BLASTP 2.2.26 [Sep-21-2011]


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.

Query= 027294
         (225 letters)

Database: nr 
           23,463,169 sequences; 8,064,228,071 total letters

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



>gi|255576548|ref|XP_002529165.1| DNA-directed RNA polymerase II, putative [Ricinus communis]
 gi|223531389|gb|EEF33224.1| DNA-directed RNA polymerase II, putative [Ricinus communis]
          Length = 238

 Score =  267 bits (683), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 130/193 (67%), Positives = 160/193 (82%), Gaps = 6/193 (3%)

Query: 3   DGNGYDSSMEMEGGNGYNGEPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVAL 62
           +GNG D+S        +N E    C S + D+G+ ++ RYYLSRRTVLEML+DRGY+V  
Sbjct: 11  NGNGTDASER------FNMEGLGKCFSSYADDGTHETHRYYLSRRTVLEMLRDRGYSVPS 64

Query: 63  SEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIV 122
           SEI+LS+Q+FRAI+G +PD+DRL+ S +H SDPSKR+LV+F GPGI+KV+ IR+I  QIV
Sbjct: 65  SEIDLSLQEFRAIHGPNPDIDRLKFSATHTSDPSKRMLVLFGGPGIIKVSTIRAIAGQIV 124

Query: 123 NRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEK 182
           N+D+LTGLIL+LQNQIT+QA KAV LF+FKVEMFQITDLLVNITKHVLKPKHQVLTD+EK
Sbjct: 125 NKDSLTGLILVLQNQITNQAMKAVDLFKFKVEMFQITDLLVNITKHVLKPKHQVLTDREK 184

Query: 183 EKLLKKYSIEEKQ 195
           +KLLK Y IEEKQ
Sbjct: 185 QKLLKDYCIEEKQ 197


>gi|224139746|ref|XP_002323257.1| predicted protein [Populus trichocarpa]
 gi|222867887|gb|EEF05018.1| predicted protein [Populus trichocarpa]
          Length = 216

 Score =  256 bits (654), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 121/174 (69%), Positives = 150/174 (86%)

Query: 22  EPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD 81
           E    CLS FVD GS +S RYYLSRRTVLEMLKDRGY+V  SEI++S+QDFR +YGQ+PD
Sbjct: 2   ESLGRCLSSFVDEGSTESHRYYLSRRTVLEMLKDRGYSVPSSEIDISLQDFRGVYGQNPD 61

Query: 82  VDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           ++ L+ S +H+SDPSKR+LV+FCG G+VKV +IR I  QI +RD+LTGLIL+LQN IT+Q
Sbjct: 62  IELLKFSATHKSDPSKRMLVIFCGLGVVKVGMIRLITVQITDRDSLTGLILVLQNNITNQ 121

Query: 142 ATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A KA+ LF+FK+E+FQITDLLVNITKH+LKPKHQVL++Q K++LLKKYSIEEKQ
Sbjct: 122 AMKALDLFKFKIEIFQITDLLVNITKHILKPKHQVLSEQAKQRLLKKYSIEEKQ 175


>gi|297739911|emb|CBI30093.3| unnamed protein product [Vitis vinifera]
          Length = 330

 Score =  256 bits (653), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 124/190 (65%), Positives = 154/190 (81%), Gaps = 5/190 (2%)

Query: 11  MEMEGGNGYNGE-----PTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEI 65
           + M+GG  ++G+       + CLS FVD G  +S RYYL+RRT+LEML+DRGY++   +I
Sbjct: 100 VSMDGGGWFDGDLNGDFEVKRCLSSFVDEGRIESHRYYLARRTLLEMLRDRGYSIPALDI 159

Query: 66  NLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRD 125
           ++S+QDFR+ Y Q PD DRLRIS + +SDPSK+ILV+FCGP +VKVN IRSI +QIVN+D
Sbjct: 160 DISLQDFRSFYSQKPDPDRLRISAALRSDPSKKILVIFCGPDVVKVNAIRSIATQIVNKD 219

Query: 126 TLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKL 185
           +L+ LIL+LQN ITSQA KAV LF F+VE FQITDLLVNITKHVLKPKH+VLTDQEK KL
Sbjct: 220 SLSKLILVLQNHITSQALKAVDLFSFQVEKFQITDLLVNITKHVLKPKHRVLTDQEKNKL 279

Query: 186 LKKYSIEEKQ 195
           LKKYS+ EKQ
Sbjct: 280 LKKYSLNEKQ 289


>gi|351723899|ref|NP_001236527.1| uncharacterized protein LOC100306033 [Glycine max]
 gi|255627335|gb|ACU14012.1| unknown [Glycine max]
          Length = 237

 Score =  255 bits (652), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 124/172 (72%), Positives = 146/172 (84%)

