LAA1]
          Length = 705

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 3/42 (7%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC 56
           R G+ +V+P HG G +  ++    AG +    V+      M 
Sbjct: 651 RPGDRVVHPQHGQGIVLAVETH--AGEER-VQVMFHPSIGMK 689


>gi|15646148|ref|NP_208332.1| transcription-repair coupling factor (trcF) [Helicobacter pylori
           26695]
 gi|3914010|sp|O26066|MFD_HELPY RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|2314723|gb|AAD08581.1| transcription-repair coupling factor (trcF) [Helicobacter pylori
           26695]
          Length = 999

 Score = 37.0 bits (85), Expect = 1.3,   Method: Composition-based stats.
 Identities = 36/178 (20%), Positives = 63/178 (35%), Gaps = 36/178 (20%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD--L 122
             I  R ++++  V                           ++  G  + +   VR   L
Sbjct: 411 HLIA-RYVAQSDSVPA-----------------------KDRLGKGSFLKLKAKVRTKLL 446

Query: 123 HRTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                  E   +ER L     ++  + E+    S         + +AI  I  +LSS 
Sbjct: 447 EIASKIIEL-AAERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSH 503


>gi|319638036|ref|ZP_07992800.1| transcription-repair coupling factor [Neisseria mucosa C102]
 gi|317400681|gb|EFV81338.1| transcription-repair coupling factor [Neisseria mucosa C102]
          Length = 1134

 Score = 37.0 bits (85), Expect = 1.4,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 466 NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 517


>gi|260772487|ref|ZP_05881403.1| transcription-repair coupling factor [Vibrio metschnikovii CIP
           69.14]
 gi|260611626|gb|EEX36829.1| transcription-repair coupling factor [Vibrio metschnikovii CIP
           69.14]
          Length = 978

 Score = 37.0 bits (85), Expect = 1.4,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+  E+  + + +++  L VPV     I
Sbjct: 306 KPGQPVVHIDHGIGRYLGLQTLEAGGITTEYVTLEY-QNEAKLYVPVSSLNLI 357


>gi|218768305|ref|YP_002342817.1| transcription-repair coupling factor [Neisseria meningitidis Z2491]
 gi|121052313|emb|CAM08643.1| transcription-repair coupling factor [Neisseria meningitidis Z2491]
          Length = 1296

 Score = 37.0 bits (85), Expect = 1.4,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 628 NIGDPVVHEEHGIGRYMGLVTIDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 679


>gi|315606044|ref|ZP_07881075.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           180 str. F0310]
 gi|315312326|gb|EFU60412.1| transcription-repair coupling factor [Actinomyces sp. oral taxon
           180 str. F0310]
          Length = 1194

 Score = 37.0 bits (85), Expect = 1.4,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 9/76 (11%)

Query: 1   MTFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEV----AGMKLEFFVIAFDKDKM- 55
           M  ++++         G++IV+  HG+G   E+  + +    A    ++ VI +   K  
Sbjct: 502 MPSRRRKGVDPLTLHPGDYIVHDQHGIGRFIELVSRSIGRGDAASTRDYLVIEYAPSKRG 561

Query: 56  ----CLKVPVGKAIDI 67
                L VP      I
Sbjct: 562 QPADRLFVPTDSLDQI 577


>gi|260597486|ref|YP_003210057.1| transcription-repair coupling factor [Cronobacter turicensis z3032]
 gi|260216663|emb|CBA29998.1| Transcription-repair-coupling factor [Cronobacter turicensis z3032]
          Length = 1167

 Score = 37.0 bits (85), Expect = 1.4,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +   E  G+  E+ ++ +      L VPV     I
Sbjct: 497 RPGQPVVHLEHGVGRYAGLTTLEAGGITAEYLMLTYA-GDAKLYVPVSSLHLI 548


>gi|167586917|ref|ZP_02379305.1| transcription-repair coupling factor [Burkholderia ubonensis Bu]
          Length = 1158

 Score = 37.0 bits (85), Expect = 1.4,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 529


>gi|194337173|ref|YP_002018967.1| transcription-repair coupling factor [Pelodictyon
           phaeoclathratiforme BU-1]
 gi|194309650|gb|ACF44350.1| transcription-repair coupling factor [Pelodictyon
           phaeoclathratiforme BU-1]
          Length = 1103

 Score = 36.6 bits (84), Expect = 1.4,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           Q  + G+++V+  +G+G    ++       + E  ++ +      L V      +I +
Sbjct: 406 QKLKVGDYVVHEDYGIGIFRSLETITAGNSEQECVLVEYAGGD-KLFV---NIQNIRL 459


>gi|189350744|ref|YP_001946372.1| transcription-repair coupling factor [Burkholderia multivorans ATCC
           17616]
 gi|189334766|dbj|BAG43836.1| transcription-repair coupling factor [Burkholderia multivorans ATCC
           17616]
          Length = 1185

 Score = 36.6 bits (84), Expect = 1.4,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 511 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 558


>gi|46447155|ref|YP_008520.1| transcription-repair coupling factor [Candidatus Protochlamydia
           amoebophila UWE25]
 gi|46400796|emb|CAF24245.1| probable transcription-repair coupling factor mfd [Candidatus
           Protochlamydia amoebophila UWE25]
          Length = 1101

 Score = 36.6 bits (84), Expect = 1.4,   Method: Composition-based stats.
 Identities = 38/182 (20%), Positives = 69/182 (37%), Gaps = 33/182 (18%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQ-EVAGMKLEFFVIAFDKDKMCLKVP 60
           +      A       GE IV+  +G+G    I+++    G+  EFF I +  D+  L VP
Sbjct: 445 STYHTSPAETYDLTPGEVIVHLNNGIGRYLGIEKRANHLGILSEFFTIEYA-DQAKLYVP 503

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
             +A  I  + L     + +          +  + W +  +E+                R
Sbjct: 504 FNQAHLI-TKYLGSNEVIPKL-------HTIGSSKWKK-TKEHTE--------------R 540

Query: 121 DLHRTDSQPEKSYSERQL-------YESA-LNRMVREIAAVNSISEPEAINLIEVNLSSK 172
            +    S   KSY+ER++        +SA L     E     +  +  AI+ I+ ++ SK
Sbjct: 541 AILGYASDLLKSYAEREIKEGFAYPIDSADLQSFEGEFPFSETEDQLAAISSIKQDMMSK 600

Query: 173 SS 174
            +
Sbjct: 601 KA 602


>gi|192358851|ref|YP_001982241.1| transcription-repair coupling protein Mfd [Cellvibrio japonicus
           Ueda107]
 gi|190685016|gb|ACE82694.1| transcription-repair coupling protein Mfd [Cellvibrio japonicus
           Ueda107]
          Length = 1184

 Score = 36.6 bits (84), Expect = 1.4,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 1/47 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           + G  +V+  HGVG    ++   V     EF  + +  D   L VPV
Sbjct: 516 KIGAPVVHIDHGVGRYRGLETITVDNQTNEFLTLEYA-DDAKLYVPV 561


>gi|254670469|emb|CBA06145.1| transcription-repair coupling factor [Neisseria meningitidis
           alpha153]
          Length = 1286

 Score = 36.6 bits (84), Expect = 1.4,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 618 NIGDPVVHEEHGIGRYMGLVTIDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 669


>gi|115378113|ref|ZP_01465290.1| type IV pilus assembly protein PilZ [Stigmatella aurantiaca
           DW4/3-1]
 gi|310819408|ref|YP_003951766.1| type IV pilus assembly PilZ [Stigmatella aurantiaca DW4/3-1]
 gi|115364900|gb|EAU63958.1| type IV pilus assembly protein PilZ [Stigmatella aurantiaca
           DW4/3-1]
 gi|309392480|gb|ADO69939.1| Type IV pilus assembly PilZ [Stigmatella aurantiaca DW4/3-1]
          Length = 162

 Score = 36.6 bits (84), Expect = 1.4,   Method: Composition-based stats.
 Identities = 12/39 (30%), Positives = 19/39 (48%)

Query: 119 VRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSIS 157
            R LH+   Q + S  E+QLY  A  +  R + A   ++
Sbjct: 10  FRALHKRARQKQLSDEEKQLYLMAREQFARALTAAQGMT 48


>gi|260424863|ref|ZP_05733529.2| conserved hypothetical protein [Dialister invisus DSM 15470]
 gi|260403431|gb|EEW96978.1| conserved hypothetical protein [Dialister invisus DSM 15470]
          Length = 373

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 26/60 (43%), Gaps = 7/60 (11%)

Query: 114 AIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVR-------EIAAVNSISEPEAINLIE 166
             AE +R          KS  E+ +Y+ A  R++        E++ +  + +  A +LI+
Sbjct: 22  DTAETIRTASLEKQGAAKSGEEKHMYQLAEERLLHESSRFRAELSWLCGMGKERAYSLID 81


>gi|161524500|ref|YP_001579512.1| transcription-repair coupling factor [Burkholderia multivorans ATCC
           17616]
 gi|221215034|ref|ZP_03588001.1| transcription-repair coupling factor [Burkholderia multivorans
           CGD1]
 gi|160341929|gb|ABX15015.1| transcription-repair coupling factor [Burkholderia multivorans ATCC
           17616]
 gi|221164970|gb|EED97449.1| transcription-repair coupling factor [Burkholderia multivorans
           CGD1]
          Length = 1156

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 529


>gi|254252138|ref|ZP_04945456.1| Transcription-repair coupling factor [Burkholderia dolosa AUO158]
 gi|124894747|gb|EAY68627.1| Transcription-repair coupling factor [Burkholderia dolosa AUO158]
          Length = 1164

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 490 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 537


>gi|115351983|ref|YP_773822.1| transcription-repair coupling factor [Burkholderia ambifaria AMMD]
 gi|115281971|gb|ABI87488.1| transcription-repair coupling factor [Burkholderia ambifaria AMMD]
          Length = 1185

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 511 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 558


>gi|63054653|ref|NP_594764.2| TPR repeat protein, TTC27 family [Schizosaccharomyces pombe 972h-]
 gi|26401564|sp|O36033|YLM1_SCHPO RecName: Full=TPR repeat-containing protein C19B12.01
 gi|159884031|emb|CAB11723.2| TPR repeat protein, TTC27 family [Schizosaccharomyces pombe]
          Length = 817

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 19/91 (20%), Positives = 32/91 (35%), Gaps = 3/91 (3%)

Query: 79  ERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQL 138
           E+A   ++   +     W  R  E    I S D+   +EV+R L R      K   ER +
Sbjct: 608 EQAWHAMQQGIKYMYDNW--RIWENYMLI-SVDVNKWSEVIRALRRIIEIKGKDEGERAV 664

Query: 139 YESALNRMVREIAAVNSISEPEAINLIEVNL 169
               L+ +V  +             ++   L
Sbjct: 665 DVQCLDLVVNYVMQSCDNDASGLARMLNELL 695


>gi|325142431|gb|EGC64835.1| transcription-repair coupling factor [Neisseria meningitidis
           961-5945]
 gi|325198436|gb|ADY93892.1| transcription-repair coupling factor [Neisseria meningitidis G2136]
          Length = 1375

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 707 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 758


>gi|288941951|ref|YP_003444191.1| transcription-repair coupling factor [Allochromatium vinosum DSM
           180]
 gi|288897323|gb|ADC63159.1| transcription-repair coupling factor [Allochromatium vinosum DSM
           180]
          Length = 1160

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G  +V+  HGVG    ++  EV G+  EF  + +      L VPV     I
Sbjct: 496 GAPVVHEEHGVGRYLGLQTLEVGGLTTEFLTLEYANGD-KLYVPVSALQLI 545


>gi|121634996|ref|YP_975241.1| transcription-repair coupling factor [Neisseria meningitidis FAM18]
 gi|120866702|emb|CAM10454.1| transcription-repair coupling factor [Neisseria meningitidis FAM18]
 gi|325138289|gb|EGC60858.1| transcription-repair coupling factor [Neisseria meningitidis
           ES14902]
          Length = 1375

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 707 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 758


>gi|254805085|ref|YP_003083306.1| transcription-repair coupling factor [Neisseria meningitidis
           alpha14]
 gi|254668627|emb|CBA06236.1| transcription-repair coupling factor [Neisseria meningitidis
           alpha14]
          Length = 1375

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 707 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 758


>gi|171320492|ref|ZP_02909522.1| transcription-repair coupling factor [Burkholderia ambifaria MEX-5]
 gi|171094277|gb|EDT39354.1| transcription-repair coupling factor [Burkholderia ambifaria MEX-5]
          Length = 1156

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 529


>gi|119945864|ref|YP_943544.1| transcription-repair coupling factor [Psychromonas ingrahamii 37]
 gi|119864468|gb|ABM03945.1| fused transcription-repair coupling factor and superfamily II
           helicase [Psychromonas ingrahamii 37]
          Length = 1163

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +  + +V+  +GVG    ++  E AG   EF  + + +    L VPV     I
Sbjct: 489 KIDQPVVHIDYGVGKYLGLETIETAGHLTEFVKLEYLRGD-KLYVPVSSLQLI 540


>gi|332300263|ref|YP_004442184.1| UvrD/REP helicase [Porphyromonas asaccharolytica DSM 20707]
 gi|332177326|gb|AEE13016.1| UvrD/REP helicase [Porphyromonas asaccharolytica DSM 20707]
          Length = 789

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 8/23 (34%), Positives = 13/23 (56%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKE 35
           G+  G+ + +P HG G I  I+ 
Sbjct: 739 GYHVGDRVRHPRHGDGKIERIES 761


>gi|317970142|ref|ZP_07971532.1| transcription-repair coupling factor [Synechococcus sp. CB0205]
          Length = 1183

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 8/56 (14%), Positives = 23/56 (41%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
                R       R G+ +V+  HG+G   ++++  +     ++ V+ +    + +
Sbjct: 478 RKAASRTVDPNKMRPGDFVVHRNHGIGKFLKLEKLAIGSEARDYLVVQYADGLLRV 533


>gi|261392435|emb|CAX49980.1| transcription-repair coupling factor (TRCF) [Neisseria meningitidis
           8013]
          Length = 1379

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 711 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 762


>gi|260913085|ref|ZP_05919567.1| transcription-repair coupling factor [Pasteurella dagmatis ATCC
           43325]
 gi|260632672|gb|EEX50841.1| transcription-repair coupling factor [Pasteurella dagmatis ATCC
           43325]
          Length = 1145

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+  E+ ++ +  ++  L VPV     I  R +  
Sbjct: 479 KIGQPVVHLEHGVGRYAGLVTLENGGITAEYLLLNYA-NESKLYVPVSSLHLIS-RYVGG 536

Query: 75  AHF 77
           +  
Sbjct: 537 SDE 539


>gi|254673347|emb|CBA08563.1| transcription-repair coupling factor [Neisseria meningitidis
           alpha275]
          Length = 1375

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 707 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 758


>gi|325130353|gb|EGC53119.1| transcription-repair coupling factor [Neisseria meningitidis
           OX99.30304]
          Length = 1292

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 624 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 675


>gi|304387420|ref|ZP_07369611.1| transcription-repair coupling factor [Neisseria meningitidis ATCC
           13091]
 gi|304338513|gb|EFM04632.1| transcription-repair coupling factor [Neisseria meningitidis ATCC
           13091]
          Length = 1301

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 633 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 684


>gi|160878272|ref|YP_001557240.1| transcription-repair coupling factor [Clostridium phytofermentans
           ISDg]
 gi|160426938|gb|ABX40501.1| transcription-repair coupling factor [Clostridium phytofermentans
           ISDg]
          Length = 1179

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 8   DAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
               Q F     G+++V+  HG+G    I++ EV  +  ++  + +    +
Sbjct: 494 GKQIQSFTDLNIGDYVVHENHGLGIYRGIEKIEVDKVSKDYIKLEYGGGGV 544


>gi|34496601|ref|NP_900816.1| transcription-repair coupling factor [Chromobacterium violaceum
           ATCC 12472]
 gi|34102455|gb|AAQ58821.1| transcription-repair coupling factor [Chromobacterium violaceum
           ATCC 12472]
          Length = 1130

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+ AHG+G    +   ++   + E   + +  D   L VPV +   I
Sbjct: 467 KAGDPVVHEAHGIGRYVGLVTMDLGEGETELMQLEYA-DGATLYVPVSQLQLI 518


>gi|134295974|ref|YP_001119709.1| transcription-repair coupling factor [Burkholderia vietnamiensis
           G4]
 gi|134139131|gb|ABO54874.1| transcription-repair coupling factor [Burkholderia vietnamiensis
           G4]
          Length = 1151

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 529


>gi|114320951|ref|YP_742634.1| transcription-repair coupling factor [Alkalilimnicola ehrlichii
           MLHE-1]
 gi|114227345|gb|ABI57144.1| transcription-repair coupling factor [Alkalilimnicola ehrlichii
           MLHE-1]
          Length = 1166

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G  +V+  HGVG    ++  E  G+  EF  + + K    L VPV     I
Sbjct: 493 IGAPVVHEDHGVGRYLGLQTLEAGGLTTEFLTLEYAKGD-KLYVPVASLHLI 543


>gi|170699745|ref|ZP_02890779.1| transcription-repair coupling factor [Burkholderia ambifaria
           IOP40-10]
 gi|170135336|gb|EDT03630.1| transcription-repair coupling factor [Burkholderia ambifaria
           IOP40-10]
          Length = 1156

 Score = 36.6 bits (84), Expect = 1.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 529


>gi|172060905|ref|YP_001808557.1| transcription-repair coupling factor [Burkholderia ambifaria
           MC40-6]
 gi|171993422|gb|ACB64341.1| transcription-repair coupling factor [Burkholderia ambifaria
           MC40-6]
          Length = 1156

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 529


>gi|313886343|ref|ZP_07820068.1| UvrD/REP helicase [Porphyromonas asaccharolytica PR426713P-I]
 gi|312924212|gb|EFR34996.1| UvrD/REP helicase [Porphyromonas asaccharolytica PR426713P-I]
          Length = 785

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 8/23 (34%), Positives = 13/23 (56%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKE 35
           G+  G+ + +P HG G I  I+ 
Sbjct: 735 GYHVGDRVRHPRHGDGKIERIES 757


>gi|300934101|ref|ZP_07149357.1| transcription-repair coupling factor [Corynebacterium resistens DSM
           45100]
          Length = 1255

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 9/62 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKM-----CLKVPVGK 63
               G+ +V+ +HG+G    ++E+ +       + E+ V+ +   K       L VP+ +
Sbjct: 556 ALEPGDLVVHDSHGIGKFVRMEERTIGKGADASRREYLVLEYAPSKRGGPGDQLYVPMDQ 615

Query: 64  AI 65
             
Sbjct: 616 LD 617


>gi|325132515|gb|EGC55208.1| transcription-repair coupling factor [Neisseria meningitidis M6190]
          Length = 1232

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 564 NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 615


>gi|269957468|ref|YP_003327257.1| transcription-repair coupling factor [Xylanimonas cellulosilytica
           DSM 15894]
 gi|269306149|gb|ACZ31699.1| transcription-repair coupling factor [Xylanimonas cellulosilytica
           DSM 15894]
          Length = 1218

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 28/62 (45%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           R G+++V+  HGVG   E+ ++ +         E+ V+ +   K       L VP+ +  
Sbjct: 532 RAGDYVVHEQHGVGRFVEMVQRTLGAGSNAATREYLVLEYASSKRGQPGDRLFVPMDQLD 591

Query: 66  DI 67
            +
Sbjct: 592 QV 593


>gi|317047729|ref|YP_004115377.1| transcription-repair coupling factor [Pantoea sp. At-9b]
 gi|316949346|gb|ADU68821.1| transcription-repair coupling factor [Pantoea sp. At-9b]
          Length = 1147

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 37/93 (39%), Gaps = 9/93 (9%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G++ E+ ++++      L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYIGLTRLEAGGIEAEYLMLSYA-GDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
                 L  +   A      WSR  Q+   K+ 
Sbjct: 537 DE-NAPLHKLGSDA------WSRARQKAAEKVR 562


>gi|255994799|ref|ZP_05427934.1| transcription-repair coupling factor [Eubacterium saphenum ATCC
           49989]
 gi|255993512|gb|EEU03601.1| transcription-repair coupling factor [Eubacterium saphenum ATCC
           49989]
          Length = 1092

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 1/60 (1%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           +R +  Q    G+++V+   G+G  T IK  +++G   ++  + + +D   L VPV  A 
Sbjct: 410 ERLSGYQNIEEGDYLVHKTKGIGRYTGIKTMKLSGRSKDYICLVYAQDD-KLYVPVENAN 468


>gi|325136213|gb|EGC58821.1| transcription-repair coupling factor [Neisseria meningitidis M0579]
          Length = 1296

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +    + G   E  ++ +   +  L VPV +   I
Sbjct: 628 NIGDPVVHEEHGIGRYMGLITMNLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 679


>gi|312883015|ref|ZP_07742746.1| coniferyl aldehyde dehydrogenase [Vibrio caribbenthicus ATCC
           BAA-2122]
 gi|309369175|gb|EFP96696.1| coniferyl aldehyde dehydrogenase [Vibrio caribbenthicus ATCC
           BAA-2122]
          Length = 478

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 10/68 (14%), Positives = 25/68 (36%), Gaps = 6/68 (8%)

Query: 25  HGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG-MRKLSEAHFVERALK 83
            G   I +I++ E  G ++  +++    D M +     K    G +  +      +    
Sbjct: 319 QGA-KIHKIEKVESEGRQMPPYLLTQVTDDMRVM----KEEIFGPILPVISYRTFDEVFD 373

Query: 84  LVRGKARV 91
           ++  + R 
Sbjct: 374 IINSRPRP 381


>gi|296102868|ref|YP_003613014.1| transcription-repair coupling factor [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
 gi|295057327|gb|ADF62065.1| transcription-repair coupling factor [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
          Length = 1148

 Score = 36.6 bits (84), Expect = 1.6,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ IV+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 PGQPIVHLEHGVGRYQGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      W+R  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WARARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|326802953|ref|YP_004320771.1| ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent
           [Aerococcus urinae ACS-120-V-Col10a]
 gi|326650728|gb|AEA00911.1| ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent
           [Aerococcus urinae ACS-120-V-Col10a]
          Length = 860

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 12/68 (17%), Positives = 26/68 (38%), Gaps = 20/68 (29%)

Query: 7   RDAMRQGFRTGEHIV--------YPAHGVGTITEIKEQE------------VAGMKLEFF 46
           +D M++    G+ +V        YP  G+G +  I+ +             + G + E  
Sbjct: 52  KDTMKETLAPGDLVVLTVRPDPQYPGRGIGIVQAIENKTATIWVEEAYRGSLMGEEQETG 111

Query: 47  VIAFDKDK 54
           ++    D+
Sbjct: 112 LVKRPLDE 119


>gi|261337278|ref|ZP_05965162.1| transcription-repair coupling factor [Bifidobacterium gallicum DSM
           20093]
 gi|270277644|gb|EFA23498.1| transcription-repair coupling factor [Bifidobacterium gallicum DSM
           20093]
          Length = 1205

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 11/66 (16%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAG-----MKLEFFVIAFDKDKM-----CLKVPV 61
              + G+ +V+  HG+G   E+K++   G      K E+ VI +   K       L +P 
Sbjct: 512 MELKPGDFVVHDQHGIGRFVELKQRS-GGSGRNEAKREYLVIEYAPSKRNAPPDKLFIPT 570

Query: 62  GKAIDI 67
            +   +
Sbjct: 571 DQLDQV 576


>gi|295096197|emb|CBK85287.1| transcription-repair coupling factor [Enterobacter cloacae subsp.
           cloacae NCTC 9394]
          Length = 1148

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ IV+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I  R    A
Sbjct: 479 PGQPIVHLEHGVGRYQGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      W+R  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WARARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|307246259|ref|ZP_07528340.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|307255243|ref|ZP_07537058.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|307259678|ref|ZP_07541401.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
 gi|306852868|gb|EFM85092.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|306861792|gb|EFM93771.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|306866218|gb|EFM98083.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
          Length = 1149

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|266619807|ref|ZP_06112742.1| transcription-repair coupling factor [Clostridium hathewayi DSM
           13479]
 gi|288868593|gb|EFD00892.1| transcription-repair coupling factor [Clostridium hathewayi DSM
           13479]
          Length = 1178

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 38/83 (45%), Gaps = 9/83 (10%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+++V+  HG+G    I++ E  G+  ++  + +  D   L +P  +    G++K + A
Sbjct: 509 VGDYVVHEDHGLGIYRGIEKIEQDGVIKDYLKVEY-GDGGNLYLPATRLD--GIQKYAGA 565

Query: 76  HFVERALKLVRGKARVKRTMWSR 98
              +  L  + G        W++
Sbjct: 566 EAKKPKLNRLGGD------QWNK 582


>gi|253580889|ref|ZP_04858151.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251847731|gb|EES75699.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 1107

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
             G+ +V+  HG+G    I++ EV  +  ++  I + +    L +P  +  
Sbjct: 442 SVGDFVVHEKHGLGIYRGIEKVEVDRIVKDYIKIEY-RGGSNLYIPATQLD 491


