HHsearch alignment for GI: 254780417 and conserved domain: COG1197

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription].
Probab=99.84  E-value=2.8e-20  Score=150.72  Aligned_cols=146  Identities=15%  Similarity=0.234  Sum_probs=108.6

Q ss_pred             HCCCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEECCCCCCEEEEECCCHHHCCCCCCCCCHHHHHHHHHCCCCCCCC
Q ss_conf             13899869748785099976789864873025302202488856998052012104543344102467898507866446
Q gi|254780417|r   13 GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVK   92 (188)
Q Consensus        13 ~FkvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~~~~~~~~l~vPv~~~~~~~~R~~~~~~e~~~l~~~l~~~~~~~   92 (188)
T Consensus       470 eL~~Gd~VVH~~HGIGrflgl~tl~~~g~~~dyL~l~Ya-~~dkLyVPVeql~lisrY~g~~~~~p--~L~kLG------  540 (1139)
T COG1197         470 ELKPGDYVVHIDHGIGRFLGLETLEVGGIERDYLELEYA-GEDKLYVPVEQLHLISRYVGASDEAP--KLHKLG------  540 (1139)
T ss_pred             HCCCCCEEEECCCCCEEEEEEEEEECCCCCCCEEEEEEC-CCCEEEEEHHHHHHHHHCCCCCCCCC--CCCCCC------
T ss_conf             378898477515771344204898618876314899976-99738977778567764468998877--542347------


Q ss_pred             CCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             65503899999998516899999999999984101000001268999999999997746774899899999999985046
Q gi|254780417|r   93 RTMWSRRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEVNLSSK  172 (188)
Q Consensus        93 ~~~~~~R~~~~~~~lksgd~~~~a~vik~L~~~~~~k~l~~~e~~~l~~A~~~L~~Efa~~l~i~~eea~~~I~~~L~~~  172 (188)
T Consensus       541 ~~~W~k~K----~K~~~~v~diA~eLi~lyA~R~~~~G~af~~d~~~---q~~F~~~FPyeET~DQl~AI~eVk~DM~~~  613 (1139)
T COG1197         541 GGAWKKAK----AKARKKVRDIAAELIKLYAKRQAKKGFAFPPDTEW---QEEFEASFPYEETPDQLKAIEEVKRDMESG  613 (1139)
T ss_pred             CHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHH---HHHHHHCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             47789999----99999999999999999998730568787998589---999985499857878999999999886069


Q ss_pred             CC
Q ss_conf             75
Q gi|254780417|r  173 SS  174 (188)
Q Consensus       173 ~~  174 (188)
T Consensus       614 kp  615 (1139)
T COG1197         614 KP  615 (1139)
T ss_pred             CC
T ss_conf             86