Query: 24  TESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVD 83
            + CLS FVDNGS +S RYYLSRRT LEMLKDRGY++   EI+LS+ DFR I+GQ PD D
Sbjct: 25  AKGCLSKFVDNGSVESHRYYLSRRTTLEMLKDRGYSIPSHEIDLSLSDFRDIHGQFPDPD 84

Query: 84  RLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
           RLR+S++H ++ SKRILV+FCGPG+VKV  IR+   QI+NRDTLTGLILI++N ITSQA 
Sbjct: 85  RLRLSLTHATNSSKRILVIFCGPGVVKVTAIRNTAGQIINRDTLTGLILIVENHITSQAL 144

Query: 144 KAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           KAV LF FKVE+FQITDLLVNITKHVLKPKHQVLTD++K  LLKKY+IEEKQ
Sbjct: 145 KAVNLFSFKVEIFQITDLLVNITKHVLKPKHQVLTDKQKINLLKKYNIEEKQ 196


>gi|359482221|ref|XP_003632734.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Vitis vinifera]
          Length = 229

 Score =  254 bits (648), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 124/188 (65%), Positives = 153/188 (81%), Gaps = 5/188 (2%)

Query: 13  MEGGNGYNGE-----PTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINL 67
           M+GG  ++G+       + CLS FVD G  +S RYYL+RRT+LEML+DRGY++   +I++
Sbjct: 1   MDGGGWFDGDLNGDFEVKRCLSSFVDEGRIESHRYYLARRTLLEMLRDRGYSIPALDIDI 60

Query: 68  SVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTL 127
           S+QDFR+ Y Q PD DRLRIS + +SDPSK+ILV+FCGP +VKVN IRSI +QIVN+D+L
Sbjct: 61  SLQDFRSFYSQKPDPDRLRISAALRSDPSKKILVIFCGPDVVKVNAIRSIATQIVNKDSL 120

Query: 128 TGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
           + LIL+LQN ITSQA KAV LF F+VE FQITDLLVNITKHVLKPKH+VLTDQEK KLLK
Sbjct: 121 SKLILVLQNHITSQALKAVDLFSFQVEKFQITDLLVNITKHVLKPKHRVLTDQEKNKLLK 180

Query: 188 KYSIEEKQ 195
           KYS+ EKQ
Sbjct: 181 KYSLNEKQ 188


>gi|357509489|ref|XP_003625033.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|124359979|gb|ABN07995.1| RNA polymerase subunit, RPB5; RNA polymerase Rpb5, N-terminal
           [Medicago truncatula]
 gi|355500048|gb|AES81251.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 248

 Score =  251 bits (640), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 131/205 (63%), Positives = 157/205 (76%), Gaps = 12/205 (5%)

Query: 2   EDGNGYD-------SSMEMEGGNGYNGEPT----ESCLSGFVDNGSRDSLRYYLSRRTVL 50
           E+G G +       ++ME+E G+    +P       CL    DNGS +S RYYLSRRTVL
Sbjct: 4   ENGGGQNGTTETAITTMEIENGD-ITTQPQLQEQPQCLFTKKDNGSIESHRYYLSRRTVL 62

Query: 51  EMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVK 110
           EMLKDRGY++   EI LS+ DFR I+GQ PDVDRLR++ +H ++PSKRILVVF GPGIVK
Sbjct: 63  EMLKDRGYSIPSDEIQLSLDDFRQIHGQSPDVDRLRLTATHATNPSKRILVVFSGPGIVK 122

Query: 111 VNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVL 170
           VN +R I  QIVNR++LTGLILI+QNQITSQA KAV L  FKVE+FQITDLLVN TKHVL
Sbjct: 123 VNGVRDIAGQIVNRESLTGLILIVQNQITSQALKAVNLLSFKVEIFQITDLLVNATKHVL 182

Query: 171 KPKHQVLTDQEKEKLLKKYSIEEKQ 195
           KPKHQVLTD++K+ LLKKY I+EKQ
Sbjct: 183 KPKHQVLTDKQKKNLLKKYDIQEKQ 207


>gi|449437743|ref|XP_004136650.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
 gi|449524637|ref|XP_004169328.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
          Length = 227

 Score =  251 bits (640), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 120/183 (65%), Positives = 148/183 (80%), Gaps = 4/183 (2%)

Query: 17  NGYNGEPTE----SCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDF 72
           +G+  EP      +CLS ++D+G+ +S RY+LSRRTV+EMLKDRGY +    I+ S+Q F
Sbjct: 4   DGFEAEPNPVEFGTCLSSYIDDGTTESHRYFLSRRTVVEMLKDRGYTINSPNIDFSLQQF 63