>gi|217031702|ref|ZP_03437206.1| hypothetical protein HPB128_155g15 [Helicobacter pylori B128]
 gi|298737160|ref|YP_003729690.1| transcription-repair coupling factor [Helicobacter pylori B8]
 gi|216946549|gb|EEC25149.1| hypothetical protein HPB128_155g15 [Helicobacter pylori B128]
 gi|298356354|emb|CBI67226.1| transcription-repair coupling factor (superfamily II helicase)
           [Helicobacter pylori B8]
          Length = 999

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 36/178 (20%), Positives = 63/178 (35%), Gaps = 36/178 (20%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD--L 122
             I  R ++++  V                           ++  G  + +   VR   L
Sbjct: 411 HLIA-RYVAQSDSVPA-----------------------KDRLGKGSFLKLKAKVRTKLL 446

Query: 123 HRTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                  E   +ER L     ++  + E+    S         + +AI  I  +LSS 
Sbjct: 447 EIAGKIIEL-AAERNLILGKKMDVHLAELEVFKSQAGFEYTSDQEKAIAEISKDLSSH 503


>gi|15612523|ref|NP_224176.1| transcription-repair coupling factor [Helicobacter pylori J99]
 gi|7531157|sp|Q9ZJ57|MFD_HELPJ RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|4156075|gb|AAD07030.1| TRANSCRIPTION-REPAIR COUPLING FACTOR [Helicobacter pylori J99]
          Length = 1001

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 29/123 (23%), Positives = 51/123 (41%), Gaps = 8/123 (6%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLIQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             I  R + ++  V      + GK    +     RA+  +    +G +I +A   R+L  
Sbjct: 411 HLIA-RYVVQSDSVP-VKDRL-GKGSFLKLKAKVRAKLLEI---AGKIIELAA-ERNLIL 463

Query: 125 TDS 127
              
Sbjct: 464 GKK 466


>gi|325202005|gb|ADY97459.1| transcription-repair coupling factor [Neisseria meningitidis
           M01-240149]
 gi|325208243|gb|ADZ03695.1| transcription-repair coupling factor [Neisseria meningitidis
           NZ-05/33]
          Length = 1227

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +    + G   E  ++ +   +  L VPV +   I
Sbjct: 559 NIGDPVVHEEHGIGRYMGLITMNLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 610


>gi|308389402|gb|ADO31722.1| transcription-repair coupling factor [Neisseria meningitidis
           alpha710]
          Length = 1227

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +    + G   E  ++ +   +  L VPV +   I
Sbjct: 559 NIGDPVVHEEHGIGRYMGLITMNLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 610


>gi|300868792|ref|ZP_07113400.1| Transcription-repair-coupling factor [Oscillatoria sp. PCC 6506]
 gi|300333202|emb|CBN58592.1| Transcription-repair-coupling factor [Oscillatoria sp. PCC 6506]
          Length = 1226

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 5/52 (9%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
            +++V+  HG+G    ++   +     E+ VI        L++    A  +G
Sbjct: 560 NDYVVHRQHGIGRFLRLESLTINQETREYLVIQ--YGDGTLRI---AADQLG 606


>gi|184201352|ref|YP_001855559.1| transcription-repair coupling factor [Kocuria rhizophila DC2201]
 gi|183581582|dbj|BAG30053.1| transcription-repair coupling factor [Kocuria rhizophila DC2201]
          Length = 1254

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 29/69 (42%), Gaps = 14/69 (20%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGM---------KLEFFVIAFDKDKM-----CLK 58
             + G+++V+  HG+G   E+ ++ +AG            E+ V+ +   K       L 
Sbjct: 556 ALQKGDYVVHEQHGIGQFIELVQRPIAGAMTAPGQPKPVREYLVLEYAASKRNGPRDRLF 615

Query: 59  VPVGKAIDI 67
           VP  +   +
Sbjct: 616 VPTDQLDQV 624


>gi|149194843|ref|ZP_01871937.1| transcription-repair coupling factor [Caminibacter mediatlanticus
           TB-2]
 gi|149135002|gb|EDM23484.1| transcription-repair coupling factor [Caminibacter mediatlanticus
           TB-2]
          Length = 981

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 2/80 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    +K+ EV G   EF  + +  D   L +PV     +  R ++ 
Sbjct: 352 KKGDFVVHIDHGIGKFLGLKKMEVLGKIGEFAEVLYANDD-KLLLPVENLDKLE-RYIAP 409

Query: 75  AHFVERALKLVRGKARVKRT 94
              + +  KL +G    K T
Sbjct: 410 DGVIPQLDKLGKGTFAKKLT 429


>gi|88800098|ref|ZP_01115668.1| transcription-repair coupling protein Mfd [Reinekea sp. MED297]
 gi|88777224|gb|EAR08429.1| transcription-repair coupling protein Mfd [Reinekea sp. MED297]
          Length = 1151

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G  +V+  HG+G    ++  +V G   EF  + + +    L VPV     I
Sbjct: 484 PGTPVVHLDHGIGRYRGLETLDVDGHTQEFLKLEYAEGS-NLYVPVSNLHLI 534


>gi|311064109|ref|YP_003970834.1| transcription-repair coupling factor [Bifidobacterium bifidum
           PRL2010]
 gi|310866428|gb|ADP35797.1| Mfd Transcription-repair coupling factor [Bifidobacterium bifidum
           PRL2010]
          Length = 1199

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM----- 55
           +++       + G+++V+  HG+G   E++++ +  G      E+ VI +   K      
Sbjct: 508 RRKAIDLMELKAGDYVVHEQHGIGRFLEMRQRTIGTGANKTTREYLVIEYAPSKRGAPAD 567

Query: 56  CLKVPVGKAIDI 67
            L +P  +   I
Sbjct: 568 KLFIPTDQLDLI 579


>gi|224282806|ref|ZP_03646128.1| transcription-repair coupling factor [Bifidobacterium bifidum NCIMB
           41171]
 gi|313139965|ref|ZP_07802158.1| transcription-repair coupling factor [Bifidobacterium bifidum NCIMB
           41171]
 gi|313132475|gb|EFR50092.1| transcription-repair coupling factor [Bifidobacterium bifidum NCIMB
           41171]
          Length = 1199

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM----- 55
           +++       + G+++V+  HG+G   E++++ +  G      E+ VI +   K      
Sbjct: 508 RRKAIDLMELKAGDYVVHEQHGIGRFLEMRQRTIGTGANKTTREYLVIEYAPSKRGAPAD 567

Query: 56  CLKVPVGKAIDI 67
            L +P  +   I
Sbjct: 568 KLFIPTDQLDLI 579


>gi|170726164|ref|YP_001760190.1| transcription-repair coupling factor [Shewanella woodyi ATCC 51908]
 gi|169811511|gb|ACA86095.1| transcription-repair coupling factor [Shewanella woodyi ATCC 51908]
          Length = 1157

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     ++  +  G+  E+  + +      L VPV     I  R    
Sbjct: 486 KVGQPIVHLDHGVAHYQGLETLDTGGLVAEYLKLEYAGGD-KLYVPVSSLHLIS-RYSVG 543

Query: 75  AHF 77
              
Sbjct: 544 PDE 546


>gi|114047309|ref|YP_737859.1| transcription-repair coupling factor [Shewanella sp. MR-7]
 gi|113888751|gb|ABI42802.1| transcription-repair coupling factor [Shewanella sp. MR-7]
          Length = 1160

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I
Sbjct: 488 KVGQPIVHLEHGVALYQGLVTLDTGGIVAEYLQLEYSGGD-KLYVPVSNLHMI 539


>gi|303253501|ref|ZP_07339640.1| transcription-repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|307248372|ref|ZP_07530395.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
 gi|302647611|gb|EFL77828.1| transcription-repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|306855110|gb|EFM87290.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
          Length = 1149

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|165976764|ref|YP_001652357.1| transcription repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
 gi|165876865|gb|ABY69913.1| transcription repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
          Length = 1149

 Score = 36.6 bits (84), Expect = 1.7,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|303250575|ref|ZP_07336772.1| transcription repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|307252980|ref|ZP_07534867.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|302650563|gb|EFL80722.1| transcription repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|306859509|gb|EFM91535.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
          Length = 1149

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|53728955|ref|ZP_00134409.2| COG1197: Transcription-repair coupling factor (superfamily II
           helicase) [Actinobacillus pleuropneumoniae serovar 1
           str. 4074]
 gi|126208803|ref|YP_001054028.1| transcription-repair coupling factor [Actinobacillus
           pleuropneumoniae L20]
 gi|126097595|gb|ABN74423.1| transcription-repair coupling factor [Actinobacillus
           pleuropneumoniae serovar 5b str. L20]
          Length = 1149

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|307264008|ref|ZP_07545608.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
 gi|306870619|gb|EFN02363.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
          Length = 1149

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+ +  ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVLQYA-NEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|295090936|emb|CBK77043.1| transcription-repair coupling factor [Clostridium cf.
           saccharolyticum K10]
          Length = 1185

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    I++ E   +  ++  I +      L +P  K   I
Sbjct: 507 SVGDYVVHENHGLGIYRGIEKIEQDKVVKDYIKIEYADGG-NLYLPATKLEGI 558


>gi|167836965|ref|ZP_02463848.1| transcription-repair coupling factor [Burkholderia thailandensis
           MSMB43]
          Length = 1189

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 513 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-SDSKLYVPVAQ 560


>gi|240850603|ref|YP_002972003.1| transcription repair coupling factor [Bartonella grahamii as4aup]
 gi|240267726|gb|ACS51314.1| transcription repair coupling factor [Bartonella grahamii as4aup]
          Length = 1166

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ IV+  HG+G    +K  +  G+  +   I +    + L +PV    
Sbjct: 499 GDIIVHIDHGIGQFVGLKTIKTTGILRDCLEIRYAGGDL-LFLPVENIE 546


>gi|225850639|ref|YP_002730873.1| transcription-repair-coupling factor (trcf) (ATP-dependent helicase
           mfd) [Persephonella marina EX-H1]
 gi|225645015|gb|ACO03201.1| transcription-repair-coupling factor (trcf) (ATP-dependent helicase
           mfd) [Persephonella marina EX-H1]
          Length = 947

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 4   QQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
            +K D   Q  + G++I++   G+G    I+ +E+ G K +F ++ +  ++  + V
Sbjct: 284 SKKVDLEIQPIKEGDYIIHEDFGIGIFRGIETREIRGKKYDFMILEYANNE-KVYV 338


>gi|54309559|ref|YP_130579.1| putative transcription-repair coupling factor [Photobacterium
           profundum SS9]
 gi|46913995|emb|CAG20777.1| putative transcription-repair coupling factor [Photobacterium
           profundum SS9]
          Length = 1151

 Score = 36.6 bits (84), Expect = 1.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+  E+ ++ +D     L VPV     I
Sbjct: 482 QVGQPVVHIDHGIGRYQGLQTLEAGGITTEYVMLEYDAGA-KLYVPVASLHLI 533


>gi|317013364|gb|ADU83972.1| transcription-repair coupling factor (trcF) [Helicobacter pylori
           Lithuania75]
          Length = 999

 Score = 36.3 bits (83), Expect = 1.8,   Method: Composition-based stats.
 Identities = 35/177 (19%), Positives = 65/177 (36%), Gaps = 34/177 (19%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI-AEVVRDLH 123
             I  R ++++  V                           ++  G  + + A+V   L 
Sbjct: 411 HLIA-RYVAQSDSVP-----------------------IKDRLGKGSFLKLKAKVKTKLL 446

Query: 124 RTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
               +  +  +ER L     ++  + E+    S         + +AI  I  +LSS 
Sbjct: 447 EIAGKIIELAAERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSH 503


>gi|218440658|ref|YP_002378987.1| transcription-repair coupling factor [Cyanothece sp. PCC 7424]
 gi|218173386|gb|ACK72119.1| transcription-repair coupling factor [Cyanothece sp. PCC 7424]
          Length = 1168

 Score = 36.3 bits (83), Expect = 1.8,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 32/68 (47%), Gaps = 10/68 (14%)

Query: 4   QQKRDAMRQ----GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV 59
           +++R A +Q      R G+++V+  HG+G   +++  E      E+ +I +      L++
Sbjct: 490 KRRRAASKQVNLDKLRPGDYVVHRNHGIGKFIKLEILE----SREYILIQYADG--TLRI 543

Query: 60  PVGKAIDI 67
           P      +
Sbjct: 544 PSDSLDSL 551


>gi|113461304|ref|YP_719373.1| transcription-repair coupling factor [Haemophilus somnus 129PT]
 gi|112823347|gb|ABI25436.1| transcription-repair coupling factor [Haemophilus somnus 129PT]
          Length = 1143

 Score = 36.3 bits (83), Expect = 1.8,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 11/95 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+K EF ++ +  +   L VPV     I  R +  
Sbjct: 478 KIGQPVVHLEHGVGRYGGLVSLENGGIKAEFLLLEYA-NNSKLYVPVTSLHLIS-RYVGG 535

Query: 75  AHFVERALKLVRGKARVKRTMW-SRRAQEYDAKIN 108
           +              ++    W   R +    KI 
Sbjct: 536 SDENAPL-------HKLGNDSWAKARHKAI-EKIR 562


>gi|330829926|ref|YP_004392878.1| transcription-repair coupling factor [Aeromonas veronii B565]
 gi|328805062|gb|AEB50261.1| Transcription-repair coupling factor [Aeromonas veronii B565]
          Length = 1157

 Score = 36.3 bits (83), Expect = 1.8,   Method: Composition-based stats.
 Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           G+ +V+  HGVG    ++  +  G+  EF  + +      L VPV
Sbjct: 492 GQPVVHLDHGVGRYLGLETIDAGGLPTEFLTLEYAGGD-KLFVPV 535


>gi|291087006|ref|ZP_06345122.2| transcription-repair coupling factor [Clostridium sp. M62/1]
 gi|291076614|gb|EFE13978.1| transcription-repair coupling factor [Clostridium sp. M62/1]
          Length = 1187

 Score = 36.3 bits (83), Expect = 1.8,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G    I++ E   +  ++  I +      L +P  K   I
Sbjct: 509 SVGDYVVHENHGLGIYRGIEKIEQDKVVKDYIKIEYADGG-NLYLPATKLEGI 560


>gi|167619661|ref|ZP_02388292.1| transcription-repair coupling factor [Burkholderia thailandensis
           Bt4]
          Length = 1189

 Score = 36.3 bits (83), Expect = 1.8,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 513 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 560


>gi|317014985|gb|ADU82421.1| transcription-repair coupling factor [Helicobacter pylori
           Gambia94/24]
          Length = 1001

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 28/123 (22%), Positives = 52/123 (42%), Gaps = 8/123 (6%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 RKSKLALNELNPGEWVVHDDYGVGVFSQLIQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
             I  R ++++  V      + GK    +     RA+  +    +G +I +A   R+L  
Sbjct: 411 HLIA-RYVAQSDSVP-VKDRL-GKGSFLKLKAKVRAKLLEI---AGKIIELAA-ERNLIL 463

Query: 125 TDS 127
              
Sbjct: 464 GKK 466


>gi|83720153|ref|YP_442612.1| transcription-repair coupling factor [Burkholderia thailandensis
           E264]
 gi|83653978|gb|ABC38041.1| transcription-repair coupling factor [Burkholderia thailandensis
           E264]
          Length = 1217

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 541 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 588


>gi|325106020|ref|YP_004275674.1| transcription-repair coupling factor [Pedobacter saltans DSM 12145]
 gi|324974868|gb|ADY53852.1| transcription-repair coupling factor [Pedobacter saltans DSM 12145]
          Length = 1116

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 10/44 (22%), Positives = 22/44 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +  + G+ I +  HGVG    +++ EV G + E   + +  + +
Sbjct: 434 RDLKPGDFITHIDHGVGKYGGLEKVEVNGKEQEMIRLIYADNDL 477


>gi|310287260|ref|YP_003938518.1| transcription-repair coupling factor (superfamily II helicase)
           [Bifidobacterium bifidum S17]
 gi|309251196|gb|ADO52944.1| Transcription-repair coupling factor (superfamily II helicase)
           [Bifidobacterium bifidum S17]
          Length = 1199

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 9/72 (12%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM----- 55
           +++       + G+++V+  HG+G   E++++ +  G      E+ VI +   K      
Sbjct: 508 RRKAIDLMELKAGDYVVHEQHGIGRFLEMRQRTIGTGANKTTREYLVIEYAPSKRGAPAD 567

Query: 56  CLKVPVGKAIDI 67
            L +P  +   I
Sbjct: 568 KLFIPTDQLDLI 579


>gi|294083797|ref|YP_003550554.1| transcription-repair coupling factor [Candidatus Puniceispirillum
           marinum IMCC1322]
 gi|292663369|gb|ADE38470.1| transcription-repair coupling factor [Candidatus Puniceispirillum
           marinum IMCC1322]
          Length = 1158

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
              TG+ +V+  HG+G    +     AG   +   + +      L +PV    
Sbjct: 481 ALETGDLVVHAEHGIGRYDGLVTINSAGGDHDCLHLVYHGGD-KLYLPVENIE 532


>gi|217421496|ref|ZP_03453000.1| transcription-repair coupling factor [Burkholderia pseudomallei
           576]
 gi|217395238|gb|EEC35256.1| transcription-repair coupling factor [Burkholderia pseudomallei
           576]
          Length = 1189

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 513 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 560


>gi|149915016|ref|ZP_01903545.1| hypothetical protein RAZWK3B_16630 [Roseobacter sp. AzwK-3b]
 gi|149811204|gb|EDM71041.1| hypothetical protein RAZWK3B_16630 [Roseobacter sp. AzwK-3b]
          Length = 5115

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 13/46 (28%), Positives = 22/46 (47%)

Query: 26   GVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
            G   I +   +E AG   ++FV+  +  +  +KVPV +   I  R 
Sbjct: 1840 GARKIVDRGTRERAGEPQDYFVVQMEGIEETVKVPVSEIGRIIARD 1885


>gi|124385069|ref|YP_001029254.1| transcription-repair coupling factor [Burkholderia mallei NCTC
           10229]
 gi|126448727|ref|YP_001080811.1| transcription-repair coupling factor [Burkholderia mallei NCTC
           10247]
 gi|167919435|ref|ZP_02506526.1| transcription-repair coupling factor [Burkholderia pseudomallei
           BCC215]
 gi|238562222|ref|ZP_00440803.2| transcription-repair coupling factor [Burkholderia mallei GB8 horse
           4]
 gi|251766640|ref|ZP_02264525.2| transcription-repair coupling factor [Burkholderia mallei PRL-20]
 gi|254178318|ref|ZP_04884973.1| transcription-repair coupling factor [Burkholderia mallei ATCC
           10399]
 gi|254200090|ref|ZP_04906456.1| transcription-repair coupling factor [Burkholderia mallei FMH]
 gi|254206426|ref|ZP_04912778.1| transcription-repair coupling factor [Burkholderia mallei JHU]
 gi|254297281|ref|ZP_04964734.1| transcription-repair coupling factor [Burkholderia pseudomallei
           406e]
 gi|254358165|ref|ZP_04974438.1| transcription-repair coupling factor [Burkholderia mallei
           2002721280]
 gi|124293089|gb|ABN02358.1| transcription-repair coupling factor [Burkholderia mallei NCTC
           10229]
 gi|126241597|gb|ABO04690.1| transcription-repair coupling factor [Burkholderia mallei NCTC
           10247]
 gi|147749686|gb|EDK56760.1| transcription-repair coupling factor [Burkholderia mallei FMH]
 gi|147753869|gb|EDK60934.1| transcription-repair coupling factor [Burkholderia mallei JHU]
 gi|148027292|gb|EDK85313.1| transcription-repair coupling factor [Burkholderia mallei
           2002721280]
 gi|157807451|gb|EDO84621.1| transcription-repair coupling factor [Burkholderia pseudomallei
           406e]
 gi|160699357|gb|EDP89327.1| transcription-repair coupling factor [Burkholderia mallei ATCC
           10399]
 gi|238523096|gb|EEP86537.1| transcription-repair coupling factor [Burkholderia mallei GB8 horse
           4]
 gi|243065028|gb|EES47214.1| transcription-repair coupling factor [Burkholderia mallei PRL-20]
          Length = 1189

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 513 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 560


>gi|322688798|ref|YP_004208532.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           infantis 157F]
 gi|320460134|dbj|BAJ70754.1| transcription-repair coupling factor [Bifidobacterium longum subsp.
           infantis 157F]
          Length = 1194

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA-G---MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+++V+  HG+G   E++++ +  G      E+ VI +   K       L +P  +  
Sbjct: 508 KKGDYVVHEQHGIGRFIEMRQRIIGTGANKTTREYLVIEYAPSKRGAPADKLFIPTDQLD 567

Query: 66  DI 67
            +
Sbjct: 568 QV 569


>gi|296125668|ref|YP_003632920.1| transcription-repair coupling factor [Brachyspira murdochii DSM
           12563]
 gi|296017484|gb|ADG70721.1| transcription-repair coupling factor [Brachyspira murdochii DSM
           12563]
          Length = 1244

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G++ V+  +G+G    +  +   G + ++  + + K    L +PV +   +
Sbjct: 523 NVGDYAVHVNYGIGKYLGLTRKLSNGKEKDYITLEYAKGD-KLYIPVEQMNFV 574


>gi|167581546|ref|ZP_02374420.1| transcription-repair coupling factor [Burkholderia thailandensis
           TXDOH]
          Length = 1175

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 499 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 546


>gi|126453184|ref|YP_001066662.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1106a]
 gi|167846208|ref|ZP_02471716.1| transcription-repair coupling factor [Burkholderia pseudomallei
           B7210]
 gi|167911421|ref|ZP_02498512.1| transcription-repair coupling factor [Burkholderia pseudomallei
           112]
 gi|242317637|ref|ZP_04816653.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1106b]
 gi|254198050|ref|ZP_04904472.1| transcription-repair coupling factor [Burkholderia pseudomallei
           S13]
 gi|126226826|gb|ABN90366.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1106a]
 gi|169654791|gb|EDS87484.1| transcription-repair coupling factor [Burkholderia pseudomallei
           S13]
 gi|242140876|gb|EES27278.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1106b]
          Length = 1189

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 513 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 560


>gi|24373808|ref|NP_717851.1| transcription-repair coupling factor [Shewanella oneidensis MR-1]
 gi|24348203|gb|AAN55295.1|AE015667_5 transcription-repair coupling factor [Shewanella oneidensis MR-1]
          Length = 1164

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I
Sbjct: 488 KVGQPIVHLEHGVALYQGLVTLDTGGIVAEYLQLEYSGGD-KLYVPVSNLHLI 539


>gi|53719711|ref|YP_108697.1| transcription-repair coupling factor [Burkholderia pseudomallei
           K96243]
 gi|76810493|ref|YP_333905.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1710b]
 gi|126438362|ref|YP_001059391.1| transcription-repair coupling factor [Burkholderia pseudomallei
           668]
 gi|134277056|ref|ZP_01763771.1| transcription-repair coupling factor [Burkholderia pseudomallei
           305]
 gi|167720072|ref|ZP_02403308.1| transcription-repair coupling factor [Burkholderia pseudomallei
           DM98]
 gi|167739084|ref|ZP_02411858.1| transcription-repair coupling factor [Burkholderia pseudomallei 14]
 gi|167824679|ref|ZP_02456150.1| transcription-repair coupling factor [Burkholderia pseudomallei 9]
 gi|167903188|ref|ZP_02490393.1| transcription-repair coupling factor [Burkholderia pseudomallei
           NCTC 13177]
 gi|226196247|ref|ZP_03791831.1| transcription-repair coupling factor [Burkholderia pseudomallei
           Pakistan 9]
 gi|237812718|ref|YP_002897169.1| transcription-repair coupling factor [Burkholderia pseudomallei
           MSHR346]
 gi|254179398|ref|ZP_04885997.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1655]
 gi|254189215|ref|ZP_04895726.1| transcription-repair coupling factor [Burkholderia pseudomallei
           Pasteur 52237]
 gi|254258111|ref|ZP_04949165.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1710a]
 gi|52210125|emb|CAH36103.1| transcription-repair coupling factor [Burkholderia pseudomallei
           K96243]
 gi|76579946|gb|ABA49421.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1710b]
 gi|126217855|gb|ABN81361.1| transcription-repair coupling factor [Burkholderia pseudomallei
           668]
 gi|134250706|gb|EBA50785.1| transcription-repair coupling factor [Burkholderia pseudomallei
           305]
 gi|157936894|gb|EDO92564.1| transcription-repair coupling factor [Burkholderia pseudomallei
           Pasteur 52237]
 gi|184209938|gb|EDU06981.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1655]
 gi|225931703|gb|EEH27706.1| transcription-repair coupling factor [Burkholderia pseudomallei
           Pakistan 9]
 gi|237506667|gb|ACQ98985.1| transcription-repair coupling factor [Burkholderia pseudomallei
           MSHR346]
 gi|254216800|gb|EET06184.1| transcription-repair coupling factor [Burkholderia pseudomallei
           1710a]
          Length = 1189