Query: 73  RAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLIL 132
           R  +GQ PDVDRL++S +H SDPSKR+LVVFCG G VKVN IR+I  QI N+D+L GLIL
Sbjct: 64  RETFGQFPDVDRLKLSAAHHSDPSKRVLVVFCGTGAVKVNAIRNIAGQIANKDSLHGLIL 123

Query: 133 ILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
           I+QNQIT+QA KAV LF FKVE+FQITDLLVNITKH LKP HQVLT++EK+KLLK+YSIE
Sbjct: 124 IVQNQITNQAMKAVELFSFKVEIFQITDLLVNITKHALKPNHQVLTEEEKQKLLKQYSIE 183

Query: 193 EKQ 195
           EKQ
Sbjct: 184 EKQ 186


>gi|388510192|gb|AFK43162.1| unknown [Medicago truncatula]
          Length = 248

 Score =  248 bits (634), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 130/205 (63%), Positives = 156/205 (76%), Gaps = 12/205 (5%)

Query: 2   EDGNGYD-------SSMEMEGGNGYNGEPT----ESCLSGFVDNGSRDSLRYYLSRRTVL 50
           E+G G +       ++ME+E G+    +P       CL    DNGS +S RYYLSRRTVL
Sbjct: 4   ENGGGQNGTTETAITTMEIENGD-ITTQPQLQEQPQCLFTKKDNGSIESHRYYLSRRTVL 62

Query: 51  EMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVK 110
           EMLKDRGY++   EI LS+ DFR I+GQ PDVDRLR++ +H ++PSKRILVVF GPGIVK
Sbjct: 63  EMLKDRGYSIPSDEIQLSLDDFRQIHGQSPDVDRLRLTATHATNPSKRILVVFSGPGIVK 122

Query: 111 VNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVL 170
           VN +R I  QIVNR++LTGLILI+QNQITSQA KAV L  FKVE+ QITDLLVN TKHVL
Sbjct: 123 VNGVRDIAGQIVNRESLTGLILIVQNQITSQALKAVNLLSFKVEILQITDLLVNATKHVL 182

Query: 171 KPKHQVLTDQEKEKLLKKYSIEEKQ 195
           KPKHQVLTD++K+ LLKKY I+EKQ
Sbjct: 183 KPKHQVLTDKQKKNLLKKYDIQEKQ 207


>gi|297817026|ref|XP_002876396.1| eukaryotic rpb5 RNA polymerase subunit family protein [Arabidopsis
           lyrata subsp. lyrata]
 gi|297322234|gb|EFH52655.1| eukaryotic rpb5 RNA polymerase subunit family protein [Arabidopsis
           lyrata subsp. lyrata]
          Length = 222

 Score =  231 bits (589), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 109/169 (64%), Positives = 140/169 (82%)

Query: 27  CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR 86
           CLS +VD  S +S RYYL+R+  L+ML+DRGY V+  +INLS+ DFRA+YG+ PDVDRLR
Sbjct: 13  CLSKYVDPSSEESHRYYLARQNALQMLRDRGYQVSDEDINLSLHDFRAVYGERPDVDRLR 72

Query: 87  ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           IS  H+SD SK++ VVF G G+VKVN IRSI + +++++T+TGLIL+LQ+Q+T QA KA+
Sbjct: 73  ISAQHRSDSSKKVKVVFFGTGMVKVNAIRSIAADVLSQETVTGLILVLQSQVTKQAMKAI 132

Query: 147 GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            LF FKVE+FQITDLLVNITKH LKP+H+VL D+EK  LLKK+SIEEKQ
Sbjct: 133 ELFSFKVEIFQITDLLVNITKHALKPQHRVLNDKEKTTLLKKFSIEEKQ 181


>gi|15230206|ref|NP_191267.1| rpb5 RNA polymerase subunit family protein [Arabidopsis thaliana]
 gi|6911878|emb|CAB72178.1| putative protein [Arabidopsis thaliana]
 gi|26452919|dbj|BAC43537.1| unknown protein [Arabidopsis thaliana]
 gi|28973011|gb|AAO63830.1| unknown protein [Arabidopsis thaliana]
 gi|332646091|gb|AEE79612.1| rpb5 RNA polymerase subunit family protein [Arabidopsis thaliana]
          Length = 222

 Score =  228 bits (582), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 110/177 (62%), Positives = 143/177 (80%), Gaps = 2/177 (1%)

Query: 21  GEPTES--CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ 78
           G+ T S  CLS +VD  S +S RYYL+RR  L+ML+DRGY V+  +INLS+ DFR +YG+
Sbjct: 5   GKETASVLCLSKYVDLSSEESHRYYLARRNGLQMLRDRGYEVSDEDINLSLHDFRTVYGE 64