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 513 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 560


>gi|53723684|ref|YP_103135.1| transcription-repair coupling factor [Burkholderia mallei ATCC
           23344]
 gi|121600246|ref|YP_993304.1| transcription-repair coupling factor [Burkholderia mallei SAVP1]
 gi|52427107|gb|AAU47700.1| transcription-repair coupling factor [Burkholderia mallei ATCC
           23344]
 gi|121229056|gb|ABM51574.1| transcription-repair coupling factor [Burkholderia mallei SAVP1]
          Length = 1157

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 481 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 528


>gi|284007308|emb|CBA72650.1| transcription-repair coupling factor [Arsenophonus nasoniae]
          Length = 1146

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HGVG    +      G++ E+ ++++  +   L VPV     I
Sbjct: 477 RPGQPVVHLEHGVGRYQGLTTLAAGGIQAEYLMLSYAGND-KLYVPVSSLNLI 528


>gi|188534138|ref|YP_001907935.1| transcription-repair coupling factor [Erwinia tasmaniensis Et1/99]
 gi|188029180|emb|CAO97052.1| Transcription-repair coupling factor (ATP-dependent helicase mfd)
           [Erwinia tasmaniensis Et1/99]
          Length = 1148

 Score = 36.3 bits (83), Expect = 1.9,   Method: Composition-based stats.
 Identities = 29/130 (22%), Positives = 48/130 (36%), Gaps = 22/130 (16%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G++ E+ ++A+      L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYIGLTTLETGGIQAEYLMLAYA-GDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS- 134
                 L  +   A      WSR  Q+   K+         +V  +L    +Q       
Sbjct: 537 EE-NAPLHKLGSDA------WSRARQKAAEKVR--------DVAAELLDIYAQRAAKTGF 581

Query: 135 ----ERQLYE 140
               ++Q Y+
Sbjct: 582 AFKHDKQQYQ 591


>gi|167570304|ref|ZP_02363178.1| transcription-repair coupling factor [Burkholderia oklahomensis
           C6786]
          Length = 1157

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 481 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVSQ 528


>gi|167563120|ref|ZP_02356036.1| transcription-repair coupling factor [Burkholderia oklahomensis
           EO147]
          Length = 1157

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 481 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVSQ 528


>gi|167816296|ref|ZP_02447976.1| transcription-repair coupling factor [Burkholderia pseudomallei 91]
          Length = 1175

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 499 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 546


>gi|170717838|ref|YP_001784898.1| transcription-repair coupling factor [Haemophilus somnus 2336]
 gi|168825967|gb|ACA31338.1| transcription-repair coupling factor [Haemophilus somnus 2336]
          Length = 1144

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 11/95 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   E  G+K EF ++ +  +   L VPV     I  R +  
Sbjct: 479 KIGQPVVHLEHGVGRYGGLVSLENGGIKAEFLLLEYA-NNSKLYVPVTSLHLIS-RYVGG 536

Query: 75  AHFVERALKLVRGKARVKRTMW-SRRAQEYDAKIN 108
           +              ++    W   R +    KI 
Sbjct: 537 SDENAPL-------HKLGNDSWAKARHKAI-EKIR 563


>gi|317010243|gb|ADU80823.1| transcription-repair coupling factor [Helicobacter pylori India7]
          Length = 999

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 37/178 (20%), Positives = 64/178 (35%), Gaps = 36/178 (20%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYFGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD--L 122
             I  R ++++  V                           ++  G  + +   VR   L
Sbjct: 411 HLIA-RYVAQSDSVP-----------------------IKDRLGKGSFLKLKAKVRTKLL 446

Query: 123 HRTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                  E   +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 447 EIAGKIIEL-AAERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|225575737|ref|ZP_03784347.1| hypothetical protein RUMHYD_03830 [Blautia hydrogenotrophica DSM
           10507]
 gi|225037050|gb|EEG47296.1| hypothetical protein RUMHYD_03830 [Blautia hydrogenotrophica DSM
           10507]
          Length = 1044

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 9/34 (26%), Positives = 19/34 (55%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA 49
            G+++V+  HG+G    I++ EV  +  ++  I 
Sbjct: 373 VGDYVVHENHGLGIYRGIEKVEVDKVVKDYIKIE 406


>gi|308176608|ref|YP_003916014.1| transcription-repair-coupling factor [Arthrobacter arilaitensis
           Re117]
 gi|307744071|emb|CBT75043.1| transcription-repair-coupling factor [Arthrobacter arilaitensis
           Re117]
          Length = 1204

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 10/77 (12%)

Query: 1   MTFQQKRDAM-RQGFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM 55
           +T ++KR+A+     + G+ IV+  HG+G   E+  ++V G     K E+ V+ +   K 
Sbjct: 503 LTVKRKRNAVDPLSLQAGDFIVHEQHGIGKFVELMARKVNGSGKDAKREYLVVEYASSKR 562

Query: 56  -----CLKVPVGKAIDI 67
                 L VP+ +   +
Sbjct: 563 GAPGDRLFVPMDQLHMV 579


>gi|49474197|ref|YP_032239.1| transcription repair coupling factor [Bartonella quintana str.
           Toulouse]
 gi|49239701|emb|CAF26076.1| Transcription repair coupling factor [Bartonella quintana str.
           Toulouse]
          Length = 1166

 Score = 36.3 bits (83), Expect = 2.0,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    +K     G+  +   I +      L +P+    
Sbjct: 499 GDIVVHIDHGIGQFVGLKTITATGILRDCLEIKYAGGD-RLFLPIENIE 546


>gi|301156034|emb|CBW15505.1| transcription-repair coupling factor [Haemophilus parainfluenzae
           T3T1]
          Length = 1149

 Score = 36.3 bits (83), Expect = 2.1,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 9/94 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ +I +  ++  L VPVG    I  R +  
Sbjct: 483 KIGQPVVHLDHGVGRYGGLVTLDTGGLKAEYLLINYA-NESKLYVPVGSLHLIS-RYVGG 540

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
           +              ++    WS+  Q+   KI 
Sbjct: 541 SDETAPL-------HKLGNESWSKTRQKAAEKIR 567


>gi|299538158|ref|ZP_07051443.1| hypothetical protein BFZC1_19165 [Lysinibacillus fusiformis ZC1]
 gi|298726360|gb|EFI66950.1| hypothetical protein BFZC1_19165 [Lysinibacillus fusiformis ZC1]
          Length = 707

 Score = 36.3 bits (83), Expect = 2.1,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 35/84 (41%), Gaps = 6/84 (7%)

Query: 82  LKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE-KSYSE-RQLY 139
           L  ++ +     + W+   +E   KI    L  + E    L+   +  E KSY   ++  
Sbjct: 18  LDDLKDEPLKMYSNWNN-YKENLEKIKKQLLKMLNEKTEILYINKNLKEMKSYLNIKKTL 76

Query: 140 ESALNRMVREIAAVNSISEPEAIN 163
           +    R++RE A ++ I + +   
Sbjct: 77  KK--ERIIRE-AILDEIDDKQIKE 97


>gi|117621017|ref|YP_856534.1| transcription-repair coupling factor [Aeromonas hydrophila subsp.
           hydrophila ATCC 7966]
 gi|117562424|gb|ABK39372.1| transcription-repair coupling factor [Aeromonas hydrophila subsp.
           hydrophila ATCC 7966]
          Length = 1154

 Score = 36.3 bits (83), Expect = 2.1,   Method: Composition-based stats.
 Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
           G+ +V+  HGVG    ++  +  G+  EF  + +      L VPV
Sbjct: 488 GQPVVHLDHGVGRYLGLETIDAGGLPTEFLTLEYAGGD-KLFVPV 531


>gi|238922870|ref|YP_002936383.1| transcription-repair coupling factor [Eubacterium rectale ATCC
           33656]
 gi|238874542|gb|ACR74249.1| transcription-repair coupling factor [Eubacterium rectale ATCC
           33656]
          Length = 1177

 Score = 36.3 bits (83), Expect = 2.2,   Method: Composition-based stats.
 Identities = 9/35 (25%), Positives = 18/35 (51%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA 49
             G+++V+  HG+G    I++ EV     ++  I 
Sbjct: 504 SVGDYVVHENHGLGIYRGIEKLEVDKKVKDYIKIE 538


>gi|82701772|ref|YP_411338.1| transcription-repair coupling factor [Nitrosospira multiformis ATCC
           25196]
 gi|82409837|gb|ABB73946.1| transcription-repair coupling factor [Nitrosospira multiformis ATCC
           25196]
          Length = 1156

 Score = 36.3 bits (83), Expect = 2.2,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +   IG
Sbjct: 487 KAGDPVVHEQHGIGRYLGLVSMDLGEGETEFLSLEYASGD-KLYVPVSQLHLIG 539


>gi|312890454|ref|ZP_07749991.1| transcription-repair coupling factor [Mucilaginibacter paludis DSM
           18603]
 gi|311297224|gb|EFQ74356.1| transcription-repair coupling factor [Mucilaginibacter paludis DSM
           18603]
          Length = 1119

 Score = 36.3 bits (83), Expect = 2.2,   Method: Composition-based stats.
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +  + G++I +  HG+G    +++ EV G   E   + +  + +
Sbjct: 435 RELKPGDYITHIDHGIGKYAGLEKVEVNGKMQEMIRLLYSDNDL 478


>gi|304413564|ref|ZP_07395037.1| Transcription-repair coupling factor (superfamily II helicase)
           [Candidatus Regiella insecticola LSR1]
 gi|304284407|gb|EFL92800.1| Transcription-repair coupling factor (superfamily II helicase)
           [Candidatus Regiella insecticola LSR1]
          Length = 1165

 Score = 36.3 bits (83), Expect = 2.2,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+   GVG    +   E  G+K E+ ++++ +    L +P+     I
Sbjct: 499 RPGQPVVHLEQGVGRYQGMTTLEAGGIKAEYLILSYAEQD-KLYIPISSLHLI 550


>gi|237748656|ref|ZP_04579136.1| transcription-repair coupling factor [Oxalobacter formigenes
           OXCC13]
 gi|229380018|gb|EEO30109.1| transcription-repair coupling factor [Oxalobacter formigenes
           OXCC13]
          Length = 1152

 Score = 36.3 bits (83), Expect = 2.2,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + + KD   L VPV +
Sbjct: 483 KIGDPVVHANHGIGRYRGLVTVDLGEGETEFLHLQYAKDT-KLYVPVSQ 530


>gi|3914013|sp|O52236|MFD_MYXXA RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|2736296|gb|AAB94134.1| transcription-repair coupling factor [Myxococcus xanthus]
          Length = 1201

 Score = 36.3 bits (83), Expect = 2.2,   Method: Composition-based stats.
 Identities = 28/116 (24%), Positives = 53/116 (45%), Gaps = 10/116 (8%)

Query: 4   QQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
            +K DA   GF   + G+ IV+   G+G    + + EV G+  +F V+ +      + +P
Sbjct: 519 SKKLDAFGSGFGDLKEGDLIVHTDFGIGRYAGLTKMEVNGVPGDFLVLEYAGRD-KIYLP 577

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
           VG+     ++K S     +  L  +   +  K     +R +E   K+ + +L+ IA
Sbjct: 578 VGRMRL--IQKFSGGDPTQVQLDKLGTTSWEKT---KKRVKEQLLKMAA-ELLQIA 627


>gi|116626459|ref|YP_828615.1| transcription-repair coupling factor [Candidatus Solibacter
           usitatus Ellin6076]
 gi|116229621|gb|ABJ88330.1| transcription-repair coupling factor [Candidatus Solibacter
           usitatus Ellin6076]
          Length = 1141

 Score = 36.3 bits (83), Expect = 2.2,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 26/55 (47%), Gaps = 5/55 (9%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEV-AGMKL-EFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+++V+  HGV     +  +E+  G    ++ V+ +      L VP+ +   +
Sbjct: 479 KPGDYVVHSEHGVAQYLGL--REISGGENQGDYMVLEY-SGGAKLYVPLTRIDLV 530


>gi|238894149|ref|YP_002918883.1| transcription-repair coupling factor [Klebsiella pneumoniae
           NTUH-K2044]
 gi|238546465|dbj|BAH62816.1| transcription-repair ATP-dependent coupling factor [Klebsiella
           pneumoniae subsp. pneumoniae NTUH-K2044]
          Length = 1148

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLI 529


>gi|256833153|ref|YP_003161880.1| transcription-repair coupling factor [Jonesia denitrificans DSM
           20603]
 gi|256686684|gb|ACV09577.1| transcription-repair coupling factor [Jonesia denitrificans DSM
           20603]
          Length = 1216

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+ +V+  HGVG   E+ ++ +         E+ VI +   +       L VP+ +  
Sbjct: 534 KAGDFVVHEQHGVGKFVELVQRTLGAPGNQATREYLVIEYAASRRGQPGDRLFVPMDQLD 593

Query: 66  DI 67
            +
Sbjct: 594 QV 595


>gi|225022992|ref|ZP_03712184.1| hypothetical protein CORMATOL_03039 [Corynebacterium matruchotii
           ATCC 33806]
 gi|224944215|gb|EEG25424.1| hypothetical protein CORMATOL_03039 [Corynebacterium matruchotii
           ATCC 33806]
          Length = 1223

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 28/64 (43%), Gaps = 13/64 (20%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEV-AGMK---LEFFVIAF-------DKDKMCLKVPV 61
             ++G+++V+  HG+G    + E+ +  G +    E+ V+ +         D   L VP+
Sbjct: 504 ALKSGDYVVHETHGIGRFVRMTERTITMGEETSRREYIVLEYAPTRRGQPAD--QLYVPM 561

Query: 62  GKAI 65
               
Sbjct: 562 DSLD 565


>gi|329999583|ref|ZP_08303456.1| transcription-repair coupling factor [Klebsiella sp. MS 92-3]
 gi|328538286|gb|EGF64428.1| transcription-repair coupling factor [Klebsiella sp. MS 92-3]
          Length = 1126

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 457 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLI 507


>gi|326798757|ref|YP_004316576.1| transcription-repair coupling factor [Sphingobacterium sp. 21]
 gi|326549521|gb|ADZ77906.1| transcription-repair coupling factor [Sphingobacterium sp. 21]
          Length = 1112

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +  + G++I +  HG+G    +++ EV G   E   + +  + +
Sbjct: 434 RDLKPGDYITHIDHGIGKYAGLEKVEVNGKMQEMIRLVYADNDL 477


>gi|262043184|ref|ZP_06016320.1| transcription-repair coupling factor [Klebsiella pneumoniae subsp.
           rhinoscleromatis ATCC 13884]
 gi|259039462|gb|EEW40597.1| transcription-repair coupling factor [Klebsiella pneumoniae subsp.
           rhinoscleromatis ATCC 13884]
          Length = 1148

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLI 529


>gi|226939558|ref|YP_002794631.1| Mfd [Laribacter hongkongensis HLHK9]
 gi|226714484|gb|ACO73622.1| Mfd [Laribacter hongkongensis HLHK9]
          Length = 1131

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+ AHG+G    +   ++   + E   + +  D   L VPV +   I
Sbjct: 468 KVGDPVVHEAHGIGRYLGLVSMDLGEGQTEMMQLEYA-DGATLYVPVSQLHLI 519


>gi|297183227|gb|ADI19367.1| transcription-repair coupling factor (superfamily II helicase)
           [uncultured Chloroflexi bacterium HF0500_03M05]
          Length = 1192

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  HG+G            +  E+ ++ + +    L VP+     +
Sbjct: 498 NPGDYVVHVEHGIGRFVGTGHIPRDEVDREYLILQYAESD-RLYVPMDHLDRV 549


>gi|290510825|ref|ZP_06550195.1| transcription-repair coupling factor [Klebsiella sp. 1_1_55]
 gi|289777541|gb|EFD85539.1| transcription-repair coupling factor [Klebsiella sp. 1_1_55]
          Length = 1148

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLI 529


>gi|108762520|ref|YP_629274.1| transcription-repair coupling factor [Myxococcus xanthus DK 1622]
 gi|108466400|gb|ABF91585.1| transcription-repair coupling factor [Myxococcus xanthus DK 1622]
          Length = 1188

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 28/116 (24%), Positives = 53/116 (45%), Gaps = 10/116 (8%)

Query: 4   QQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
            +K DA   GF   + G+ IV+   G+G    + + EV G+  +F V+ +      + +P
Sbjct: 506 SKKLDAFGSGFGDLKEGDLIVHTDFGIGRYAGLTKMEVNGVPGDFLVLEYAGRD-KIYLP 564

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
           VG+     ++K S     +  L  +   +  K     +R +E   K+ + +L+ IA
Sbjct: 565 VGRMRL--IQKFSGGDPTQVQLDKLGTTSWEKT---KKRVKEQLLKMAA-ELLQIA 614


>gi|190891739|ref|YP_001978281.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           CIAT 652]
 gi|190697018|gb|ACE91103.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           CIAT 652]
          Length = 1167

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 500 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 551


>gi|294808313|ref|ZP_06767070.1| transcription-repair coupling factor [Bacteroides xylanisolvens SD
           CC 1b]
 gi|294444475|gb|EFG13185.1| transcription-repair coupling factor [Bacteroides xylanisolvens SD
           CC 1b]
          Length = 1161

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 472 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 516

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 517 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 568

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 569 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 607


>gi|152969666|ref|YP_001334775.1| transcription-repair coupling factor [Klebsiella pneumoniae subsp.
           pneumoniae MGH 78578]
 gi|150954515|gb|ABR76545.1| transcription-repair ATP-dependent coupling factor [Klebsiella
           pneumoniae subsp. pneumoniae MGH 78578]
          Length = 1152

 Score = 36.3 bits (83), Expect = 2.3,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 483 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLI 533


>gi|303390322|ref|XP_003073392.1| hypothetical protein Eint_081000 [Encephalitozoon intestinalis ATCC
           50506]
 gi|303302538|gb|ADM12032.1| hypothetical protein Eint_081000 [Encephalitozoon intestinalis ATCC
           50506]
          Length = 682

 Score = 36.3 bits (83), Expect = 2.4,   Method: Composition-based stats.
 Identities = 31/171 (18%), Positives = 66/171 (38%), Gaps = 39/171 (22%)

Query: 31  TEIKEQEVAGM------KLEFFVIAFDKDKMCLKVPVGKAIDIGMR--KLSEAHFVERAL 82
             I+E E+ G       + +  V+     K  L V      D  +R  +L   +   + L
Sbjct: 74  KGIEEVEMDGEQDQENNEWKTHVLRNLLKKNRLNV------DARIRLSRLVGRNEGSKIL 127

Query: 83  KLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA-EVV-------RDLHRTDSQ------ 128
             + G+      +W    +E  ++  + D++  A EVV        DL R D        
Sbjct: 128 --LEGRDIKDERLW----REIISRYYASDMLDEALEVVDGDEGFYEDLFRKDRDIKILRA 181

Query: 129 ----PEKSYSERQLY-ESALNRMVREIAAVNSISEPEAINLIEVNLSSKSS 174
                 +S+  R++  E+  + + +++    S+ E     L+++ + +K +
Sbjct: 182 GVSRHPRSFGLRKMMSENLEDILEKQMFLYESVVETHEERLVDLFIGTKPN 232


>gi|258645650|ref|ZP_05733119.1| transcription-repair coupling factor [Dialister invisus DSM 15470]
 gi|260403014|gb|EEW96561.1| transcription-repair coupling factor [Dialister invisus DSM 15470]
          Length = 1135

 Score = 36.3 bits (83), Expect = 2.4,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V   HG+G    +K  E+ G+  ++  I +      L +P+ +   +
Sbjct: 458 EPGDYVVQRVHGIGKYIGVKTIELEGVHRDYITIQYAGAD-KLYLPMEQIASL 509


>gi|305681933|ref|ZP_07404737.1| transcription-repair coupling factor [Corynebacterium matruchotii
           ATCC 14266]
 gi|305658406|gb|EFM47909.1| transcription-repair coupling factor [Corynebacterium matruchotii
           ATCC 14266]
          Length = 1238

 Score = 36.3 bits (83), Expect = 2.4,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 28/64 (43%), Gaps = 13/64 (20%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEV-AGMK---LEFFVIAF-------DKDKMCLKVPV 61
             ++G+++V+  HG+G    + E+ +  G +    E+ V+ +         D   L VP+
Sbjct: 519 ALKSGDYVVHETHGIGRFVRMTERTITMGEETSRREYIVLEYAPTRRGQPAD--QLYVPM 576

Query: 62  GKAI 65
               
Sbjct: 577 DSLD 580


>gi|206576037|ref|YP_002239264.1| transcription-repair coupling factor [Klebsiella pneumoniae 342]
 gi|206565095|gb|ACI06871.1| transcription-repair coupling factor [Klebsiella pneumoniae 342]
          Length = 1148

 Score = 36.3 bits (83), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ +V+  HGVG    +   E  G+  E+ ++ +  +   L VPV     I
Sbjct: 479 IGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLI 529


>gi|322693735|gb|EFY85585.1| myosin class II heavy chain [Metarhizium acridum CQMa 102]
          Length = 2258

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 30/131 (22%), Positives = 56/131 (42%), Gaps = 15/131 (11%)

Query: 65   IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               GMR ++E   +E  L  +R +    +   SR  +E++    SG     +EV R   R
Sbjct: 1760 ERSGMRAVNECKRLEGLLGELRTENHKLQQAASRYQREFEEARESG----ASEVKR--TR 1813

Query: 125  TDSQPEKSYSERQL------YESALNRMVREIAAVN-SISEPEAIN--LIEVNLSSKSSK 175
               Q E   +  Q+       E   +++  E+  V       +A N  L+E   S+K+++
Sbjct: 1814 MSLQTEIDAANNQVNVIREELEEQNSKLRTELDNVKLEADTAKAQNEMLLEEVQSTKAAE 1873

Query: 176  TEKSTSENQDK 186
             E +  + Q++
Sbjct: 1874 LEAAERKYQNE 1884


>gi|300716251|ref|YP_003741054.1| transcription-repair-coupling factor [Erwinia billingiae Eb661]
 gi|299062087|emb|CAX59203.1| Transcription-repair-coupling factor [Erwinia billingiae Eb661]
          Length = 1147

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 29/129 (22%), Positives = 47/129 (36%), Gaps = 22/129 (17%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           G+ +V+  HGVG    +   E  G+  E+ ++ +      L VPV     I  R    A 
Sbjct: 480 GQPVVHLEHGVGRYIGLTTLETGGITAEYLMLTYA-GDAKLYVPVSSLHLIS-RYAGGAD 537

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS-- 134
                L  +   A      WSR  Q+   K+         +V  +L    +Q E      
Sbjct: 538 E-NAPLHKLGSDA------WSRARQKAAEKVR--------DVAAELLDIYAQREAKSGFA 582

Query: 135 ---ERQLYE 140
              +R+ Y+
Sbjct: 583 FKHDREQYQ 591


>gi|327188302|gb|EGE55521.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           CNPAF512]
          Length = 1167

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 500 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 551


>gi|298483734|ref|ZP_07001908.1| transcription-repair coupling factor [Bacteroides sp. D22]
 gi|298270151|gb|EFI11738.1| transcription-repair coupling factor [Bacteroides sp. D22]
          Length = 1141

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 452 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 496

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 497 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 548

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 549 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 587


>gi|209549326|ref|YP_002281243.1| transcription-repair coupling factor [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209535082|gb|ACI55017.1| transcription-repair coupling factor [Rhizobium leguminosarum bv.
           trifolii WSM2304]
          Length = 1167

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 500 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 551


>gi|37728037|gb|AAO43498.1| transcription repair coupling factor [Rhizobium etli]
          Length = 1114

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 500 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 551


>gi|300770435|ref|ZP_07080314.1| transcription-repair coupling factor [Sphingobacterium spiritivorum
           ATCC 33861]
 gi|300762911|gb|EFK59728.1| transcription-repair coupling factor [Sphingobacterium spiritivorum
           ATCC 33861]
          Length = 1112

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +  + G++I +  HGVG    +++ +V G   E   + +  + +
Sbjct: 434 RDLKPGDYITHIDHGVGKYAGLEKVDVNGKSQEMIRLVYADNDL 477


>gi|227538907|ref|ZP_03968956.1| transcription-repair coupling factor [Sphingobacterium spiritivorum
           ATCC 33300]
 gi|227241416|gb|EEI91431.1| transcription-repair coupling factor [Sphingobacterium spiritivorum
           ATCC 33300]
          Length = 1112

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +  + G++I +  HGVG    +++ +V G   E   + +  + +
Sbjct: 434 RDLKPGDYITHIDHGVGKYAGLEKVDVNGKSQEMIRLVYADNDL 477


>gi|86357714|ref|YP_469606.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           CFN 42]
 gi|86281816|gb|ABC90879.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           CFN 42]
          Length = 1167

 Score = 35.9 bits (82), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 500 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 551


>gi|283138935|gb|ADB12538.1| transcription-repair coupling factor [uncultured bacterium 9F08]
          Length = 1155

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G  +V+  HGVG    +++  V   + EF  + +      L VPV     I
Sbjct: 488 QPGAAVVHEDHGVGRYLGLQKLTVGDSEAEFLTLEYAGGD-KLYVPVASLHLI 539


>gi|108563915|ref|YP_628231.1| transcription-repair coupling factor [Helicobacter pylori HPAG1]
 gi|107837688|gb|ABF85557.1| transcription-repair coupling factor [Helicobacter pylori HPAG1]
          Length = 999

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVE 79
             I  R ++++  V 
Sbjct: 411 HLIA-RYVAQSDSVP 424


>gi|298369031|ref|ZP_06980349.1| transcription-repair coupling factor [Neisseria sp. oral taxon 014
           str. F0314]
 gi|298283034|gb|EFI24521.1| transcription-repair coupling factor [Neisseria sp. oral taxon 014
           str. F0314]
          Length = 723

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 51  NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 102


>gi|308183706|ref|YP_003927833.1| transcription-repair coupling factor [Helicobacter pylori PeCan4]
 gi|308065891|gb|ADO07783.1| transcription-repair coupling factor [Helicobacter pylori PeCan4]
          Length = 1001

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 36/178 (20%), Positives = 63/178 (35%), Gaps = 36/178 (20%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLIQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD--L 122
             I  R ++++  V                           ++  G  + +   VR   L
Sbjct: 411 HLIA-RYVAQSDSVPA-----------------------KDRLGKGSFLKLKAKVRTKLL 446

Query: 123 HRTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
                  E   +ER L     ++  + E+    S         + +AI  I  +LSS 
Sbjct: 447 EIAGKIIEL-AAERNLILGKKMDVHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSH 503


>gi|146311285|ref|YP_001176359.1| transcription-repair coupling factor [Enterobacter sp. 638]
 gi|145318161|gb|ABP60308.1| transcription-repair coupling factor [Enterobacter sp. 638]
          Length = 1148

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ IV+  HGVG    +   E  G+K E+ ++ +      L VPV     I
Sbjct: 479 VGQPIVHLEHGVGRYAGMTTLETGGIKGEYLMLTY-SGDAKLYVPVSSLHLI 529


>gi|218507810|ref|ZP_03505688.1| transcription-repair coupling factor (TRCF) protein [Rhizobium
          etli Brasil 5]
          Length = 318

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13 GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
          G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 3  GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 54


>gi|322515432|ref|ZP_08068423.1| transcription-repair coupling factor [Actinobacillus ureae ATCC
           25976]
 gi|322118555|gb|EFX90788.1| transcription-repair coupling factor [Actinobacillus ureae ATCC
           25976]
          Length = 1162

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 27/116 (23%), Positives = 50/116 (43%), Gaps = 13/116 (11%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+    ++  L VPV     I  R +  
Sbjct: 497 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVL-LYANEAKLYVPVASLHLIS-RYIGG 554

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
           A      L  +  +A      W++  Q+   KI   D+   AE++    + +SQ  
Sbjct: 555 ADETAP-LHKLGSEA------WAKTRQKAAEKIR--DV--AAELLDVYTKRESQKG 599


>gi|217978360|ref|YP_002362507.1| transcription-repair coupling factor [Methylocella silvestris BL2]
 gi|217503736|gb|ACK51145.1| transcription-repair coupling factor [Methylocella silvestris BL2]
          Length = 1176

 Score = 35.9 bits (82), Expect = 2.5,   Method: Composition-based stats.
 Identities = 19/106 (17%), Positives = 39/106 (36%), Gaps = 17/106 (16%)

Query: 1   MTFQQKRDAMRQGF-------RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
           +   +K+    + F         G+ +V+  HG+G    ++  +  G   +   + + + 
Sbjct: 485 LVRARKKSRKAKDFLSEVGALAAGDIVVHVDHGIGRFVGLQSIDAGGAPHDCLELHYAEG 544

Query: 54  KMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRR 99
              L +PV     +  R  SE   V+  L  + G        W +R
Sbjct: 545 A-KLFLPVENLELLS-RYGSEDTEVQ--LDRLGGGG------WQKR 580


>gi|300870408|ref|YP_003785279.1| transcription-repair coupling factor [Brachyspira pilosicoli
           95/1000]
 gi|300688107|gb|ADK30778.1| transcription-repair coupling factor [Brachyspira pilosicoli
           95/1000]
          Length = 1196

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G++ V+  +G+G    +  +   G + ++  + + K    L +PV +   +
Sbjct: 491 NIGDYAVHVNYGIGKYLGLTRKLSNGKEKDYLTLEYAKGD-KLYIPVEQMNFV 542


>gi|257138824|ref|ZP_05587086.1| transcription-repair coupling factor [Burkholderia thailandensis
           E264]
          Length = 898

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++     EF  + +      L VPV +
Sbjct: 222 KVGDPVVHAQHGIGRYMGLVSMDLGEGDTEFLHLEYA-GDSKLYVPVAQ 269


>gi|88860092|ref|ZP_01134731.1| transcription-repair ATP-dependent coupling factor
           [Pseudoalteromonas tunicata D2]
 gi|88818086|gb|EAR27902.1| transcription-repair ATP-dependent coupling factor
           [Pseudoalteromonas tunicata D2]
          Length = 1157

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ IV+  HGVG    ++  + AG++ EF  I++   +  L VPV 
Sbjct: 487 KVGQPIVHLDHGVGRYQGLQTLDAAGVQTEFVTISY-NGEAKLYVPVS 533


>gi|261840243|gb|ACY00009.1| transcription-repair coupling factor [Helicobacter pylori 52]
          Length = 999

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 37/177 (20%), Positives = 67/177 (37%), Gaps = 34/177 (19%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYWGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI-AEVVRDLH 123
             I  R ++++  V                           ++  G  + + A+V   L 
Sbjct: 411 HLIA-RYVAQSDSVP-----------------------TKDRLGKGSFLKLKAKVKTKLL 446

Query: 124 RTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
              S+  +  +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 447 EIASKIIELAAERNLILGKKMDTHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|288575748|ref|ZP_06393934.1| transcription-repair coupling factor [Neisseria mucosa ATCC 25996]
 gi|288567230|gb|EFC88790.1| transcription-repair coupling factor [Neisseria mucosa ATCC 25996]
          Length = 724

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 56  NIGDPVVHEEHGIGRYMGLVTMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 107


>gi|126664951|ref|ZP_01735934.1| transcription-repair coupling protein Mfd [Marinobacter sp. ELB17]
 gi|126630321|gb|EBA00936.1| transcription-repair coupling protein Mfd [Marinobacter sp. ELB17]
          Length = 1169

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    ++   V G   EF ++ +      L VPV     I
Sbjct: 495 RIGSPVVHIDHGVGRYQGLETITVEGEASEFLMLGYAGSS-KLYVPVSSLHLI 546


>gi|148242564|ref|YP_001227721.1| transcription-repair coupling factor [Synechococcus sp. RCC307]
 gi|147850874|emb|CAK28368.1| Transcription-repair coupling factor [Synechococcus sp. RCC307]
          Length = 1183

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 7/41 (17%), Positives = 23/41 (56%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCL 57
           G+ +V+  HG+G   ++++  ++G   ++ V+ +    + +
Sbjct: 493 GDFVVHRNHGIGRFLKMEKLAISGDARDYLVVQYLDGLLRV 533


>gi|78189837|ref|YP_380175.1| transcription-repair coupling factor [Chlorobium chlorochromatii
           CaD3]
 gi|78172036|gb|ABB29132.1| Transcription-repair coupling factor [Chlorobium chlorochromatii
           CaD3]
          Length = 1099

 Score = 35.9 bits (82), Expect = 2.6,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           Q  + G+++V+  +G+G    ++       + E  +I +      L V V   
Sbjct: 397 QKLKVGDYVVHEDYGIGIFKSLETITAGNSEQESVLIEYANGD-QLFVNVQNI 448


>gi|260170991|ref|ZP_05757403.1| transcription-repair coupling factor [Bacteroides sp. D2]
 gi|315919312|ref|ZP_07915552.1| conserved hypothetical protein [Bacteroides sp. D2]
 gi|313693187|gb|EFS30022.1| conserved hypothetical protein [Bacteroides sp. D2]
          Length = 1120

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 435 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 479

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 480 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 531

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 532 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 570


>gi|237715944|ref|ZP_04546425.1| transcription-repair coupling factor [Bacteroides sp. D1]
 gi|229443591|gb|EEO49382.1| transcription-repair coupling factor [Bacteroides sp. D1]
          Length = 1131

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 442 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 486

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 487 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 538

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 539 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 577


>gi|160882450|ref|ZP_02063453.1| hypothetical protein BACOVA_00401 [Bacteroides ovatus ATCC 8483]
 gi|156112162|gb|EDO13907.1| hypothetical protein BACOVA_00401 [Bacteroides ovatus ATCC 8483]
          Length = 1120

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 435 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 479

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 480 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 531

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 532 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 570


>gi|315126314|ref|YP_004068317.1| transcription-repair ATP-dependent coupling factor
           [Pseudoalteromonas sp. SM9913]
 gi|315014828|gb|ADT68166.1| transcription-repair ATP-dependent coupling factor
           [Pseudoalteromonas sp. SM9913]
          Length = 1157

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HGVG    ++  + AG+  EF  I     +  L VPV 
Sbjct: 487 KEGQPVVHLDHGVGRYQGLQTIDAAGVVTEFVTI-IYAGEAKLYVPVS 533


>gi|254482039|ref|ZP_05095281.1| transcriptional regulator, AraC family [marine gamma
           proteobacterium HTCC2148]
 gi|214037729|gb|EEB78394.1| transcriptional regulator, AraC family [marine gamma
           proteobacterium HTCC2148]
          Length = 337

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 21/90 (23%), Positives = 39/90 (43%), Gaps = 10/90 (11%)

Query: 83  KLVRGKARVKRTMWSRRAQEYDAKINS-GDLIAIAEVVRDLH-----RTDSQPEKSYSER 136
           +++RG   V++T  + R       I S GD + IA+V   LH            +S + R
Sbjct: 225 EILRGLNSVEKTTAAVR----QLLIQSAGDFLDIAQVAESLHVSERTLRRRLDAESTNFR 280

Query: 137 QLYESALNRMVREIAAVNSISEPEAINLIE 166
             +E   + + RE      ++  E  +L++
Sbjct: 281 ATFEEIKDLLAREYLVKTELTVAEIAHLLD 310


>gi|294643129|ref|ZP_06720961.1| transcription-repair coupling factor [Bacteroides ovatus SD CC 2a]
 gi|292641537|gb|EFF59723.1| transcription-repair coupling factor [Bacteroides ovatus SD CC 2a]
          Length = 1119

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 430 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 474

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 475 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 526

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 527 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 565


>gi|134095113|ref|YP_001100188.1| transcription-repair ATP-dependent coupling factor [Herminiimonas
           arsenicoxydans]
 gi|133739016|emb|CAL62064.1| Transcription-repair-coupling factor (TRCF) (ATP-dependent helicase
           Mfd) [Herminiimonas arsenicoxydans]
          Length = 1148

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 16/117 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    +   ++   + EF  + + KD   L VPV +   I  R    
Sbjct: 483 KIGDPVVHVNHGIGRYMGLTSMDLGEGETEFLHLEYAKDT-KLYVPVSQLHVIS-RY--S 538

Query: 75  AHFVERA-LKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
               E A L  +      K     RRA E         +   A  + +L+   +  E
Sbjct: 539 GASPEDAPLHALGSGQWEKA---KRRAAE--------KIRDTAAELLNLYARRALRE 584


>gi|319426232|gb|ADV54306.1| transcription-repair coupling factor [Shewanella putrefaciens 200]
          Length = 1162

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I  R    
Sbjct: 490 KVGQPIVHLEHGVALYQGLVTLDTGGLVAEYLQLEYAGGD-KLYVPVSNLHLIS-RYSVG 547

Query: 75  AHF 77
           A  
Sbjct: 548 ADE 550


>gi|146293254|ref|YP_001183678.1| transcription-repair coupling factor [Shewanella putrefaciens
           CN-32]
 gi|145564944|gb|ABP75879.1| transcription-repair coupling factor [Shewanella putrefaciens
           CN-32]
          Length = 1162

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I  R    
Sbjct: 490 KVGQPIVHLEHGVALYQGLVTLDTGGLVAEYLQLEYAGGD-KLYVPVSNLHLIS-RYSVG 547

Query: 75  AHF 77
           A  
Sbjct: 548 ADE 550


>gi|325523528|gb|EGD01838.1| transcription-repair coupling factor [Burkholderia sp. TJI49]
          Length = 827

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 152 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GDSKLYVPVAQ 199


>gi|293373528|ref|ZP_06619880.1| transcription-repair coupling factor [Bacteroides ovatus SD CMC 3f]
 gi|292631492|gb|EFF50118.1| transcription-repair coupling factor [Bacteroides ovatus SD CMC 3f]
          Length = 1119

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 430 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 474

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 475 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 526

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 527 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 565


>gi|262407555|ref|ZP_06084103.1| transcription-repair coupling factor [Bacteroides sp. 2_1_22]
 gi|262354363|gb|EEZ03455.1| transcription-repair coupling factor [Bacteroides sp. 2_1_22]
          Length = 1124

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 435 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 479

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 480 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 531

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 532 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 570


>gi|218673155|ref|ZP_03522824.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           GR56]
          Length = 585

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 123 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 174


>gi|120598668|ref|YP_963242.1| transcription-repair coupling factor [Shewanella sp. W3-18-1]
 gi|120558761|gb|ABM24688.1| transcription-repair coupling factor [Shewanella sp. W3-18-1]
          Length = 1162

 Score = 35.9 bits (82), Expect = 2.7,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I  R    
Sbjct: 490 KVGQPIVHLEHGVALYQGLVTLDTGGLVAEYLQLEYAGGD-KLYVPVSNLHLIS-RYSVG 547

Query: 75  AHF 77
           A  
Sbjct: 548 ADE 550


>gi|152980432|ref|YP_001353098.1| transcription-repair coupling factor [Janthinobacterium sp.
           Marseille]
 gi|151280509|gb|ABR88919.1| transcription-repair coupling factor (superfamily II helicase)
           [Janthinobacterium sp. Marseille]
          Length = 1147

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 16/117 (13%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HG+G    +   ++   + EF  + + KD   L VPV +   I  R    
Sbjct: 482 KIGDPVVHVNHGIGRYMGLTSMDLGEGETEFLHLEYAKDT-KLYVPVSQLHVIS-RY--S 537

Query: 75  AHFVERA-LKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
               E A L  +      K     RRA E         +   A  + +L+   +  E
Sbjct: 538 GASPEDAPLHALGSGQWEKA---KRRAAE--------KIRDTAAELLNLYARRALRE 583


>gi|237722279|ref|ZP_04552760.1| transcription-repair coupling factor [Bacteroides sp. 2_2_4]
 gi|229448089|gb|EEO53880.1| transcription-repair coupling factor [Bacteroides sp. 2_2_4]
          Length = 1124

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 53/162 (32%), Gaps = 34/162 (20%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 435 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 479

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 480 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKSKIKDIARDLIKLYS 531

Query: 128 QPEKSYSERQLYESALNRMVREI--AAVNSISEPEAINLIEV 167
           Q  +   E+    S  + + RE+  + +   +  ++   I+V
Sbjct: 532 QRRQ---EKGFSYSPDSFLQRELEASFIYEDTPDQSKATIDV 570


>gi|307261826|ref|ZP_07543490.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
 gi|306868443|gb|EFN00256.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
          Length = 1149

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+    ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVL-LYANEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|307257406|ref|ZP_07539175.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 10 str. D13039]
 gi|306864058|gb|EFM95972.1| Transcription-repair-coupling factor [Actinobacillus
           pleuropneumoniae serovar 10 str. D13039]
          Length = 1149

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  +GVG    +   +  G+K E+ V+    ++  L VPV     I  R +  
Sbjct: 484 KIGQAVVHLENGVGRYAGLTVLDAGGIKAEYLVL-LYANEAKLYVPVASLHLIS-RYIGG 541

Query: 75  AHF 77
           A  
Sbjct: 542 ADE 544


>gi|296314532|ref|ZP_06864473.1| transcription-repair coupling factor [Neisseria polysaccharea ATCC
           43768]
 gi|296838843|gb|EFH22781.1| transcription-repair coupling factor [Neisseria polysaccharea ATCC
           43768]
          Length = 753

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+  HG+G    +   ++ G   E  ++ +   +  L VPV +   I
Sbjct: 77  NIGDPVVHEEHGIGRYMGLITMDLGGETNEMMLLEYA-GEAQLYVPVSQLHLI 128


>gi|113970068|ref|YP_733861.1| transcription-repair coupling factor [Shewanella sp. MR-4]
 gi|113884752|gb|ABI38804.1| transcription-repair coupling factor [Shewanella sp. MR-4]
          Length = 1160

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I
Sbjct: 488 KVGQPIVHLEHGVALYQGLVTLDTGGLVAEYLQLEYSGGD-KLYVPVSNLHMI 539


>gi|241763661|ref|ZP_04761711.1| flagellin domain protein [Acidovorax delafieldii 2AN]
 gi|241367136|gb|EER61502.1| flagellin domain protein [Acidovorax delafieldii 2AN]
          Length = 521

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 31/64 (48%), Gaps = 3/64 (4%)

Query: 110 GDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           G+++     VR+L    +    S S+RQ   + +N++  E+  +   +E     L++ + 
Sbjct: 86  GNILQR---VRELAVQSANATNSASDRQALNAEVNQLTSELDRIAKTTEFNGRKLLDGSF 142

Query: 170 SSKS 173
           +S +
Sbjct: 143 TSAA 146


>gi|258510954|ref|YP_003184388.1| UvrD/REP helicase [Alicyclobacillus acidocaldarius subsp.
           acidocaldarius DSM 446]
 gi|257477680|gb|ACV57999.1| UvrD/REP helicase [Alicyclobacillus acidocaldarius subsp.
           acidocaldarius DSM 446]
          Length = 705

 Score = 35.9 bits (82), Expect = 2.8,   Method: Composition-based stats.
 Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 3/42 (7%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC 56
           R G+ +V+P HG G +  ++    AG +    V+      M 
Sbjct: 651 RPGDRVVHPQHGQGIVLSVESH--AGEER-VQVMFHPSIGMK 689


>gi|297380724|gb|ADI35611.1| transcription-repair coupling factor [Helicobacter pylori v225d]
          Length = 999

 Score = 35.9 bits (82), Expect = 2.9,   Method: Composition-based stats.
 Identities = 37/177 (20%), Positives = 67/177 (37%), Gaps = 34/177 (19%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI-AEVVRDLH 123
             I  R ++++  V                           ++  G  + + A+V   L 
Sbjct: 411 HLIA-RYVAQSDSVP-----------------------VKDRLGKGSFLKLKAKVKTKLL 446

Query: 124 RTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
              S+  +  +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 447 EIASKIIELAAERNLILGKKMDTHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|117920732|ref|YP_869924.1| transcription-repair coupling factor [Shewanella sp. ANA-3]
 gi|117613064|gb|ABK48518.1| transcription-repair coupling factor [Shewanella sp. ANA-3]
          Length = 1160

 Score = 35.9 bits (82), Expect = 2.9,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I
Sbjct: 488 KVGQPIVHLEHGVALYQGLVTLDTGGLVAEYLQLEYSGGD-KLYVPVSNLHMI 539


>gi|329960904|ref|ZP_08299183.1| transcription-repair coupling factor [Bacteroides fluxus YIT 12057]
 gi|328532190|gb|EGF58994.1| transcription-repair coupling factor [Bacteroides fluxus YIT 12057]
          Length = 1164

 Score = 35.9 bits (82), Expect = 2.9,   Method: Composition-based stats.
 Identities = 26/146 (17%), Positives = 44/146 (30%), Gaps = 32/146 (21%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HGVG    +          E   + F  D +                  
Sbjct: 475 FTPGDYVVHTDHGVGRFAGLVRIPNGNTTQEVMKLVFQNDDVVF---------------V 519

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDS 127
             H + +  K    +    R        W         K+       I ++ RDL +  S
Sbjct: 520 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKDRTKTKIKDIARDLIKLYS 571

Query: 128 QPEKSYSERQLYESALNRMVREIAAV 153
           Q      E+    S  + + RE+ A 
Sbjct: 572 QRR---EEKGFQYSPDSFLQRELEAS 594


>gi|325107412|ref|YP_004268480.1| transcription-repair coupling factor [Planctomyces brasiliensis DSM
           5305]
 gi|324967680|gb|ADY58458.1| transcription-repair coupling factor [Planctomyces brasiliensis DSM
           5305]
          Length = 1114

 Score = 35.9 bits (82), Expect = 3.0,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 5/48 (10%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKL--EFFVIAFDKDKMCLKVPVG 62
           G+ +V+  HG+G       Q + G     E  V+ F  D + + VPV 
Sbjct: 453 GDLVVHVGHGIGIFRG--MQLIRGEDRTEEHLVLEFA-DNVRIFVPVS 497


>gi|311279979|ref|YP_003942210.1| transcription-repair coupling factor [Enterobacter cloacae SCF1]
 gi|308749174|gb|ADO48926.1| transcription-repair coupling factor [Enterobacter cloacae SCF1]
          Length = 1148

 Score = 35.9 bits (82), Expect = 3.0,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 14/115 (12%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G+ +V+  HGVG    +   E  G+K E+ ++ +      L VPV     I  R    A
Sbjct: 479 PGQPVVHLEHGVGRYAGMTTLEAGGIKGEYLMLTYA-SDAKLYVPVSSLHLIS-RYAGGA 536

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
                 L  + G A      W+R  Q+   K+       +A  + D++   +  E
Sbjct: 537 EE-NAPLHKLGGDA------WARARQKAAEKVR-----DVAAELLDIYAQRAAKE 579


>gi|288549507|ref|ZP_06390702.1| transcription-repair coupling factor [Enterobacter cancerogenus
           ATCC 35316]
 gi|288318220|gb|EFC57158.1| transcription-repair coupling factor [Enterobacter cancerogenus
           ATCC 35316]
          Length = 992

 Score = 35.9 bits (82), Expect = 3.0,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+ IV+  HGVG    +   E  G+K E+ ++ +  +   L VPV     I
Sbjct: 323 PGQPIVHLEHGVGRYQGMTTLEAGGIKGEYLMLTYA-NDAKLYVPVSSLHLI 373


>gi|153807964|ref|ZP_01960632.1| hypothetical protein BACCAC_02250 [Bacteroides caccae ATCC 43185]
 gi|149129573|gb|EDM20787.1| hypothetical protein BACCAC_02250 [Bacteroides caccae ATCC 43185]
          Length = 1141

 Score = 35.9 bits (82), Expect = 3.0,   Method: Composition-based stats.
 Identities = 20/131 (15%), Positives = 38/131 (29%), Gaps = 33/131 (25%)

Query: 14  FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLS 73
           F  G+++V+  HG+G  + +          E   + F  + +                  
Sbjct: 453 FTPGDYVVHTDHGIGRFSGLVRIPNGDTTQEVLKLVFQNEDVVF---------------V 497

Query: 74  EAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHR--- 124
             H + +  K    +    R        W         K+       I ++ RDL +   
Sbjct: 498 SIHSLHKVSKYKGKEGEAPRLNKLGTGAW--------EKLKERTKTKIKDIARDLIKLYS 549

Query: 125 -TDSQPEKSYS 134
               +   SYS
Sbjct: 550 QRRQEKGFSYS 560


>gi|255281409|ref|ZP_05345964.1| transcription-repair coupling factor [Bryantella formatexigens DSM
           14469]
 gi|255267897|gb|EET61102.1| transcription-repair coupling factor [Bryantella formatexigens DSM
           14469]
          Length = 1179

 Score = 35.9 bits (82), Expect = 3.1,   Method: Composition-based stats.
 Identities = 9/39 (23%), Positives = 21/39 (53%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKD 53
             G+++V+ +HG+G    I++ EV  +  ++  I +   
Sbjct: 503 NVGDYVVHESHGLGIYRGIEKIEVDHVMKDYMKIEYSGG 541


>gi|119505858|ref|ZP_01627923.1| transcription-repair coupling protein Mfd [marine gamma
           proteobacterium HTCC2080]
 gi|119458286|gb|EAW39396.1| transcription-repair coupling protein Mfd [marine gamma
           proteobacterium HTCC2080]
          Length = 1150

 Score = 35.9 bits (82), Expect = 3.1,   Method: Composition-based stats.
 Identities = 33/155 (21%), Positives = 56/155 (36%), Gaps = 24/155 (15%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK----AIDIGMR 70
           R G  +V+  HGVG    ++  E+ G   EF ++ +      L VPVG     A   G  
Sbjct: 481 RPGVPVVHLQHGVGRYMGLQSLEIDGAPAEFLLLQYADAD-KLYVPVGSLHLIARYTG-- 537

Query: 71  KLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE 130
             ++       L  +  +   K     RRA+E            +A  + +++      +
Sbjct: 538 --ADPDTAP--LHRLGSEQWEKAR---RRARE--------KANDVAAQLLEVYARREARQ 582

Query: 131 KSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
               E  L E+A  R   E     +  +  AI  +
Sbjct: 583 GFQCE--LDETAWQRFSEEFPFEETPDQSAAIEAV 615


>gi|32491336|ref|NP_871590.1| asparagine synthetase B [Wigglesworthia glossinidia endosymbiont of
           Glossina brevipalpis]
 gi|25166543|dbj|BAC24733.1| asnB [Wigglesworthia glossinidia endosymbiont of Glossina
           brevipalpis]
          Length = 545

 Score = 35.9 bits (82), Expect = 3.1,   Method: Composition-based stats.
 Identities = 12/112 (10%), Positives = 34/112 (30%), Gaps = 12/112 (10%)

Query: 41  MKLEFFVIAFDKDKMCLKVPV----GKAIDIGMRKLSEAHFVERALK---LVRGKARVKR 93
            K+ ++V  +D   +   +P+     K    G++ +      +               K 
Sbjct: 302 KKVIYYVETYDITTIRASIPMYLISQKIKSSGIKMILSGEGADEIFGGYLYFHNAPSEKD 361

Query: 94  TMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNR 145
                   E   K+ S  +   A   + +     +    + +++  + A+  
Sbjct: 362 L-----HDELVRKLKSLHIYDCARANKSMLAFGIEARFPFLDKKFLDVAMRI 408


>gi|225028227|ref|ZP_03717419.1| hypothetical protein EUBHAL_02499 [Eubacterium hallii DSM 3353]
 gi|224954539|gb|EEG35748.1| hypothetical protein EUBHAL_02499 [Eubacterium hallii DSM 3353]
          Length = 1187

 Score = 35.5 bits (81), Expect = 3.1,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+++V+  +G+G    +++ E  G+  ++  I + KD   L VP  +   I
Sbjct: 518 SVGDYVVHEKYGLGIYRGMEKIESDGITKDYINIEY-KDASNLFVPASQLELI 569


>gi|145480461|ref|XP_001426253.1| hypothetical protein [Paramecium tetraurelia strain d4-2]
 gi|124393327|emb|CAK58855.1| unnamed protein product [Paramecium tetraurelia]
          Length = 2327

 Score = 35.5 bits (81), Expect = 3.1,   Method: Composition-based stats.
 Identities = 23/100 (23%), Positives = 35/100 (35%), Gaps = 11/100 (11%)

Query: 70   RKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAE----VVRDLHRT 125
            R +      E  L     +     T    R Q    K++SG  +  A     +V  L R 
Sbjct: 1881 RDIIAKKLREIVL----TQDIYMPTN--PRYQITSIKLDSGTPMQSAAKCPILVSFLCRK 1934

Query: 126  DSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLI 165
               P+K Y ER+L E        EI     + E +   ++
Sbjct: 1935 YEGPDK-YFERKLKEKREFGKALEIELTKQLKEEDIQKML 1973


>gi|221134655|ref|ZP_03560958.1| transcription-repair coupling factor [Glaciecola sp. HTCC2999]
          Length = 1170

 Score = 35.5 bits (81), Expect = 3.1,   Method: Composition-based stats.
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
            TG+ +V+  HGVG    ++  +  G+  EF  I + K    L VPV  
Sbjct: 498 STGQPVVHIEHGVGRYLGLETLDAGGVTTEFVAIEYGKGA-KLYVPVSS 545


>gi|116070624|ref|ZP_01467893.1| Transcription-repair coupling factor [Synechococcus sp. BL107]
 gi|116066029|gb|EAU71786.1| Transcription-repair coupling factor [Synechococcus sp. BL107]
          Length = 1192

 Score = 35.5 bits (81), Expect = 3.2,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       R G+ +V+  HG+G    + +  ++G   ++ V+ +      L+V  
Sbjct: 487 RKAASRTVDPNKMRPGDFVVHRNHGIGRFKAMDKLALSGDVRDYLVVQYADG--ILRVAA 544

Query: 62  GKAIDIG 68
            +   +G
Sbjct: 545 DQLGSLG 551


>gi|330996173|ref|ZP_08320063.1| transcription-repair coupling factor [Paraprevotella xylaniphila
           YIT 11841]
 gi|329573677|gb|EGG55268.1| transcription-repair coupling factor [Paraprevotella xylaniphila
           YIT 11841]
          Length = 1133

 Score = 35.5 bits (81), Expect = 3.2,   Method: Composition-based stats.
 Identities = 25/126 (19%), Positives = 38/126 (30%), Gaps = 29/126 (23%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRK 71
           Q F  G+++V+  HGVG    +      G   E   I +  D +                
Sbjct: 444 QEFNIGDYVVHVDHGVGKFGGLVRIPNGGTMQEVIKIIYQNDDVVF-------------- 489

Query: 72  LSEAHFVERALKLVRGKARVKRTM------WSRRAQEYDAKINSGDLIAIAEVVRDLHRT 125
               H + +  K    +    R        W R  +    KI       IA   RDL + 
Sbjct: 490 -VSIHSLHKVSKYRGKEGEPPRLNKLGTGAWERLKERTKTKIK-----DIA---RDLIKL 540

Query: 126 DSQPEK 131
            S   +
Sbjct: 541 YSLRRQ 546


>gi|319943635|ref|ZP_08017916.1| transcription-repair coupling factor [Lautropia mirabilis ATCC
           51599]
 gi|319742868|gb|EFV95274.1| transcription-repair coupling factor [Lautropia mirabilis ATCC
           51599]
          Length = 1264

 Score = 35.5 bits (81), Expect = 3.3,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    +   ++     EF  +++  +   L VPV     IG
Sbjct: 567 KPGDPVVHAQHGIGRYMGLVNIDLGEGAAEFLHLSYA-NDATLYVPVAMLHLIG 619


>gi|290475839|ref|YP_003468731.1| transcription-repair ATP-dependent coupling factor [Xenorhabdus
           bovienii SS-2004]
 gi|289175164|emb|CBJ81967.1| transcription-repair ATP-dependent coupling factor [Xenorhabdus
           bovienii SS-2004]
          Length = 1146

 Score = 35.5 bits (81), Expect = 3.3,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+ +V+  HGVG    +   E  G++ E+ ++ +  +   L VPV     I
Sbjct: 479 GQPVVHLEHGVGRYQGLMMLEAGGIQAEYLILTYAGED-KLYVPVSSLHLI 528


>gi|218460982|ref|ZP_03501073.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           Kim 5]
          Length = 825

 Score = 35.5 bits (81), Expect = 3.3,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 158 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 209


>gi|78184749|ref|YP_377184.1| transcription-repair coupling factor [Synechococcus sp. CC9902]
 gi|78169043|gb|ABB26140.1| Transcription-repair coupling factor [Synechococcus sp. CC9902]
          Length = 1192

 Score = 35.5 bits (81), Expect = 3.3,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 27/67 (40%), Gaps = 2/67 (2%)

Query: 2   TFQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV 61
                R       R G+ +V+  HG+G    + +  ++G   ++ V+ +      L+V  
Sbjct: 487 RKAASRTVDPNKMRPGDFVVHRNHGIGRFKAMDKLALSGDVRDYLVVQYADG--ILRVAA 544

Query: 62  GKAIDIG 68
            +   +G
Sbjct: 545 DQLGSLG 551


>gi|38233507|ref|NP_939274.1| transcription-repair coupling factor [Corynebacterium diphtheriae
           NCTC 13129]
 gi|38199767|emb|CAE49427.1| transcription-repair coupling factor [Corynebacterium diphtheriae]
          Length = 1264

 Score = 35.5 bits (81), Expect = 3.3,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 1   MTFQQKRDAMRQ------GFRTGEHIVYPAHGVGTITEIKEQEV--AGMK--LEFFVIAF 50
           +   ++R A R+        +TG+++V+  HG+G   ++ E+ +         E+ V+ +
Sbjct: 498 IAGAKRRPAKRRHRVDPLALKTGDYVVHETHGIGRFLKMTERVIQSGDETSRREYIVLEY 557

Query: 51  DKDKM-----CLKVPVGKAI 65
              K       L VP+    
Sbjct: 558 AASKRGQPADQLYVPMDSLD 577


>gi|85059053|ref|YP_454755.1| transcription-repair coupling factor [Sodalis glossinidius str.
           'morsitans']
 gi|84779573|dbj|BAE74350.1| transcription-repair coupling factor [Sodalis glossinidius str.
           'morsitans']
          Length = 1150

 Score = 35.5 bits (81), Expect = 3.3,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+ +V+  HGVG    +   E   +K E+ ++ +  +   L VPV     I
Sbjct: 481 GQPVVHLEHGVGRYAGMTTLEAGSIKAEYLILTYACND-KLYVPVSSLHLI 530


>gi|229523905|ref|ZP_04413310.1| transcription-repair coupling factor [Vibrio cholerae bv. albensis
           VL426]
 gi|229337486|gb|EEO02503.1| transcription-repair coupling factor [Vibrio cholerae bv. albensis
           VL426]
          Length = 1157

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++   +++  L VPV     I
Sbjct: 485 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEC-QNEAKLYVPVSSLNLI 536


>gi|120602306|ref|YP_966706.1| transcription-repair coupling factor [Desulfovibrio vulgaris DP4]
 gi|120562535|gb|ABM28279.1| transcription-repair coupling factor [Desulfovibrio vulgaris DP4]
 gi|311233705|gb|ADP86559.1| transcription-repair coupling factor [Desulfovibrio vulgaris RCH1]
          Length = 1159

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +G + G+ +V+  +GV     ++  ++ G+  +F ++ +  D   L +PV +   +
Sbjct: 486 EGLQPGDLLVHRDYGVARFVGLERMDLGGVGNDFLLLEYAGDD-RLYLPVDRLSLV 540


>gi|46580312|ref|YP_011120.1| transcription-repair coupling factor [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|46449729|gb|AAS96379.1| transcription-repair coupling factor [Desulfovibrio vulgaris str.
           Hildenborough]
          Length = 1160

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +G + G+ +V+  +GV     ++  ++ G+  +F ++ +  D   L +PV +   +
Sbjct: 487 EGLQPGDLLVHRDYGVARFVGLERMDLGGVGNDFLLLEYAGDD-RLYLPVDRLSLV 541


>gi|76801308|ref|YP_326316.1| citrate (si)-synthase [Natronomonas pharaonis DSM 2160]
 gi|76557173|emb|CAI48748.1| citrate (si)-synthase [Natronomonas pharaonis DSM 2160]
          Length = 378

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 11/79 (13%)

Query: 117 EVVRDLHRTDSQP-------EKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNL 169
           EVV  L   +          + S +E +  +  + ++VRE+A      + E +  +   +
Sbjct: 47  EVVYLLWHGELPTADELGSFKSSMAEERHLDDGVQQLVRELAEA----DEEPMAALRSIV 102

Query: 170 SSKSSKTEKSTSENQDKAA 188
           SS S+    + +E  D+AA
Sbjct: 103 SSLSAYDPDADAEPTDEAA 121


>gi|323455806|gb|EGB11674.1| expressed protein [Aureococcus anophagefferens]
          Length = 519

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 33/71 (46%), Gaps = 1/71 (1%)

Query: 114 AIAEVVRDLHRTDSQPEKSYSERQLYESALNRM-VREIAAVNSISEPEAINLIEVNLSSK 172
            I E VR + R DS       ++Q Y++A+  + + E   + ++ E +A ++++     +
Sbjct: 18  EIFEAVRAVARGDSVLGLLNQQKQHYDAAMVLLAISEAVRLGALDEADARDVLDATRYER 77

Query: 173 SSKTEKSTSEN 183
            +       +N
Sbjct: 78  EAFAAGHDDDN 88


>gi|313904443|ref|ZP_07837820.1| transcription-repair coupling factor [Eubacterium cellulosolvens 6]
 gi|313470779|gb|EFR66104.1| transcription-repair coupling factor [Eubacterium cellulosolvens 6]
          Length = 1128

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 10/56 (17%), Positives = 24/56 (42%), Gaps = 3/56 (5%)

Query: 2   TFQQKRDAMRQGFR---TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           + + K     + F     G+++V+  HG+G    I++  V  +  ++  I +    
Sbjct: 442 SAKTKSGDRIRDFSELSVGDYVVHENHGLGVYRGIEKITVDHVVKDYVKIEYADGG 497


>gi|229515266|ref|ZP_04404726.1| transcription-repair coupling factor [Vibrio cholerae TMA 21]
 gi|229347971|gb|EEO12930.1| transcription-repair coupling factor [Vibrio cholerae TMA 21]
          Length = 1157

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 485 KPGQPVVHIEHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 536


>gi|227497779|ref|ZP_03927965.1| transcription-repair coupling factor [Actinomyces urogenitalis DSM
           15434]
 gi|226832806|gb|EEH65189.1| transcription-repair coupling factor [Actinomyces urogenitalis DSM
           15434]
          Length = 1250

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 9/60 (15%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKM-----CLKVPVGKAIDI 67
           G+ +V+  HGVG   E+  + V         E+ VI +   K       L VP      +
Sbjct: 548 GDLVVHAQHGVGRFVELMRRNVGTGKNAATREYVVIEYAPSKRGQPGDRLLVPTDALDQV 607


>gi|172087806|ref|YP_206418.2| transcription-repair coupling factor [Vibrio fischeri ES114]
 gi|197337336|ref|YP_002158058.1| transcription-repair coupling factor [Vibrio fischeri MJ11]
 gi|171902389|gb|AAW87530.2| transcription-repair coupling factor [Vibrio fischeri ES114]
 gi|197314588|gb|ACH64037.1| transcription-repair coupling factor [Vibrio fischeri MJ11]
          Length = 1151

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  +V  M  E+ ++ + +D+  L VPV     I
Sbjct: 482 KIGQPVVHLDHGIGRYMGLQTLDVGDMPAEYMMLEY-QDQAKLYVPVSSLNLI 533


>gi|148260750|ref|YP_001234877.1| transcription-repair coupling factor [Acidiphilium cryptum JF-5]
 gi|326403946|ref|YP_004284028.1| transcription-repair-coupling factor [Acidiphilium multivorum
           AIU301]
 gi|146402431|gb|ABQ30958.1| transcription-repair coupling factor [Acidiphilium cryptum JF-5]
 gi|325050808|dbj|BAJ81146.1| transcription-repair-coupling factor [Acidiphilium multivorum
           AIU301]
          Length = 1144

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    +    V G   +   I        L +PV    
Sbjct: 473 GDLVVHQDHGIGRYDGLVTLSVEGAPHDCLRI-LYDGDQKLFLPVENID 520


>gi|254281663|ref|ZP_04956631.1| transcription-repair coupling factor [gamma proteobacterium
           NOR51-B]
 gi|219677866|gb|EED34215.1| transcription-repair coupling factor [gamma proteobacterium
           NOR51-B]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G  +V+  HGVG    ++  E+     EF V+ +  D   L VPVG    I
Sbjct: 481 SPGVPVVHLEHGVGRYIGLQTLEIENDPAEFLVLEYASDD-KLYVPVGSLHLI 532


>gi|146296229|ref|YP_001180000.1| transcription-repair coupling factor [Caldicellulosiruptor
           saccharolyticus DSM 8903]
 gi|145409805|gb|ABP66809.1| transcription-repair coupling factor [Caldicellulosiruptor
           saccharolyticus DSM 8903]
          Length = 1143

 Score = 35.5 bits (81), Expect = 3.4,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G ++V+  +G+G     ++  V G+  E+  + +  +   L VP      I
Sbjct: 483 KYGSYVVHRTYGIGKFLGFEKITVEGVTKEYLKLEYA-NNSYLYVPTTNLDVI 534


>gi|310824213|ref|YP_003956571.1| transcription-repair-coupling factor [Stigmatella aurantiaca
           DW4/3-1]
 gi|309397285|gb|ADO74744.1| Transcription-repair-coupling factor [Stigmatella aurantiaca
           DW4/3-1]
          Length = 1194

 Score = 35.5 bits (81), Expect = 3.5,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 47/112 (41%), Gaps = 19/112 (16%)

Query: 4   QQKRDAMRQGFR---TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
            +K +A   GF+    G+ IV+   G+G    + + +V G+  +F V+ +      + +P
Sbjct: 512 SKKSEAFGAGFKDLKEGDLIVHTDFGIGRYAGLTKMQVNGVPGDFLVLEYAGRD-KIYLP 570

Query: 61  VGKAIDIGMRKL-----SEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKI 107
           VG+     MR +      +   V+  L  +      K     RR +E   K+
Sbjct: 571 VGR-----MRLIQKFTGGDPSQVQ--LDKLGTPGWEKT---KRRVKEQLLKM 612


>gi|312113596|ref|YP_004011192.1| transcription-repair coupling factor [Rhodomicrobium vannielii ATCC
           17100]
 gi|311218725|gb|ADP70093.1| transcription-repair coupling factor [Rhodomicrobium vannielii ATCC
           17100]
          Length = 1249

 Score = 35.5 bits (81), Expect = 3.5,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 1/50 (2%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
            G+ +V+  HG+G    +K  + AG   +   + +      L +P+    
Sbjct: 512 PGDLMVHADHGIGRFIGLKTIDAAGAPHDCVELEYAGGD-KLFLPIENME 560


>gi|258593268|emb|CBE69607.1| Transcription-repair-coupling factor (TRCF) (ATP-dependent helicase
           mfd) [NC10 bacterium 'Dutch sediment']
          Length = 1152

 Score = 35.5 bits (81), Expect = 3.5,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+ +V+  HG+G    +++  V G + ++ +I    +   L VP GK   I
Sbjct: 475 GDFVVHEDHGIGVYKGLRQLTVGGTEGDYLLI-LYAEHAKLYVPTGKLHLI 524


>gi|119472828|ref|ZP_01614752.1| transcription-repair ATP-dependent coupling factor [Alteromonadales
           bacterium TW-7]
 gi|119444723|gb|EAW26029.1| transcription-repair ATP-dependent coupling factor [Alteromonadales
           bacterium TW-7]
          Length = 1157

 Score = 35.5 bits (81), Expect = 3.5,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HGVG    ++  + AG+  EF  I     +  L VPV 
Sbjct: 487 KEGQPVVHLDHGVGRYQGLQTIDAAGVITEFVTI-IYAGESKLYVPVS 533


>gi|220934531|ref|YP_002513430.1| transcription-repair coupling factor [Thioalkalivibrio sp.
           HL-EbGR7]
 gi|219995841|gb|ACL72443.1| transcription-repair coupling factor [Thioalkalivibrio sp.
           HL-EbGR7]
          Length = 1157

 Score = 35.5 bits (81), Expect = 3.6,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G  +V+  HGVG    +++  V G + EF  + +      L VPV     +
Sbjct: 487 PGAPVVHEEHGVGRYLGLQKLAVGGQETEFLALEYAGGD-KLYVPVSSLHLV 537


>gi|308185328|ref|YP_003929461.1| transcription-repair coupling factor [Helicobacter pylori SJM180]
 gi|308061248|gb|ADO03144.1| transcription-repair coupling factor [Helicobacter pylori SJM180]
          Length = 999

 Score = 35.5 bits (81), Expect = 3.6,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           +K          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 RKSKLALNELNPGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVE 79
             I  R ++++  V 
Sbjct: 411 HLIA-RYVAQSDSVP 424


>gi|153870816|ref|ZP_02000135.1| truncated transcription-repair coupling factor [Beggiatoa sp. PS]
 gi|152072718|gb|EDN69865.1| truncated transcription-repair coupling factor [Beggiatoa sp. PS]
          Length = 668

 Score = 35.5 bits (81), Expect = 3.6,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 1/54 (1%)

Query: 16 TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
           G  +V+  HGVG    +    V  ++ EF  + + K    L VPV     I +
Sbjct: 3  VGAPVVHEEHGVGRYQGLMTLTVGEIEAEFLQLEYAKSD-KLYVPVASLHFISL 55


>gi|328790701|ref|XP_625062.3| PREDICTED: hypothetical protein LOC552684 [Apis mellifera]
          Length = 2872

 Score = 35.5 bits (81), Expect = 3.7,   Method: Composition-based stats.
 Identities = 10/36 (27%), Positives = 18/36 (50%)

Query: 86   RGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRD 121
            +  ++ +R  WSRR  +Y  +   G      EV+R+
Sbjct: 1885 KHGSKGERDEWSRRKYDYMEREKEGRPYETIEVLRE 1920


>gi|315186109|gb|EFU19871.1| cysteinyl-tRNA synthetase [Spirochaeta thermophila DSM 6578]
          Length = 470

 Score = 35.5 bits (81), Expect = 3.7,   Method: Composition-based stats.
 Identities = 14/86 (16%), Positives = 40/86 (46%), Gaps = 5/86 (5%)

Query: 101 QEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPE 160
           +E++  I  GD ++    +  L R     +    ER +    ++R++  ++   +I+  +
Sbjct: 361 REFEEAI--GDDLSTPRALAVLWRAVKDEDLPPEERAVLTVTMDRILG-LSLAEAIASDD 417

Query: 161 AI--NLIEVNLSSKSSKTEKSTSENQ 184
           A+   L+E+    ++ + ++  +E  
Sbjct: 418 ALEPELLELVQRREALRKQRDFAEAD 443


>gi|71907594|ref|YP_285181.1| transcription-repair coupling factor [Dechloromonas aromatica RCB]
 gi|71847215|gb|AAZ46711.1| transcription-repair coupling factor [Dechloromonas aromatica RCB]
          Length = 1147

 Score = 35.5 bits (81), Expect = 3.7,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+ +HG+G    +   ++   + EF  + +  ++  L VPV +
Sbjct: 475 KVGDPVVHESHGIGRYRGLIRMDLGNGEQEFLELHYA-NEAKLFVPVAQ 522


>gi|261210529|ref|ZP_05924822.1| transcription-repair coupling factor [Vibrio sp. RC341]
 gi|260840314|gb|EEX66885.1| transcription-repair coupling factor [Vibrio sp. RC341]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.7,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|320105780|ref|YP_004181370.1| transcription-repair coupling factor [Terriglobus saanensis SP1PR4]
 gi|319924301|gb|ADV81376.1| transcription-repair coupling factor [Terriglobus saanensis SP1PR4]
          Length = 1210

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            G+++V+  HG+     ++  +  GM LE  ++ F + +  L VP+ +   I
Sbjct: 529 VGDYVVHVEHGIAKYMGLRTIDQEGMPLELMILEFAE-QAKLYVPLTRLDLI 579


>gi|229520346|ref|ZP_04409772.1| transcription-repair coupling factor [Vibrio cholerae TM 11079-80]
 gi|229342712|gb|EEO07704.1| transcription-repair coupling factor [Vibrio cholerae TM 11079-80]
          Length = 1157

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 485 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 536


>gi|212550582|ref|YP_002308899.1| transcription-repair coupling factor [Candidatus Azobacteroides
           pseudotrichonymphae genomovar. CFP2]
 gi|212548820|dbj|BAG83488.1| transcription-repair coupling factor [Candidatus Azobacteroides
           pseudotrichonymphae genomovar. CFP2]
          Length = 1109

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 20/43 (46%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDK 54
           Q F+ G+++V+  HG+G    +   E  G   E   + F  + 
Sbjct: 428 QQFQVGDYLVHIDHGIGKFGGLIRTETNGKMQEVVKMTFLNED 470


>gi|183179491|ref|ZP_02957702.1| transcription-repair coupling factor [Vibrio cholerae MZO-3]
 gi|183012902|gb|EDT88202.1| transcription-repair coupling factor [Vibrio cholerae MZO-3]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|163815909|ref|ZP_02207279.1| hypothetical protein COPEUT_02089 [Coprococcus eutactus ATCC 27759]
 gi|158448719|gb|EDP25714.1| hypothetical protein COPEUT_02089 [Coprococcus eutactus ATCC 27759]
          Length = 353

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           G+  +    F+   L+      R +R MW +R Q+    + SG      EV R
Sbjct: 280 GLGDVKVKKFLNNVLQAELAPIRERRQMWEKRPQDVYDILKSGS-----EVAR 327


>gi|90413103|ref|ZP_01221100.1| putative transcription-repair coupling factor [Photobacterium
           profundum 3TCK]
 gi|90325946|gb|EAS42392.1| putative transcription-repair coupling factor [Photobacterium
           profundum 3TCK]
          Length = 1151

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  G+  E+ ++ +      L VPV     I
Sbjct: 482 QIGQPVVHIDHGIGRYQGLQTLEAGGITTEYVMLEYHAGA-KLYVPVASLHLI 533


>gi|297579403|ref|ZP_06941331.1| transcription-repair coupling factor [Vibrio cholerae RC385]
 gi|297536997|gb|EFH75830.1| transcription-repair coupling factor [Vibrio cholerae RC385]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|295093587|emb|CBK82678.1| tryptophanyl-tRNA synthetase [Coprococcus sp. ART55/1]
          Length = 353

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 68  GMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVR 120
           G+  +    F+   L+      R +R MW +R Q+    + SG      EV R
Sbjct: 280 GLGDVKVKKFLNNVLQAELAPIRERRQMWEKRPQDVYDILKSGS-----EVAR 327


>gi|53803839|ref|YP_114301.1| transcription-repair coupling factor [Methylococcus capsulatus str.
           Bath]
 gi|53757600|gb|AAU91891.1| transcription-repair coupling factor [Methylococcus capsulatus str.
           Bath]
          Length = 1147

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G  +V+  HGVG    ++  +  G++ EF  I +  D   L VPV     +
Sbjct: 481 EIGAPVVHREHGVGRYLGLQRIDTGGVESEFLTIRYANDD-KLYVPVSALGMV 532


>gi|283779708|ref|YP_003370463.1| transcription-repair coupling factor [Pirellula staleyi DSM 6068]
 gi|283438161|gb|ADB16603.1| transcription-repair coupling factor [Pirellula staleyi DSM 6068]
          Length = 1087

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+ AHG+G    IK  E      E   I FD     + VP  +   +
Sbjct: 430 REGDLVVHLAHGIGRFAGIKLLERGETSEEHLEIEFDGGT-RIYVPAVRIDLV 481


>gi|229508016|ref|ZP_04397521.1| transcription-repair coupling factor [Vibrio cholerae BX 330286]
 gi|229511745|ref|ZP_04401224.1| transcription-repair coupling factor [Vibrio cholerae B33]
 gi|229518883|ref|ZP_04408326.1| transcription-repair coupling factor [Vibrio cholerae RC9]
 gi|229607563|ref|YP_002878211.1| transcription-repair coupling factor [Vibrio cholerae MJ-1236]
 gi|229343572|gb|EEO08547.1| transcription-repair coupling factor [Vibrio cholerae RC9]
 gi|229351710|gb|EEO16651.1| transcription-repair coupling factor [Vibrio cholerae B33]
 gi|229355521|gb|EEO20442.1| transcription-repair coupling factor [Vibrio cholerae BX 330286]
 gi|229370218|gb|ACQ60641.1| transcription-repair coupling factor [Vibrio cholerae MJ-1236]
          Length = 1157

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 485 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 536


>gi|229529092|ref|ZP_04418482.1| transcription-repair coupling factor [Vibrio cholerae 12129(1)]
 gi|229332866|gb|EEN98352.1| transcription-repair coupling factor [Vibrio cholerae 12129(1)]
          Length = 1157

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 485 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 536


>gi|153825189|ref|ZP_01977856.1| transcription-repair coupling factor [Vibrio cholerae MZO-2]
 gi|149741168|gb|EDM55219.1| transcription-repair coupling factor [Vibrio cholerae MZO-2]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|153213092|ref|ZP_01948630.1| transcription-repair coupling factor [Vibrio cholerae 1587]
 gi|124116139|gb|EAY34959.1| transcription-repair coupling factor [Vibrio cholerae 1587]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|15641888|ref|NP_231520.1| transcription-repair coupling factor [Vibrio cholerae O1 biovar El
           Tor str. N16961]
 gi|121587314|ref|ZP_01677086.1| transcription-repair coupling factor [Vibrio cholerae 2740-80]
 gi|147674778|ref|YP_001217419.1| transcription-repair coupling factor [Vibrio cholerae O395]
 gi|153823448|ref|ZP_01976115.1| transcription-repair coupling factor [Vibrio cholerae B33]
 gi|227082016|ref|YP_002810567.1| transcription-repair coupling factor [Vibrio cholerae M66-2]
 gi|254848973|ref|ZP_05238323.1| transcription-repair coupling factor [Vibrio cholerae MO10]
 gi|255745354|ref|ZP_05419303.1| transcription-repair coupling factor [Vibrio cholera CIRS 101]
 gi|262153542|ref|ZP_06028671.1| transcription-repair coupling factor [Vibrio cholerae INDRE 91/1]
 gi|262167442|ref|ZP_06035149.1| transcription-repair coupling factor [Vibrio cholerae RC27]
 gi|298498075|ref|ZP_07007882.1| transcription-repair coupling factor [Vibrio cholerae MAK 757]
 gi|9656418|gb|AAF95034.1| transcription-repair coupling factor [Vibrio cholerae O1 biovar El
           Tor str. N16961]
 gi|121548474|gb|EAX58532.1| transcription-repair coupling factor [Vibrio cholerae 2740-80]
 gi|126519037|gb|EAZ76260.1| transcription-repair coupling factor [Vibrio cholerae B33]
 gi|146316661|gb|ABQ21200.1| transcription-repair coupling factor [Vibrio cholerae O395]
 gi|227009904|gb|ACP06116.1| transcription-repair coupling factor [Vibrio cholerae M66-2]
 gi|227013784|gb|ACP09994.1| transcription-repair coupling factor [Vibrio cholerae O395]
 gi|254844678|gb|EET23092.1| transcription-repair coupling factor [Vibrio cholerae MO10]
 gi|255737184|gb|EET92580.1| transcription-repair coupling factor [Vibrio cholera CIRS 101]
 gi|262024139|gb|EEY42833.1| transcription-repair coupling factor [Vibrio cholerae RC27]
 gi|262030669|gb|EEY49304.1| transcription-repair coupling factor [Vibrio cholerae INDRE 91/1]
 gi|297542408|gb|EFH78458.1| transcription-repair coupling factor [Vibrio cholerae MAK 757]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|307298712|ref|ZP_07578515.1| transcription-repair coupling factor [Thermotogales bacterium
           mesG1.Ag.4.2]
 gi|306915877|gb|EFN46261.1| transcription-repair coupling factor [Thermotogales bacterium
           mesG1.Ag.4.2]
          Length = 1012

 Score = 35.5 bits (81), Expect = 3.9,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 38/83 (45%), Gaps = 12/83 (14%)

Query: 17  GEHIVYPAHGVGTITEIKEQE-VAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
           G+++V+  +G+G    ++  E + G   E+ ++ +      + VPV +   +  + +   
Sbjct: 352 GDYVVHKEYGIGRYLGVRTVENILG-TREYLLLEYRDGN-KIYVPVDRVDRVH-KYIGST 408

Query: 76  HFVERALKLVRGKARVKRTMWSR 98
             ++  L  +RG      T W+R
Sbjct: 409 EGIQ--LNSLRG------TAWTR 423


>gi|121727094|ref|ZP_01680268.1| transcription-repair coupling factor [Vibrio cholerae V52]
 gi|121630472|gb|EAX62864.1| transcription-repair coupling factor [Vibrio cholerae V52]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.9,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|83858282|ref|ZP_00951804.1| transcription-repair coupling factor [Oceanicaulis alexandrii
           HTCC2633]
 gi|83853105|gb|EAP90957.1| transcription-repair coupling factor [Oceanicaulis alexandrii
           HTCC2633]
          Length = 1162

 Score = 35.5 bits (81), Expect = 3.9,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 1/57 (1%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           A       G+ +V+  HG+G    +K   V     +   + +   K  L +PV    
Sbjct: 485 AEAGALTPGDLVVHADHGLGRYLGLKTLSVGEAPHDCLELEYA-GKSKLYLPVENIE 540


>gi|120554850|ref|YP_959201.1| transcription-repair coupling factor [Marinobacter aquaeolei VT8]
 gi|120324699|gb|ABM19014.1| transcription-repair coupling factor [Marinobacter aquaeolei VT8]
          Length = 1173

 Score = 35.5 bits (81), Expect = 3.9,   Method: Composition-based stats.
 Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    ++     G   EF  + +      L VPV     I
Sbjct: 499 RIGAPVVHIDHGVGRYKGLETLTAGGQSDEFLTLEYA-GGSKLYVPVSSLHLI 550


>gi|296087837|emb|CBI35093.3| unnamed protein product [Vitis vinifera]
          Length = 613

 Score = 35.5 bits (81), Expect = 3.9,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 37/84 (44%), Gaps = 18/84 (21%)

Query: 104 DAKINSGDLIAIA-EVVRDLHRTDSQPEKSYSERQLYESALNRMVREIA----------- 151
            A +  G   + A +VV++  +   Q + +  E QL E+ L ++++E+            
Sbjct: 18  QALLKPGPPESFALQVVQEAIKPQKQTKLAQDENQLLENILRKLLQELVSCAVQSGEKIM 77

Query: 152 -AVNSISEPEAIN-----LIEVNL 169
               SI + EAI      L+++ L
Sbjct: 78  HYGQSIDDEEAIQSQIPRLLDIVL 101


>gi|254226050|ref|ZP_04919649.1| transcription-repair coupling factor [Vibrio cholerae V51]
 gi|125621433|gb|EAZ49768.1| transcription-repair coupling factor [Vibrio cholerae V51]
          Length = 1155

 Score = 35.5 bits (81), Expect = 3.9,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|296087823|emb|CBI35079.3| unnamed protein product [Vitis vinifera]
          Length = 613

 Score = 35.5 bits (81), Expect = 4.0,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 37/84 (44%), Gaps = 18/84 (21%)

Query: 104 DAKINSGDLIAIA-EVVRDLHRTDSQPEKSYSERQLYESALNRMVREIA----------- 151
            A +  G   + A +VV++  +   Q + +  E QL E+ L ++++E+            
Sbjct: 18  QALLKPGPPESFALQVVQEAIKPQKQTKLAQDENQLLENILRKLLQELVSCAVQSGEKIM 77

Query: 152 -AVNSISEPEAIN-----LIEVNL 169
               SI + EAI      L+++ L
Sbjct: 78  QYGQSIDDEEAIQSQIPRLLDIVL 101


>gi|319940955|ref|ZP_08015292.1| transcription-repair coupling factor [Sutterella wadsworthensis
           3_1_45B]
 gi|319805528|gb|EFW02323.1| transcription-repair coupling factor [Sutterella wadsworthensis
           3_1_45B]
          Length = 1194

 Score = 35.1 bits (80), Expect = 4.1,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    +   E      EF  I + K+   L VP+     I
Sbjct: 486 KPGDAVVHADHGIGRYQGLVHMETPDGDAEFLEITY-KNDAKLFVPITNLQLI 537


>gi|224824692|ref|ZP_03697799.1| transcription-repair coupling factor [Lutiella nitroferrum 2002]
 gi|224603185|gb|EEG09361.1| transcription-repair coupling factor [Lutiella nitroferrum 2002]
          Length = 1129

 Score = 35.1 bits (80), Expect = 4.1,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    +   ++   + E   + +  D   L VPV +   I
Sbjct: 467 KVGDPVVHEQHGIGRYLGLVSMDLGEGETELMQLEYA-DGAKLYVPVSQLQLI 518


>gi|145630885|ref|ZP_01786662.1| transcription-repair coupling factor [Haemophilus influenzae R3021]
 gi|144983545|gb|EDJ91013.1| transcription-repair coupling factor [Haemophilus influenzae R3021]
          Length = 564

 Score = 35.1 bits (80), Expect = 4.1,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|225463994|ref|XP_002263874.1| PREDICTED: hypothetical protein [Vitis vinifera]
          Length = 607

 Score = 35.1 bits (80), Expect = 4.2,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 38/84 (45%), Gaps = 18/84 (21%)

Query: 104 DAKINSGDLIAIA-EVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAV--------- 153
            A +  G   + A +VV++  +   Q + +  E QL E+ L ++++E+ +          
Sbjct: 12  QALLKPGPPESFALQVVQEAIKPQKQTKLAQDENQLLENILRKLLQELVSCAVQSGEKIM 71

Query: 154 ---NSISEPEAIN-----LIEVNL 169
               SI + EAI      L+++ L
Sbjct: 72  HYGQSIDDEEAIQSQIPRLLDIVL 95


>gi|323359428|ref|YP_004225824.1| transcription-repair coupling factor [Microbacterium testaceum
           StLB037]
 gi|323275799|dbj|BAJ75944.1| transcription-repair coupling factor [Microbacterium testaceum
           StLB037]
          Length = 1195

 Score = 35.1 bits (80), Expect = 4.2,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 16/65 (24%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAG-------MKLEFFVIA-------FDKDKMCLKVP 60
           + G+ +V+  HG+G   E+ ++EV+           E+ V+        +  D   L VP
Sbjct: 509 KPGDVVVHATHGIGKFLELTQREVSSGGRNAVKTTKEYLVLEYAPAKRGYPGD--KLFVP 566

Query: 61  VGKAI 65
             +  
Sbjct: 567 TDQLD 571


>gi|315499869|ref|YP_004088672.1| transcription-repair coupling factor [Asticcacaulis excentricus CB
           48]
 gi|315417881|gb|ADU14521.1| transcription-repair coupling factor [Asticcacaulis excentricus CB
           48]
          Length = 1168

 Score = 35.1 bits (80), Expect = 4.3,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 1/49 (2%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G+ +V+  HG+G    +K   V         + +      L +PV    
Sbjct: 501 GDLVVHIEHGIGRYEGLKTLSVNDAPHACLELQYAA-DAKLYLPVENID 548


>gi|218512758|ref|ZP_03509598.1| transcription-repair coupling factor (TRCF) protein [Rhizobium etli
           8C-3]
          Length = 277

 Score = 35.1 bits (80), Expect = 4.3,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    +K  E AG       + +  D+  L +PV    
Sbjct: 211 GLDEGSIVVHAEHGIGRFIGLKTIEAAGAPHACLELQYA-DEAKLFLPVENID 262


>gi|189218310|ref|YP_001938952.1| transcription-repair coupling factor mfd (superfamily II helicase)
           [Methylacidiphilum infernorum V4]
 gi|189185168|gb|ACD82353.1| Transcription-repair coupling factor mfd (superfamily II helicase)
           [Methylacidiphilum infernorum V4]
          Length = 1060

 Score = 35.1 bits (80), Expect = 4.3,   Method: Composition-based stats.
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 5/74 (6%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+   G+     I  + + G   E   + FD+ +  L VP+ +A  I  R +  
Sbjct: 411 KEGDIVVHLQKGICKFKGI--KTIEGTNTEMVELEFDQ-QAKLYVPIDQAHLIA-RYIGG 466

Query: 75  AHFVERALKLVRGK 88
              + + L  + G 
Sbjct: 467 TKKLPK-LDSLGGN 479


>gi|296157812|ref|ZP_06840646.1| transcription-repair coupling factor [Burkholderia sp. Ch1-1]
 gi|295892058|gb|EFG71842.1| transcription-repair coupling factor [Burkholderia sp. Ch1-1]
          Length = 1160

 Score = 35.1 bits (80), Expect = 4.4,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KLGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|91783503|ref|YP_558709.1| transcription-repair coupling factor [Burkholderia xenovorans
           LB400]
 gi|91687457|gb|ABE30657.1| transcription-repair coupling factor [Burkholderia xenovorans
           LB400]
          Length = 1160

 Score = 35.1 bits (80), Expect = 4.4,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +      L VPV +
Sbjct: 483 KLGDPVVHSQHGIGRYMGLVTMDLGEGETEFLHLEYA-GDSKLYVPVAQ 530


>gi|325277315|ref|ZP_08142941.1| transcription-repair coupling factor [Pseudomonas sp. TJI-51]
 gi|324097550|gb|EGB95770.1| transcription-repair coupling factor [Pseudomonas sp. TJI-51]
          Length = 1149

 Score = 35.1 bits (80), Expect = 4.4,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF  + + ++   L VPV     I
Sbjct: 480 REGAPVVHIDHGVGRYLGLATLEIDGQAAEFLTLEYAENA-KLYVPVANLHLI 531


>gi|237745816|ref|ZP_04576296.1| transcription-repair coupling factor [Oxalobacter formigenes
           HOxBLS]
 gi|229377167|gb|EEO27258.1| transcription-repair coupling factor [Oxalobacter formigenes
           HOxBLS]
          Length = 1150

 Score = 35.1 bits (80), Expect = 4.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + + ++   L VPV +
Sbjct: 483 KIGDPVVHAHHGIGRYRGLVTVDLGEGETEFLHLQYARET-KLYVPVSQ 530


>gi|167032697|ref|YP_001667928.1| transcription-repair coupling factor [Pseudomonas putida GB-1]
 gi|166859185|gb|ABY97592.1| transcription-repair coupling factor [Pseudomonas putida GB-1]
          Length = 1141

 Score = 35.1 bits (80), Expect = 4.5,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF  + + ++   L VPV     I
Sbjct: 472 REGAPVVHIDHGVGRYLGLATLEIDGQAAEFLTLEYAENA-KLYVPVANLHLI 523


>gi|153007315|ref|YP_001381640.1| transcription-repair coupling factor [Anaeromyxobacter sp. Fw109-5]
 gi|152030888|gb|ABS28656.1| transcription-repair coupling factor [Anaeromyxobacter sp. Fw109-5]
          Length = 1229

 Score = 35.1 bits (80), Expect = 4.6,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 8   DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
            A  +    G+ +V+  HG+     + + ++ G++ +F V+A+D     L +PV K   +
Sbjct: 504 AAAFRDLNEGDLVVHVEHGIARYLGLTKMQIRGVEGDFLVLAYDGAD-RLYLPVAKLRQV 562


>gi|319949680|ref|ZP_08023714.1| transcription-repair coupling factor [Dietzia cinnamea P4]
 gi|319436671|gb|EFV91757.1| transcription-repair coupling factor [Dietzia cinnamea P4]
          Length = 1222

 Score = 35.1 bits (80), Expect = 4.6,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 9/64 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAG----MKLEFFVIAFDKDKM-----CLKVPVGK 63
             + G+ +V+  HG+G   E+ E++V G     + E+ VI +   K       L VP+  
Sbjct: 518 ALKAGDLVVHDQHGIGRFVEMVERQVRGGDGSSRREYLVIEYAPGKRGAAGDRLYVPMES 577

Query: 64  AIDI 67
              +
Sbjct: 578 LGQL 581


>gi|254420843|ref|ZP_05034567.1| transcription-repair coupling factor [Brevundimonas sp. BAL3]
 gi|196187020|gb|EDX81996.1| transcription-repair coupling factor [Brevundimonas sp. BAL3]
          Length = 1156

 Score = 35.1 bits (80), Expect = 4.6,   Method: Composition-based stats.
 Identities = 25/121 (20%), Positives = 45/121 (37%), Gaps = 15/121 (12%)

Query: 9   AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           A      TG+ +V+  HG+G    +K  ++     +   +     +  L +PV     + 
Sbjct: 482 AEASALTTGDLVVHLDHGIGRYEGLKTLDIQQAPHDCLEL-VYAGESKLYLPVENIDLL- 539

Query: 69  MRKLSEAHFVERALKLVRGKARVKRTMWSRR---AQEYDAKINSGDLIAIAEVVRDLHRT 125
            R  S++   +  L  + G        W  R   A+E    +  G +   A+  R L  T
Sbjct: 540 TRYGSDSEGAQ--LDRLGG------AGWQARKSKAKERLRAMAEGLIALAAK--RALRET 589

Query: 126 D 126
           D
Sbjct: 590 D 590


>gi|311745141|ref|ZP_07718926.1| transcription-repair coupling factor [Algoriphagus sp. PR1]
 gi|126577659|gb|EAZ81879.1| transcription-repair coupling factor [Algoriphagus sp. PR1]
          Length = 1117

 Score = 35.1 bits (80), Expect = 4.7,   Method: Composition-based stats.
 Identities = 11/44 (25%), Positives = 22/44 (50%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
           +    G++IV+  +GVG    +++ +V G   E   + F  D +
Sbjct: 435 KALHPGDYIVHVDYGVGRFAGLEKVDVNGKLQEAVRLVFRDDDL 478


>gi|317181253|dbj|BAJ59039.1| transcription-repair coupling factor [Helicobacter pylori F32]
          Length = 999

 Score = 35.1 bits (80), Expect = 4.8,   Method: Composition-based stats.
 Identities = 35/165 (21%), Positives = 65/165 (39%), Gaps = 34/165 (20%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH 76
           GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV     I  R ++++ 
Sbjct: 364 GEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENLHLIA-RYVAQSD 421

Query: 77  FVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI-AEVVRDLHRTDSQPEKSYSE 135
            V                           ++  G  + + A+V   L    S+  +  +E
Sbjct: 422 SVP-----------------------IKDRLGKGSFLKLKAKVKTKLLEIASKIIELAAE 458

Query: 136 RQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
           R L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 459 RNLILGKKMDTHLAELEIFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|221198238|ref|ZP_03571284.1| transcription-repair coupling factor [Burkholderia multivorans
           CGD2M]
 gi|221209180|ref|ZP_03582172.1| transcription-repair coupling factor [Burkholderia multivorans
           CGD2]
 gi|221170918|gb|EEE03373.1| transcription-repair coupling factor [Burkholderia multivorans
           CGD2]
 gi|221182170|gb|EEE14571.1| transcription-repair coupling factor [Burkholderia multivorans
           CGD2M]
          Length = 1156

 Score = 35.1 bits (80), Expect = 4.8,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +   +  L VPV +
Sbjct: 482 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GESKLYVPVAQ 529


>gi|148548800|ref|YP_001268902.1| transcription-repair coupling factor [Pseudomonas putida F1]
 gi|148512858|gb|ABQ79718.1| transcription-repair coupling factor [Pseudomonas putida F1]
          Length = 1149

 Score = 35.1 bits (80), Expect = 4.8,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF  + + ++   L VPV     I
Sbjct: 480 REGAPVVHIDHGVGRYLGLATLEIDGQAAEFLTLEYAENA-KLYVPVANLHLI 531


>gi|313499733|gb|ADR61099.1| Mfd [Pseudomonas putida BIRD-1]
          Length = 1141

 Score = 35.1 bits (80), Expect = 4.8,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF  + + ++   L VPV     I
Sbjct: 472 REGAPVVHIDHGVGRYLGLATLEIDGQAAEFLTLEYAENA-KLYVPVANLHLI 523


>gi|262404233|ref|ZP_06080788.1| transcription-repair coupling factor [Vibrio sp. RC586]
 gi|262349265|gb|EEY98403.1| transcription-repair coupling factor [Vibrio sp. RC586]
          Length = 1155

 Score = 35.1 bits (80), Expect = 4.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMISEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|225464005|ref|XP_002264619.1| PREDICTED: hypothetical protein [Vitis vinifera]
          Length = 607

 Score = 35.1 bits (80), Expect = 4.9,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 38/84 (45%), Gaps = 18/84 (21%)

Query: 104 DAKINSGDLIAIA-EVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAV--------- 153
            A +  G   + A +VV++  +   Q + +  E QL E+ L ++++E+ +          
Sbjct: 12  QALLKPGPPESFALQVVQEAIKPQKQTKLAQDENQLLENILRKLLQELVSCAVQSGEKIM 71

Query: 154 ---NSISEPEAIN-----LIEVNL 169
               SI + EAI      L+++ L
Sbjct: 72  QYGQSIDDEEAIQSQIPRLLDIVL 95


>gi|19552188|ref|NP_600190.1| transcription-repair coupling factor [Corynebacterium glutamicum
           ATCC 13032]
          Length = 1214

 Score = 35.1 bits (80), Expect = 4.9,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 1   MTFQQKRDAMRQ------GFRTGEHIVYPAHGVGTITEIKEQEV-AGMK---LEFFVIAF 50
           +   ++R A R+          G+ +V+  HG+G   ++ E+ + AG +    E+ V+ +
Sbjct: 486 IAGAKRRPAKRRNKVDPLALEPGDLVVHETHGIGRFVKMTERTISAGDETSRREYIVLEY 545

Query: 51  DKDKM-----CLKVPVGKAI 65
              K       L VP+    
Sbjct: 546 APSKRGQPGDQLYVPMDALD 565


>gi|26988872|ref|NP_744297.1| transcription-repair coupling factor [Pseudomonas putida KT2440]
 gi|24983679|gb|AAN67761.1|AE016407_5 transcription-repair coupling factor [Pseudomonas putida KT2440]
          Length = 1149

 Score = 35.1 bits (80), Expect = 4.9,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF  + + ++   L VPV     I
Sbjct: 480 REGAPVVHIDHGVGRYLGLATLEIDGQAAEFLTLEYAENA-KLYVPVANLHLI 531


>gi|262171148|ref|ZP_06038826.1| transcription-repair coupling factor [Vibrio mimicus MB-451]
 gi|261892224|gb|EEY38210.1| transcription-repair coupling factor [Vibrio mimicus MB-451]
          Length = 1156

 Score = 35.1 bits (80), Expect = 4.9,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMISEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|62389854|ref|YP_225256.1| transcription-repair coupling factor [Corynebacterium glutamicum
           ATCC 13032]
 gi|41325189|emb|CAF19670.1| PUTATIVE TRANSCRIPTION-REPAIR COUPLING FACTOR [Corynebacterium
           glutamicum ATCC 13032]
          Length = 1217

 Score = 35.1 bits (80), Expect = 4.9,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 1   MTFQQKRDAMRQ------GFRTGEHIVYPAHGVGTITEIKEQEV-AGMK---LEFFVIAF 50
           +   ++R A R+          G+ +V+  HG+G   ++ E+ + AG +    E+ V+ +
Sbjct: 489 IAGAKRRPAKRRNKVDPLALEPGDLVVHETHGIGRFVKMTERTISAGDETSRREYIVLEY 548

Query: 51  DKDKM-----CLKVPVGKAI 65
              K       L VP+    
Sbjct: 549 APSKRGQPGDQLYVPMDALD 568


>gi|258621368|ref|ZP_05716402.1| transcription-repair coupling factor [Vibrio mimicus VM573]
 gi|258586756|gb|EEW11471.1| transcription-repair coupling factor [Vibrio mimicus VM573]
          Length = 1156

 Score = 35.1 bits (80), Expect = 5.0,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 483 KPGQPVVHIDHGIGRYLGLQTLEAGGMISEYVMLEY-QNEAKLYVPVSSLNLI 534


>gi|145295117|ref|YP_001137938.1| hypothetical protein cgR_1060 [Corynebacterium glutamicum R]
 gi|140845037|dbj|BAF54036.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 1214

 Score = 35.1 bits (80), Expect = 5.0,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 1   MTFQQKRDAMRQ------GFRTGEHIVYPAHGVGTITEIKEQEV-AGMK---LEFFVIAF 50
           +   ++R A R+          G+ +V+  HG+G   ++ E+ + AG +    E+ V+ +
Sbjct: 486 IAGAKRRPAKRRNKVDPLALEPGDLVVHETHGIGRFVKMTERTISAGDETSRREYIVLEY 545

Query: 51  DKDKM-----CLKVPVGKAI 65
              K       L VP+    
Sbjct: 546 APSKRGQPGDQLYVPMDALD 565


>gi|220932114|ref|YP_002509022.1| conserved hypothetical protein TIGR00046 [Halothermothrix orenii H
           168]
 gi|219993424|gb|ACL70027.1| conserved hypothetical protein TIGR00046 [Halothermothrix orenii H
           168]
          Length = 249

 Score = 35.1 bits (80), Expect = 5.0,   Method: Composition-based stats.
 Identities = 31/124 (25%), Positives = 50/124 (40%), Gaps = 23/124 (18%)

Query: 15  RTGEH-IVYPAHG-----VGTITEIKEQEVAGMKLEFFVIAFD-------------KDKM 55
             G+  IV P  G     V TI EIKE ++ G  ++ +    +             K KM
Sbjct: 33  NPGDKLIVCP--GNCRDYVATIEEIKENQITGKIIKEYKNRNEPSLNITLAQALPKKRKM 90

Query: 56  CLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI 115
            L +   KA +IG+R +         ++L + K R K   W + A+E   +   G +  +
Sbjct: 91  DLVI--QKATEIGVRSIIPLKTTRTIVRLNKKKERKKTDRWQKIAKEAAKQSGRGRIPTV 148

Query: 116 AEVV 119
             V 
Sbjct: 149 ERVY 152


>gi|311695148|gb|ADP98021.1| transcription-repair-coupling factor [marine bacterium HP15]
          Length = 1177

 Score = 35.1 bits (80), Expect = 5.0,   Method: Composition-based stats.
 Identities = 27/121 (22%), Positives = 43/121 (35%), Gaps = 13/121 (10%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           R G  +V+  HGVG    ++   V G   EF ++ +      L VPV          L  
Sbjct: 503 RIGAPVVHIDHGVGRYLGLETITVEGEASEFLMLGYA-GGSKLYVPVSSL------HLIS 555

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
            +           K    R  WS   Q+   KI        AE++    R +++   S+ 
Sbjct: 556 RYAGNDTEHAPLHKLGTDR--WSTAKQKALEKIR----DTAAELLDVYARREARKGFSFE 609

Query: 135 E 135
           +
Sbjct: 610 D 610


>gi|21323730|dbj|BAB98356.1| Transcription-repair coupling factor - superfamily II helicase
           [Corynebacterium glutamicum ATCC 13032]
          Length = 1209

 Score = 35.1 bits (80), Expect = 5.1,   Method: Composition-based stats.
 Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 1   MTFQQKRDAMRQ------GFRTGEHIVYPAHGVGTITEIKEQEV-AGMK---LEFFVIAF 50
           +   ++R A R+          G+ +V+  HG+G   ++ E+ + AG +    E+ V+ +
Sbjct: 481 IAGAKRRPAKRRNKVDPLALEPGDLVVHETHGIGRFVKMTERTISAGDETSRREYIVLEY 540

Query: 51  DKDKM-----CLKVPVGKAI 65
              K       L VP+    
Sbjct: 541 APSKRGQPGDQLYVPMDALD 560


>gi|168335026|ref|ZP_02693140.1| transcription-repair coupling factor [Epulopiscium sp. 'N.t.
           morphotype B']
          Length = 1175

 Score = 35.1 bits (80), Expect = 5.1,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 29/61 (47%), Gaps = 3/61 (4%)

Query: 2   TFQQKRDAMRQGF---RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLK 58
           T ++ + A  + F     G+++V+  HG+G    I++    G+  +   I ++   + + 
Sbjct: 491 TKKKYKGAKIESFMELAEGDYVVHENHGIGIFIGIEKIVTEGVARDNLKINYEGGTLYVN 550

Query: 59  V 59
           +
Sbjct: 551 I 551


>gi|241204639|ref|YP_002975735.1| transcription-repair coupling factor [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240858529|gb|ACS56196.1| transcription-repair coupling factor [Rhizobium leguminosarum bv.
           trifolii WSM1325]
          Length = 1166

 Score = 35.1 bits (80), Expect = 5.2,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    ++  E AG       + +  D+  L +PV    
Sbjct: 499 GLDEGSIVVHAEHGIGRFIGLRTIEAAGAPHACLELQYA-DEAKLFLPVENID 550


>gi|331696043|ref|YP_004332282.1| ATP-dependent chaperone ClpB [Pseudonocardia dioxanivorans CB1190]
 gi|326950732|gb|AEA24429.1| ATP-dependent chaperone ClpB [Pseudonocardia dioxanivorans CB1190]
          Length = 874

 Score = 35.1 bits (80), Expect = 5.2,   Method: Composition-based stats.
 Identities = 26/101 (25%), Positives = 44/101 (43%), Gaps = 19/101 (18%)

Query: 76  HFVERALKLVRGKARVKRTMWS------RRAQEYDAKI-----------NSGDLIAIAEV 118
             + R L  +RG+A   R  W+      +R QE  A++            + DL   AE+
Sbjct: 447 DQLRRELADLRGEADAMRAQWNAERQAIKRVQELRAQLEQVRHDIQDAERAYDLNRAAEL 506

Query: 119 VRDLHRTDSQPEKSYSERQLYES-ALNRMVREIAAVNSISE 158
            R   + D + +    ER+L E    +R++RE+     I+E
Sbjct: 507 -RFTRQADLERKLEAEERRLAEKQGEHRLLREVVTAEEIAE 546


>gi|116515116|ref|YP_802745.1| hypothetical protein BCc_180 [Buchnera aphidicola str. Cc (Cinara
          cedri)]
 gi|116256970|gb|ABJ90652.1| transcription-repair coupling factor [Buchnera aphidicola str. Cc
          (Cinara cedri)]
          Length = 683

 Score = 35.1 bits (80), Expect = 5.3,   Method: Composition-based stats.
 Identities = 12/59 (20%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 11 RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGM 69
          ++ F+  + +++  +G+G   ++   +  G   ++FVI    +K+ L VP+     I +
Sbjct: 8  KKTFQKNQLVIHTQYGIGRYIDLCTLKNKGKLTDYFVI-MYANKVKLYVPITSLNLINI 65


>gi|116252138|ref|YP_767976.1| transcription-repair coupling factor [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115256786|emb|CAK07876.1| putative transcription-repair coupling factor [Rhizobium
           leguminosarum bv. viciae 3841]
          Length = 1166

 Score = 35.1 bits (80), Expect = 5.3,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAI 65
           G   G  +V+  HG+G    ++  E AG       + +  D+  L +PV    
Sbjct: 499 GLDEGSIVVHAEHGIGRFIGLRTIEAAGAPHACLELQYA-DEAKLFLPVENID 550


>gi|94499512|ref|ZP_01306049.1| transcription-repair coupling factor [Oceanobacter sp. RED65]
 gi|94428266|gb|EAT13239.1| transcription-repair coupling factor [Oceanobacter sp. RED65]
          Length = 1143

 Score = 35.1 bits (80), Expect = 5.3,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 33/93 (35%), Gaps = 9/93 (9%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEA 75
            G  +V+  HGVG    ++  +  G   EF  + +      L VPV          +S  
Sbjct: 476 PGAAVVHIDHGVGRYRGLETLDAGGEINEFVTLEYA-GGAKLYVPVASLHL-----ISRY 529

Query: 76  HFVERALKLVRGKARVKRTMWSRRAQEYDAKIN 108
              +  +  +      K   WS + ++   KI 
Sbjct: 530 SGADTEIAPLHKLGTDK---WSAQRRKALEKIR 559


>gi|149177449|ref|ZP_01856053.1| transcription-repair coupling factor [Planctomyces maris DSM 8797]
 gi|148843782|gb|EDL58141.1| transcription-repair coupling factor [Planctomyces maris DSM 8797]
          Length = 1112

 Score = 34.7 bits (79), Expect = 5.3,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
             G+ +V+ +HG+     ++  E  G + E   + F +DK+ + VPV     +
Sbjct: 443 NVGDFVVHLSHGIARFRGLELLEKEGYREEHLSLEF-RDKVQMYVPVSLVHLV 494


>gi|114777171|ref|ZP_01452182.1| transcription-repair coupling factor [Mariprofundus ferrooxydans
           PV-1]
 gi|114552316|gb|EAU54799.1| transcription-repair coupling factor [Mariprofundus ferrooxydans
           PV-1]
          Length = 1109

 Score = 34.7 bits (79), Expect = 5.3,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HGVG    ++  +  G   +F  I +  DK  + VPV 
Sbjct: 446 KPGDPVVHEDHGVGRYHGLETIDEDGDLADFIKIEYA-DKAHVFVPVE 492


>gi|145629319|ref|ZP_01785118.1| transcription-repair coupling factor [Haemophilus influenzae
           22.1-21]
 gi|144978822|gb|EDJ88545.1| transcription-repair coupling factor [Haemophilus influenzae
           22.1-21]
          Length = 765

 Score = 34.7 bits (79), Expect = 5.4,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|325578622|ref|ZP_08148722.1| transcription-repair coupling factor [Haemophilus parainfluenzae
           ATCC 33392]
 gi|325159858|gb|EGC71988.1| transcription-repair coupling factor [Haemophilus parainfluenzae
           ATCC 33392]
          Length = 1149

 Score = 34.7 bits (79), Expect = 5.4,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ +I +  ++  L VPVG    I  R +  
Sbjct: 483 KIGQPVVHLDHGVGRYGGLVTLDTGGLKAEYLLINYA-NESKLYVPVGSLHLIS-RYVGG 540

Query: 75  AHF 77
           +  
Sbjct: 541 SDE 543


>gi|197124848|ref|YP_002136799.1| transcription-repair coupling factor [Anaeromyxobacter sp. K]
 gi|196174697|gb|ACG75670.1| transcription-repair coupling factor [Anaeromyxobacter sp. K]
          Length = 1241

 Score = 34.7 bits (79), Expect = 5.4,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +    G+ +V+  HG+     + + ++ G++ +F V+A+D     L +PV K   +
Sbjct: 513 RELNEGDLVVHVEHGIARYLGLTKMQIRGVEGDFLVLAYDGAD-RLYLPVAKLRQV 567


>gi|228470004|ref|ZP_04054920.1| transcription-repair coupling factor [Porphyromonas uenonis 60-3]
 gi|228308385|gb|EEK17223.1| transcription-repair coupling factor [Porphyromonas uenonis 60-3]
          Length = 1114

 Score = 34.7 bits (79), Expect = 5.5,   Method: Composition-based stats.
 Identities = 11/44 (25%), Positives = 18/44 (40%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
                G++IV+  HGVG    +   EV G   E   + +    +
Sbjct: 424 HAISPGDYIVHSDHGVGQFDGLLTTEVDGKPREVVKLVYQNKDV 467


>gi|307151183|ref|YP_003886567.1| TIR protein [Cyanothece sp. PCC 7822]
 gi|306981411|gb|ADN13292.1| TIR protein [Cyanothece sp. PCC 7822]
          Length = 275

 Score = 34.7 bits (79), Expect = 5.5,   Method: Composition-based stats.
 Identities = 16/97 (16%), Positives = 39/97 (40%), Gaps = 4/97 (4%)

Query: 83  KLVRGKARVKRTM-WSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYES 141
           K+ + + R+     W ++ +  + K+ SG ++ +  + + L +             + ++
Sbjct: 103 KIYKDEDRIDYLHYWDQKIKNLEDKLKSGSILDVTSIYKTLQQYADIKRNIDQLTDILKN 162

Query: 142 ALNRMVREIAAVNSISEPEAINLIEVNLSSKSSKTEK 178
            +N +  E+         + I  +E  L    S TEK
Sbjct: 163 -INALTPELH--RQSDFEQIIQAVETRLEKDKSNTEK 196


>gi|261838840|gb|ACX98606.1| transcription-repair coupling factor [Helicobacter pylori 51]
          Length = 999

 Score = 34.7 bits (79), Expect = 5.6,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVE 79
             I  R ++++  V 
Sbjct: 411 HLIA-RYVAQSDSVP 424


>gi|220919566|ref|YP_002494870.1| transcription-repair coupling factor [Anaeromyxobacter dehalogenans
           2CP-1]
 gi|219957420|gb|ACL67804.1| transcription-repair coupling factor [Anaeromyxobacter dehalogenans
           2CP-1]
          Length = 1233

 Score = 34.7 bits (79), Expect = 5.6,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +    G+ +V+  HG+     + + ++ G++ +F V+A+D     L +PV K   +
Sbjct: 505 RELNEGDLVVHVEHGIARYLGLTKMQIRGVEGDFLVLAYDGAD-RLYLPVAKLRQV 559


>gi|332299515|ref|YP_004441436.1| transcription-repair coupling factor [Porphyromonas asaccharolytica
           DSM 20707]
 gi|332176578|gb|AEE12268.1| transcription-repair coupling factor [Porphyromonas asaccharolytica
           DSM 20707]
          Length = 1115

 Score = 34.7 bits (79), Expect = 5.7,   Method: Composition-based stats.
 Identities = 11/44 (25%), Positives = 18/44 (40%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
                G++IV+  HGVG    +   EV G   E   + +    +
Sbjct: 424 HAISPGDYIVHSDHGVGQFDGLLTTEVDGKPREVVKLVYQNKDV 467


>gi|317182774|dbj|BAJ60558.1| transcription-repair coupling factor [Helicobacter pylori F57]
          Length = 999

 Score = 34.7 bits (79), Expect = 5.7,   Method: Composition-based stats.
 Identities = 37/177 (20%), Positives = 67/177 (37%), Gaps = 34/177 (19%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYWGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI-AEVVRDLH 123
             I  R ++++  V                           ++  G  + + A+V   L 
Sbjct: 411 HLIA-RYVAQSDSVP-----------------------IKDRLGKGSFLKLKAKVKTKLL 446

Query: 124 RTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
              S+  +  +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 447 EIASKIIELAAERNLILGKKMDTHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|325981304|ref|YP_004293706.1| transcription-repair coupling factor [Nitrosomonas sp. AL212]
 gi|325530823|gb|ADZ25544.1| transcription-repair coupling factor [Nitrosomonas sp. AL212]
          Length = 1154

 Score = 34.7 bits (79), Expect = 5.7,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 5/58 (8%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
           + G+ +V+  HG+G    +   +V     G   EF  + +D     L VPV +   IG
Sbjct: 482 KPGDPVVHEQHGIGRYLGLISMDVGEGEPGELSEFLSLEYDGGD-KLYVPVSQLYLIG 538


>gi|238026956|ref|YP_002911187.1| transcription-repair coupling factor [Burkholderia glumae BGR1]
 gi|237876150|gb|ACR28483.1| Transcription-repair coupling factor [Burkholderia glumae BGR1]
          Length = 1157

 Score = 34.7 bits (79), Expect = 5.7,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + +   +  L VPV +
Sbjct: 481 KVGDPVVHAQHGIGRYMGLVSMDLGEGETEFLHLEYA-GESKLYVPVSQ 528


>gi|87311618|ref|ZP_01093735.1| transcription-repair coupling factor [Blastopirellula marina DSM
           3645]
 gi|87285621|gb|EAQ77538.1| transcription-repair coupling factor [Blastopirellula marina DSM
           3645]
          Length = 1077

 Score = 34.7 bits (79), Expect = 5.7,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 1/51 (1%)

Query: 17  GEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           G+ +V+ AHG+G    +K+ E      E   I F      + VP  K   +
Sbjct: 423 GDLVVHLAHGIGRYRGLKKIEKQRQVEEHLEIEF-HGGTKVYVPASKVELV 472


>gi|313886626|ref|ZP_07820338.1| transcription-repair coupling factor [Porphyromonas asaccharolytica
           PR426713P-I]
 gi|312923922|gb|EFR34719.1| transcription-repair coupling factor [Porphyromonas asaccharolytica
           PR426713P-I]
          Length = 1115

 Score = 34.7 bits (79), Expect = 5.9,   Method: Composition-based stats.
 Identities = 11/44 (25%), Positives = 18/44 (40%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
                G++IV+  HGVG    +   EV G   E   + +    +
Sbjct: 424 HAISPGDYIVHSDHGVGQFDGLLTTEVDGKPREVVKLVYQNKDV 467


>gi|328952684|ref|YP_004370018.1| transcription-repair coupling factor [Desulfobacca acetoxidans DSM
           11109]
 gi|328453008|gb|AEB08837.1| transcription-repair coupling factor [Desulfobacca acetoxidans DSM
           11109]
          Length = 1168

 Score = 34.7 bits (79), Expect = 5.9,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ IV+  HGVG    + +  V     +F  + +      L +PV +   +
Sbjct: 487 KVGDPIVHLDHGVGLYRGLVKLAVGSEINDFLQLEYLGGD-RLYLPVDRLHLV 538


>gi|322712149|gb|EFZ03722.1| myosin class II heavy chain (MHC), putative [Metarhizium anisopliae
            ARSEF 23]
          Length = 2286

 Score = 34.7 bits (79), Expect = 5.9,   Method: Composition-based stats.
 Identities = 30/131 (22%), Positives = 56/131 (42%), Gaps = 15/131 (11%)

Query: 65   IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHR 124
               GMR ++E   +E  L  +R +    +   SR  +E++    SG     +EV R   R
Sbjct: 1788 ERSGMRAVNECKRLEGLLGELRTENHKLQQAASRYQREFEEARESG----ASEVKR--TR 1841

Query: 125  TDSQPEKSYSERQL------YESALNRMVREIAAVN-SISEPEAIN--LIEVNLSSKSSK 175
               Q E   +  Q+       E   +++  E+  V       +A N  L+E   S+K+++
Sbjct: 1842 MSLQTEIDAANNQVNVIREELEEQNSKLRTELDNVKLEADTAKAQNEMLLEEAQSTKAAE 1901

Query: 176  TEKSTSENQDK 186
             E +  + Q++
Sbjct: 1902 LEAAERKYQNE 1912


>gi|326790211|ref|YP_004308032.1| transcription-repair coupling factor [Clostridium lentocellum DSM
           5427]
 gi|326540975|gb|ADZ82834.1| transcription-repair coupling factor [Clostridium lentocellum DSM
           5427]
          Length = 1179

 Score = 34.7 bits (79), Expect = 6.1,   Method: Composition-based stats.
 Identities = 7/40 (17%), Positives = 21/40 (52%)

Query: 16  TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKM 55
            G+++V+  HG+G    +++  + G+  +   I +  + +
Sbjct: 513 PGDYVVHEQHGIGVFKGVEQLVIEGISRDNLKIEYADNNV 552


>gi|209809474|ref|YP_002265012.1| transcription-repair coupling factor [Aliivibrio salmonicida
           LFI1238]
 gi|208011036|emb|CAQ81450.1| transcription-repair coupling factor [Aliivibrio salmonicida
           LFI1238]
          Length = 1151

 Score = 34.7 bits (79), Expect = 6.1,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  +V  M  E+ ++ +  ++  L VPV     I
Sbjct: 482 KVGQPVVHLDHGIGRYMGLQTLDVGDMPAEYMMLEYL-NETKLYVPVSSLNLI 533


>gi|327481347|gb|AEA84657.1| transcription-repair coupling protein Mfd [Pseudomonas stutzeri DSM
           4166]
          Length = 1145

 Score = 34.7 bits (79), Expect = 6.3,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF ++ +  D+  L VPV     I
Sbjct: 474 REGAPVVHIDHGVGRYQGLVTLEIEGQAQEFLLLQYA-DEAKLYVPVASLHLI 525


>gi|146282996|ref|YP_001173149.1| transcription-repair coupling protein Mfd [Pseudomonas stutzeri
           A1501]
 gi|145571201|gb|ABP80307.1| transcription-repair coupling protein Mfd [Pseudomonas stutzeri
           A1501]
          Length = 1148

 Score = 34.7 bits (79), Expect = 6.4,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF ++ +  D+  L VPV     I
Sbjct: 477 REGAPVVHIDHGVGRYQGLVTLEIEGQAQEFLLLQYA-DEAKLYVPVASLHLI 528


>gi|319441663|ref|ZP_07990819.1| transcription-repair coupling factor [Corynebacterium variabile DSM
           44702]
          Length = 1231

 Score = 34.7 bits (79), Expect = 6.5,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 26/62 (41%), Gaps = 9/62 (14%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVA----GMKLEFFVIAFDKDKM-----CLKVPVGK 63
               G+ +V+  HG+G   ++ E+ +       + E+ V+ +   K       L VP+ +
Sbjct: 532 ALEPGDLVVHDQHGIGRFVKMTERTIGKGDDASRREYLVLEYAPSKRGGPGDQLYVPMDQ 591

Query: 64  AI 65
             
Sbjct: 592 LD 593


>gi|317011784|gb|ADU85531.1| transcription-repair coupling factor [Helicobacter pylori
           SouthAfrica7]
          Length = 999

 Score = 34.7 bits (79), Expect = 6.6,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYLGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVE 79
             I  R ++++  V 
Sbjct: 411 HLIA-RYVAQSDSVP 424


>gi|226365687|ref|YP_002783470.1| hypothetical protein ROP_62780 [Rhodococcus opacus B4]
 gi|226244177|dbj|BAH54525.1| hypothetical protein [Rhodococcus opacus B4]
          Length = 192

 Score = 34.7 bits (79), Expect = 6.6,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 41/94 (43%), Gaps = 8/94 (8%)

Query: 78  VERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIA---IAEVVRDLHRTDSQPEKSYS 134
           V+    + R   R  R+ WS+R +E+  K+    L+    +AEV R   R D + +++Y+
Sbjct: 67  VDEHFFVQRFTPRSSRSPWSKRNREFAEKLAEAGLLEPAGVAEVER--ARADGRWDRAYA 124

Query: 135 ERQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
            ++  E   + +    A   +         ++ +
Sbjct: 125 GQKAAEIPQDFLA---ALARNPEAEAFYATLDSH 155


>gi|126732332|ref|ZP_01748132.1| tetrapyrrole methylase family protein [Sagittula stellata E-37]
 gi|126707201|gb|EBA06267.1| tetrapyrrole methylase family protein [Sagittula stellata E-37]
          Length = 296

 Score = 34.7 bits (79), Expect = 6.6,   Method: Composition-based stats.
 Identities = 24/107 (22%), Positives = 36/107 (33%), Gaps = 40/107 (37%)

Query: 57  LKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIA 116
           + VP+G A DI +R          AL ++R    +                       +A
Sbjct: 20  VAVPIGNARDITLR----------ALDVLRDAEVL-----------------------VA 46

Query: 117 EVVRDLHRTDSQPEKSYSERQLY-------ESALNRMVREIAAVNSI 156
           E  R L         +  ERQL        E    R++ EIAA  ++
Sbjct: 47  EDTRSLRHLMDIHGIALGERQLLAYHDHSGERTRQRVLDEIAAGKAV 93


>gi|15895547|ref|NP_348896.1| Heme biosynthesis (nirJ-2) family protein [Clostridium
           acetobutylicum ATCC 824]
 gi|15025284|gb|AAK80236.1|AE007729_3 Heme biosynthesis (nirJ-2) family protein [Clostridium
           acetobutylicum ATCC 824]
 gi|325509695|gb|ADZ21331.1| Heme biosynthesis (nirJ-2) family protein [Clostridium
           acetobutylicum EA 2018]
          Length = 454

 Score = 34.7 bits (79), Expect = 6.6,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 12/75 (16%)

Query: 101 QEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISE-- 158
           Q Y   +NSG +  + E+V DL   D       S+++L +   N+   E      ISE  
Sbjct: 12  QRYIIDVNSGSIHEVDEMVYDLIDEDKIR----SKKKLLDRLKNKYKEE-----EISEAY 62

Query: 159 PEAINLIEV-NLSSK 172
            E   LI+   L SK
Sbjct: 63  DEIKELIDEGVLYSK 77


>gi|317178272|dbj|BAJ56061.1| transcription-repair coupling factor [Helicobacter pylori F16]
          Length = 999

 Score = 34.7 bits (79), Expect = 6.8,   Method: Composition-based stats.
 Identities = 37/177 (20%), Positives = 67/177 (37%), Gaps = 34/177 (19%)

Query: 5   QKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKA 64
           QK          GE +V+  +GVG  +++ +  V G K +F  IA+  +   L +PV   
Sbjct: 352 QKSKLALNELNAGEWVVHDDYGVGVFSQLVQHSVLGSKRDFLEIAYWGED-KLLLPVENL 410

Query: 65  IDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI-AEVVRDLH 123
             I  R ++++  V                           ++  G  + + A+V   L 
Sbjct: 411 HLIA-RYVAQSDSVP-----------------------IKDRLGKGSFLKLKAKVKTKLL 446

Query: 124 RTDSQPEKSYSERQL-YESALNRMVREIAAVNS-------ISEPEAINLIEVNLSSK 172
              S+  +  +ER L     ++  + E+    S         + +AI  I  +LSSK
Sbjct: 447 EIASKIIELAAERNLILGKKMDTHLAELEVFKSHAGFEYTSDQEKAIAEISKDLSSK 503


>gi|170720851|ref|YP_001748539.1| transcription-repair coupling factor [Pseudomonas putida W619]
 gi|169758854|gb|ACA72170.1| transcription-repair coupling factor [Pseudomonas putida W619]
          Length = 1149

 Score = 34.7 bits (79), Expect = 6.8,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF  + + +    L VPV     I
Sbjct: 480 REGAPVVHIDHGVGRYLGLATLEIDGQAAEFLTLEYAEGA-KLYVPVANLHLI 531


>gi|262165996|ref|ZP_06033733.1| transcription-repair coupling factor [Vibrio mimicus VM223]
 gi|262025712|gb|EEY44380.1| transcription-repair coupling factor [Vibrio mimicus VM223]
          Length = 981

 Score = 34.7 bits (79), Expect = 6.8,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 308 KPGQPVVHIDHGIGRYLGLQTLEAGGMISEYVMLEY-QNEAKLYVPVSSLNLI 359


>gi|68250212|ref|YP_249324.1| transcription-repair coupling factor [Haemophilus influenzae
           86-028NP]
 gi|68058411|gb|AAX88664.1| transcription-repair coupling factor [Haemophilus influenzae
           86-028NP]
          Length = 1146

 Score = 34.7 bits (79), Expect = 6.8,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|319896952|ref|YP_004135147.1| transcription-repair coupling factor [Haemophilus influenzae F3031]
 gi|317432456|emb|CBY80811.1| transcription-repair coupling factor [Haemophilus influenzae F3031]
          Length = 1146

 Score = 34.3 bits (78), Expect = 6.9,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|148825849|ref|YP_001290602.1| transcription-repair coupling factor [Haemophilus influenzae
           PittEE]
 gi|148716009|gb|ABQ98219.1| transcription-repair coupling factor [Haemophilus influenzae
           PittEE]
          Length = 1146

 Score = 34.3 bits (78), Expect = 6.9,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|145642248|ref|ZP_01797814.1| transcription-repair coupling factor [Haemophilus influenzae R3021]
 gi|145273053|gb|EDK12933.1| transcription-repair coupling factor [Haemophilus influenzae
           22.4-21]
          Length = 1160

 Score = 34.3 bits (78), Expect = 6.9,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 494 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 551

Query: 75  AHF 77
           +  
Sbjct: 552 SDE 554


>gi|115371924|ref|ZP_01459237.1| transcription-repair coupling factor [Stigmatella aurantiaca
           DW4/3-1]
 gi|115371159|gb|EAU70081.1| transcription-repair coupling factor [Stigmatella aurantiaca
           DW4/3-1]
          Length = 769

 Score = 34.3 bits (78), Expect = 6.9,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 46/107 (42%), Gaps = 9/107 (8%)

Query: 4   QQKRDAMRQGFR---TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP 60
            +K +A   GF+    G+ IV+   G+G    + + +V G+  +F V+ +      + +P
Sbjct: 87  SKKSEAFGAGFKDLKEGDLIVHTDFGIGRYAGLTKMQVNGVPGDFLVLEYAGRD-KIYLP 145

Query: 61  VGKAIDIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKI 107
           VG+     ++K +     +  L  +      K     RR +E   K+
Sbjct: 146 VGRMRL--IQKFTGGDPSQVQLDKLGTPGWEKT---KRRVKEQLLKM 187


>gi|260582935|ref|ZP_05850719.1| transcription-repair coupling factor [Haemophilus influenzae NT127]
 gi|260094035|gb|EEW77939.1| transcription-repair coupling factor [Haemophilus influenzae NT127]
          Length = 1146

 Score = 34.3 bits (78), Expect = 7.0,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|148827037|ref|YP_001291790.1| transcription-repair coupling factor [Haemophilus influenzae
           PittGG]
 gi|148718279|gb|ABQ99406.1| transcription-repair coupling factor [Haemophilus influenzae
           PittGG]
          Length = 1146

 Score = 34.3 bits (78), Expect = 7.0,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|16273176|ref|NP_439413.1| transcription-repair coupling factor [Haemophilus influenzae Rd
           KW20]
 gi|260581174|ref|ZP_05848994.1| transcription-repair coupling factor [Haemophilus influenzae RdAW]
 gi|1170943|sp|P45128|MFD_HAEIN RecName: Full=Transcription-repair-coupling factor; Short=TRCF;
           AltName: Full=ATP-dependent helicase mfd
 gi|1574188|gb|AAC22905.1| transcription-repair coupling factor (mfd) [Haemophilus influenzae
           Rd KW20]
 gi|260092202|gb|EEW76145.1| transcription-repair coupling factor [Haemophilus influenzae RdAW]
          Length = 1146

 Score = 34.3 bits (78), Expect = 7.0,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|145638829|ref|ZP_01794437.1| transcription-repair coupling factor [Haemophilus influenzae
           PittII]
 gi|145271801|gb|EDK11710.1| transcription-repair coupling factor [Haemophilus influenzae
           PittII]
 gi|309750812|gb|ADO80796.1| Transcription-repair coupling factor [Haemophilus influenzae R2866]
          Length = 1146

 Score = 34.3 bits (78), Expect = 7.0,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|104782724|ref|YP_609222.1| transcription-repair coupling protein [Pseudomonas entomophila L48]
 gi|95111711|emb|CAK16435.1| transcription-repair coupling protein [Pseudomonas entomophila L48]
          Length = 1149

 Score = 34.3 bits (78), Expect = 7.1,   Method: Composition-based stats.
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G  +V+  HGVG    +   E+ G   EF  + + +    L VPV     I
Sbjct: 480 REGAPVVHIDHGVGRYLGLATLEIDGQAAEFLTLEYAEGA-KLYVPVANLHLI 531


>gi|301169996|emb|CBW29600.1| transcription-repair coupling factor [Haemophilus influenzae 10810]
          Length = 1146

 Score = 34.3 bits (78), Expect = 7.2,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ +V+  HGVG    +   +  G+K E+ ++ +  ++  L VPV     I  R +  
Sbjct: 480 KIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYA-NESKLYVPVTSLHLIS-RYVGG 537

Query: 75  AHF 77
           +  
Sbjct: 538 SDE 540


>gi|257053363|ref|YP_003131196.1| 30S ribosomal protein S19P [Halorhabdus utahensis DSM 12940]
 gi|256692126|gb|ACV12463.1| ribosomal protein S19 [Halorhabdus utahensis DSM 12940]
          Length = 141

 Score = 34.3 bits (78), Expect = 7.2,   Method: Composition-based stats.
 Identities = 12/48 (25%), Positives = 21/48 (43%)

Query: 104 DAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIA 151
             ++    +  +AE++    R   +   SY +RQL E A +    E A
Sbjct: 21  LEELQDMSVEEVAELLPARMRRSIKRGLSYEKRQLLEEARDAGEEETA 68


>gi|86160747|ref|YP_467532.1| transcription-repair coupling factor [Anaeromyxobacter dehalogenans
           2CP-C]
 gi|85777258|gb|ABC84095.1| transcription-repair coupling factor [Anaeromyxobacter dehalogenans
           2CP-C]
          Length = 1241

 Score = 34.3 bits (78), Expect = 7.2,   Method: Composition-based stats.
 Identities = 13/56 (23%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 12  QGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           +    G+ +V+  HG+     + + ++ G++ +F V+A+D     L +PV K   +
Sbjct: 513 RELNEGDLVVHVEHGIAKYLGLTKMQIRGVEGDFLVLAYDGAD-RLYLPVAKLRQV 567


>gi|153820314|ref|ZP_01972981.1| transcription-repair coupling factor [Vibrio cholerae NCTC 8457]
 gi|126509143|gb|EAZ71737.1| transcription-repair coupling factor [Vibrio cholerae NCTC 8457]
          Length = 691

 Score = 34.3 bits (78), Expect = 7.3,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
          + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 19 KPGQPVVHIDHGIGRYLGLQTLEAGGMVSEYVMLEY-QNEAKLYVPVSSLNLI 70


>gi|308235054|ref|ZP_07665791.1| transcription-repair coupling factor [Gardnerella vaginalis ATCC
           14018]
 gi|311114598|ref|YP_003985819.1| transcription-repair coupling factor [Gardnerella vaginalis ATCC
           14019]
 gi|310946092|gb|ADP38796.1| transcription-repair coupling factor [Gardnerella vaginalis ATCC
           14019]
          Length = 1200

 Score = 34.3 bits (78), Expect = 7.4,   Method: Composition-based stats.
 Identities = 11/62 (17%), Positives = 26/62 (41%), Gaps = 9/62 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVA---GM-KLEFFVIAFDKDKM-----CLKVPVGKAI 65
           + G+ +V+  HG+G    ++++ +    G    E+  I +   K       L +P  +  
Sbjct: 525 KPGDFVVHDQHGIGKFIGMRQRNIKTSSGEATREYLEIEYAPSKRNAPADKLFIPTDQLD 584

Query: 66  DI 67
            +
Sbjct: 585 LV 586


>gi|256840409|ref|ZP_05545917.1| CRISPR-associated protein [Parabacteroides sp. D13]
 gi|256737681|gb|EEU51007.1| CRISPR-associated protein [Parabacteroides sp. D13]
          Length = 1424

 Score = 34.3 bits (78), Expect = 7.5,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 119 VRDLHRTDSQPEKSYSE-RQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           ++ L R   +   S SE R LY      + RE+A   ++ + + + L+  N
Sbjct: 445 IKVLGREKKRNALSASESRALYPEEKEILARELAIKENMKKADVLKLLFEN 495


>gi|298377533|ref|ZP_06987485.1| CRISPR-associated protein, Csn1 family [Bacteroides sp. 3_1_19]
 gi|298265552|gb|EFI07213.1| CRISPR-associated protein, Csn1 family [Bacteroides sp. 3_1_19]
          Length = 1424

 Score = 34.3 bits (78), Expect = 7.6,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 119 VRDLHRTDSQPEKSYSE-RQLYESALNRMVREIAAVNSISEPEAINLIEVN 168
           ++ L R   +   S SE R LY      + RE+A   ++ + + + L+  N
Sbjct: 445 IKVLGREKKRNALSASESRALYPEEKEILARELAIKENMKKADVLKLLFEN 495


>gi|225387033|ref|ZP_03756797.1| hypothetical protein CLOSTASPAR_00783 [Clostridium asparagiforme
           DSM 15981]
 gi|225046851|gb|EEG57097.1| hypothetical protein CLOSTASPAR_00783 [Clostridium asparagiforme
           DSM 15981]
          Length = 1221

 Score = 34.3 bits (78), Expect = 7.8,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 28/64 (43%), Gaps = 4/64 (6%)

Query: 7   RDAMRQGFR---TGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           +    Q F     G+++V+  HG+G    I++ E   +  ++  I +  D   L +P  +
Sbjct: 539 QGKAIQSFSELAVGDYVVHEEHGLGIYRGIEKVERDKITKDYIKIEY-GDGGNLYLPATR 597

Query: 64  AIDI 67
              I
Sbjct: 598 LESI 601


>gi|258625932|ref|ZP_05720803.1| transcription-repair coupling factor [Vibrio mimicus VM603]
 gi|258581797|gb|EEW06675.1| transcription-repair coupling factor [Vibrio mimicus VM603]
          Length = 872

 Score = 34.3 bits (78), Expect = 8.1,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           + G+ +V+  HG+G    ++  E  GM  E+ ++ + +++  L VPV     I
Sbjct: 199 KPGQPVVHIDHGIGRYLGLQTLEAGGMISEYVMLEY-QNEAKLYVPVSSLNLI 250


>gi|77917709|ref|YP_355524.1| transcription-repair coupling factor [Pelobacter carbinolicus DSM
           2380]
 gi|77543792|gb|ABA87354.1| transcription-repair coupling factor [Pelobacter carbinolicus DSM
           2380]
          Length = 1161

 Score = 34.3 bits (78), Expect = 8.6,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDI 67
           R G+ +V+  HG+G    ++  ++ G + +F  + +      L +PV +   I
Sbjct: 501 REGDLVVHADHGIGRYQGLQHLQLQGNEGDFLNLEYAGKD-RLYLPVERIEKI 552


>gi|291561352|emb|CBL40151.1| transcription-repair coupling factor [butyrate-producing bacterium
           SS3/4]
          Length = 1201

 Score = 34.3 bits (78), Expect = 8.8,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 31/65 (47%), Gaps = 1/65 (1%)

Query: 3   FQQKRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           ++ K+ +       G+++V+ +HG+G    I++ E   +  ++  + +  D   L +P  
Sbjct: 516 YEGKKISSFSELSVGDYVVHESHGLGIYKGIEKIEQDHVIKDYIKVEY-GDGGNLYLPAT 574

Query: 63  KAIDI 67
           +   I
Sbjct: 575 RLEGI 579


>gi|332534806|ref|ZP_08410631.1| transcription-repair coupling factor [Pseudoalteromonas
           haloplanktis ANT/505]
 gi|332035770|gb|EGI72256.1| transcription-repair coupling factor [Pseudoalteromonas
           haloplanktis ANT/505]
          Length = 1137

 Score = 34.3 bits (78), Expect = 8.8,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG 62
           + G+ +V+  HGVG    ++  + AG+  EF  I +   +  L VPV 
Sbjct: 467 KEGQPVVHLDHGVGRYQGLQTIDAAGVVTEFVTITYA-SEAKLYVPVS 513


>gi|206900533|ref|YP_002251220.1| transcription-repair coupling factor [Dictyoglomus thermophilum
           H-6-12]
 gi|206739636|gb|ACI18694.1| transcription-repair coupling factor [Dictyoglomus thermophilum
           H-6-12]
          Length = 1070

 Score = 34.3 bits (78), Expect = 8.8,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 53/120 (44%), Gaps = 17/120 (14%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+++V+  +G+G    +K+ ++  ++ EF  I +  +   L VP+ +   I  R +S 
Sbjct: 428 KDGDYVVHVNYGIGIFRGLKKLKIDDVEKEFIYIEYA-NNSFLYVPLEEMHLIQ-RYVSS 485

Query: 75  AHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYS 134
           +    +        +R++   W    +E   K+       IAE   +L +  +Q E +  
Sbjct: 486 SPEPPQI-------SRLESHQW----EETKRKVKE-SAKEIAE---ELLKVYAQRELTEG 530


>gi|315500152|ref|YP_004088955.1| glutamyl-tRNA(gln) amidotransferase, b subunit [Asticcacaulis
           excentricus CB 48]
 gi|315418164|gb|ADU14804.1| glutamyl-tRNA(Gln) amidotransferase, B subunit [Asticcacaulis
           excentricus CB 48]
          Length = 489

 Score = 34.3 bits (78), Expect = 9.0,   Method: Composition-based stats.
 Identities = 9/63 (14%), Positives = 26/63 (41%), Gaps = 1/63 (1%)

Query: 23  PAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERAL 82
           PA   G +  I+   ++    +       + K  +  P       G++++++   +E+A+
Sbjct: 380 PAQIAGLVELIETNVISSKIAKTVFEHMWEGKGTIT-PAEIVEKHGLKQVTDTGAIEKAI 438

Query: 83  KLV 85
             +
Sbjct: 439 DEI 441


>gi|22298714|ref|NP_681961.1| N-acetylmuramic acid-6-phosphate etherase [Thermosynechococcus
           elongatus BP-1]
 gi|81743216|sp|Q8DJQ1|MURQ_THEEB RecName: Full=N-acetylmuramic acid 6-phosphate etherase;
           Short=MurNAc-6-P etherase; AltName: Full=N-acetylmuramic
           acid 6-phosphate hydrolase; AltName:
           Full=N-acetylmuramic acid 6-phosphate lyase
 gi|22294895|dbj|BAC08723.1| tlr1171 [Thermosynechococcus elongatus BP-1]
          Length = 308

 Score = 34.3 bits (78), Expect = 9.0,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 37/93 (39%), Gaps = 18/93 (19%)

Query: 59  VPVGKAI---DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAI 115
           VPV +     DI +R L           L+ G  R+K    +   +     I++G ++ +
Sbjct: 174 VPVEQVQRSADIDIRLLVGPE-------LLAGSTRLKAGTAT---KMALNIISTGVMVQL 223

Query: 116 AEVVRDLHRTDSQPEKSYSERQLYESALNRMVR 148
            +V  +        + + S R+L + AL  +  
Sbjct: 224 GKVYGN-----RMVDVAVSNRKLLDRALRILTD 251


>gi|242007634|ref|XP_002424638.1| protein C20orf11, putative [Pediculus humanus corporis]
 gi|212508104|gb|EEB11900.1| protein C20orf11, putative [Pediculus humanus corporis]
          Length = 229

 Score = 34.0 bits (77), Expect = 9.1,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 33/84 (39%), Gaps = 7/84 (8%)

Query: 105 AKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINL 164
             I +G +     +V +LH     PE   S+R LY       + E+   N +   EA++ 
Sbjct: 72  DAIQNGAIQEATAMVNELH-----PELLDSDRYLYFHLQQLHLIELIRANKL--EEALHF 124

Query: 165 IEVNLSSKSSKTEKSTSENQDKAA 188
            +  LS        + +E +   A
Sbjct: 125 AQEQLSEAGESDPNALAELERTLA 148


>gi|329915573|ref|ZP_08276288.1| Transcription-repair coupling factor [Oxalobacteraceae bacterium
           IMCC9480]
 gi|327544874|gb|EGF30242.1| Transcription-repair coupling factor [Oxalobacteraceae bacterium
           IMCC9480]
          Length = 1120

 Score = 34.0 bits (77), Expect = 9.2,   Method: Composition-based stats.
 Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGK 63
           + G+ +V+  HG+G    +   ++   + EF  + + K+   L VPV +
Sbjct: 455 KIGDPVVHSNHGIGRYMGLVSMDLGEGETEFLYLDYAKEA-KLYVPVSQ 502


>gi|153000915|ref|YP_001366596.1| transcription-repair coupling factor [Shewanella baltica OS185]
 gi|151365533|gb|ABS08533.1| transcription-repair coupling factor [Shewanella baltica OS185]
          Length = 1162

 Score = 34.0 bits (77), Expect = 9.2,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I  R    
Sbjct: 489 KVGQPIVHLEHGVALYKGLVTLDTGGLVAEYLQLEYAGGD-KLYVPVSSLHLIS-RYSVG 546

Query: 75  AHF 77
           A  
Sbjct: 547 ADE 549


>gi|304408993|ref|ZP_07390614.1| transcription-repair coupling factor [Shewanella baltica OS183]
 gi|307302996|ref|ZP_07582751.1| transcription-repair coupling factor [Shewanella baltica BA175]
 gi|304352814|gb|EFM17211.1| transcription-repair coupling factor [Shewanella baltica OS183]
 gi|306913356|gb|EFN43778.1| transcription-repair coupling factor [Shewanella baltica BA175]
          Length = 1165

 Score = 34.0 bits (77), Expect = 9.3,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I  R    
Sbjct: 489 KVGQPIVHLEHGVALYKGLVTLDTGGLVAEYLQLEYAGGD-KLYVPVSSLHLIS-RYSVG 546

Query: 75  AHF 77
           A  
Sbjct: 547 ADE 549


>gi|160875623|ref|YP_001554939.1| transcription-repair coupling factor [Shewanella baltica OS195]
 gi|160861145|gb|ABX49679.1| transcription-repair coupling factor [Shewanella baltica OS195]
 gi|315267811|gb|ADT94664.1| transcription-repair coupling factor [Shewanella baltica OS678]
          Length = 1165

 Score = 34.0 bits (77), Expect = 9.3,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I  R    
Sbjct: 489 KVGQPIVHLEHGVALYKGLVTLDTGGLVAEYLQLEYAGGD-KLYVPVSSLHLIS-RYSVG 546

Query: 75  AHF 77
           A  
Sbjct: 547 ADE 549


>gi|126174619|ref|YP_001050768.1| transcription-repair coupling factor [Shewanella baltica OS155]
 gi|125997824|gb|ABN61899.1| transcription-repair coupling factor [Shewanella baltica OS155]
          Length = 1162

 Score = 34.0 bits (77), Expect = 9.3,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 15  RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSE 74
           + G+ IV+  HGV     +   +  G+  E+  + +      L VPV     I  R    
Sbjct: 489 KVGQPIVHLEHGVALYKGLVTLDTGGLVAEYLQLEYAGGD-KLYVPVSSLHLIS-RYSVG 546

Query: 75  AHF 77
           A  
Sbjct: 547 ADE 549


>gi|227499501|ref|ZP_03929608.1| ATP-dependent DNA helicase PcrA [Anaerococcus tetradius ATCC 35098]
 gi|227218380|gb|EEI83631.1| ATP-dependent DNA helicase PcrA [Anaerococcus tetradius ATCC 35098]
          Length = 731

 Score = 34.0 bits (77), Expect = 9.5,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 4/51 (7%)

Query: 6   KRDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMC 56
           K +A  + F+ G+ + +   GVG I +I +QE  G +L   V+AFD   + 
Sbjct: 673 KTEASDKDFKIGDKVKHSKWGVGMIVQINKQE-KGNEL---VVAFDNKGLK 719


>gi|297808261|ref|XP_002872014.1| EMB1211 [Arabidopsis lyrata subsp. lyrata]
 gi|297317851|gb|EFH48273.1| EMB1211 [Arabidopsis lyrata subsp. lyrata]
          Length = 867

 Score = 34.0 bits (77), Expect = 9.8,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 12/70 (17%)

Query: 122 LHRTDSQPEKSYSERQLYESALNRMVREIAAVN-SISEPEAINLIEVNLSSKSSKTEKS- 179
           L +   + +K+  ER+        +  E+  V   I   EAI  ++  L  K  + EK+ 
Sbjct: 591 LEKWTEEKKKANEERK------EMIQNELELVEAEICLEEAIEDMDEVLKQKEQEEEKNT 644

Query: 180 ----TSENQD 185
               T E++D
Sbjct: 645 EMGLTEEDED 654


  Database: nr
    Posted date:  May 22, 2011 12:22 AM
  Number of letters in database: 999,999,966
  Number of sequences in database:  2,987,313
  
  Database: /data/usr2/db/fasta/nr.01
    Posted date:  May 22, 2011 12:30 AM
  Number of letters in database: 999,999,796
  Number of sequences in database:  2,903,041
  
  Database: /data/usr2/db/fasta/nr.02
    Posted date:  May 22, 2011 12:36 AM
  Number of letters in database: 999,999,281
  Number of sequences in database:  2,904,016
  
  Database: /data/usr2/db/fasta/nr.03
    Posted date:  May 22, 2011 12:41 AM
  Number of letters in database: 999,999,960
  Number of sequences in database:  2,935,328
  
  Database: /data/usr2/db/fasta/nr.04
    Posted date:  May 22, 2011 12:46 AM
  Number of letters in database: 842,794,627
  Number of sequences in database:  2,394,679
  
Lambda     K      H
   0.309    0.167    0.497 

Lambda     K      H
   0.267   0.0514    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,745,509,557
Number of Sequences: 14124377
Number of extensions: 173913727
Number of successful extensions: 528970
Number of sequences better than 10.0: 2746
Number of HSP's better than 10.0 without gapping: 2346
Number of HSP's successfully gapped in prelim test: 1111
Number of HSP's that attempted gapping in prelim test: 525842
Number of HSP's gapped (non-prelim): 3699
length of query: 188
length of database: 4,842,793,630
effective HSP length: 131
effective length of query: 57
effective length of database: 2,992,500,243
effective search space: 170572513851
effective search space used: 170572513851
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (20.9 bits)
S2: 78 (34.3 bits)