Query: 79  DPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQI 138
            PDVDRLRIS  H+SD +K++ +VF G  +VKVN IRS+++ I++++T+TGLIL+LQN +
Sbjct: 65  RPDVDRLRISALHRSDSTKKVKIVFFGTSMVKVNAIRSVVADILSQETITGLILVLQNHV 124

Query: 139 TSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           T+QA KA+ LF FKVE+FQITDLLVNITKH LKP+HQVL D+EK  LLKK+SIEEKQ
Sbjct: 125 TNQALKAIELFSFKVEIFQITDLLVNITKHSLKPQHQVLNDEEKTTLLKKFSIEEKQ 181


>gi|297824079|ref|XP_002879922.1| eukaryotic rpb5 RNA polymerase subunit family protein [Arabidopsis
           lyrata subsp. lyrata]
 gi|297325761|gb|EFH56181.1| eukaryotic rpb5 RNA polymerase subunit family protein [Arabidopsis
           lyrata subsp. lyrata]
          Length = 218

 Score =  226 bits (577), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 106/175 (60%), Positives = 141/175 (80%)

Query: 21  GEPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP 80
           G+  E  +   +D  S +  +YYL+RRT +EML+DRGY V+  ++N S++ FRA+YG+  
Sbjct: 3   GKGKEIAVVQSIDKPSVECHKYYLARRTTMEMLRDRGYDVSDEDVNFSLEQFRALYGERL 62

Query: 81  DVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITS 140
           DVDRLRIS  H+ D SK+I+VVFCG G+VKVN +R+I + ++NR+++TGLIL+LQ+ IT+
Sbjct: 63  DVDRLRISAKHRFDSSKKIMVVFCGTGMVKVNAMRAIAADVLNRESITGLILVLQSHITN 122

Query: 141 QATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           QA KAV LF FKVE+F+ITDLLVN+TKHVL+PKHQVL D+EKE LLKKYSIEEKQ
Sbjct: 123 QALKAVELFSFKVELFEITDLLVNVTKHVLRPKHQVLNDKEKESLLKKYSIEEKQ 177


>gi|21617912|gb|AAM66962.1| putative DNA-directed RNA polymerase 23kD subunit [Arabidopsis
           thaliana]
          Length = 222

 Score =  226 bits (577), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 109/177 (61%), Positives = 143/177 (80%), Gaps = 2/177 (1%)

Query: 21  GEPTES--CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ 78
           G+ T S  CLS +VD  S +S RYYL+RR  L++L+DRGY V+  +INLS+ DFR +YG+
Sbjct: 5   GKETASVLCLSKYVDLSSEESHRYYLARRNGLQILRDRGYEVSDEDINLSLHDFRTVYGE 64

Query: 79  DPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQI 138
            PDVDRLRIS  H+SD +K++ +VF G  +VKVN IRS+++ I++++T+TGLIL+LQN +
Sbjct: 65  RPDVDRLRISALHRSDSTKKVKIVFFGTSMVKVNAIRSVVADILSQETITGLILVLQNHV 124

Query: 139 TSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           T+QA KA+ LF FKVE+FQITDLLVNITKH LKP+HQVL D+EK  LLKK+SIEEKQ
Sbjct: 125 TNQALKAIELFSFKVEIFQITDLLVNITKHSLKPQHQVLNDEEKTTLLKKFSIEEKQ 181


>gi|15227327|ref|NP_181665.1| RNA polymerase II fifth largest subunit, D [Arabidopsis thaliana]
 gi|3894190|gb|AAC78539.1| putative DNA-directed RNA polymerase 23kD subunit [Arabidopsis
           thaliana]
 gi|19310385|gb|AAL84932.1| At2g41340/F13H10.11 [Arabidopsis thaliana]
 gi|330254867|gb|AEC09961.1| RNA polymerase II fifth largest subunit, D [Arabidopsis thaliana]
          Length = 218

 Score =  221 bits (564), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 106/175 (60%), Positives = 138/175 (78%)

Query: 21  GEPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP 80
           G+  E  +   +   S +  +YYL+RRT +EML+DRGY V+  +INLS+Q FRA+YG+ P
Sbjct: 3   GKGKEIVVGHSISKSSVECHKYYLARRTTMEMLRDRGYDVSDEDINLSLQQFRALYGEHP 62

Query: 81  DVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITS 140
           DVD LRIS  H+ D SK+I VVFCG GIVKVN +R I + +++R+ +TGLIL+LQ+ IT+
Sbjct: 63  DVDLLRISAKHRFDSSKKISVVFCGTGIVKVNAMRVIAADVLSRENITGLILVLQSHITN 122

Query: 141 QATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           QA KAV LF FKVE+F+ITDLLVN++KHVL+PKHQVL D+EKE LLKK+SIEEKQ
Sbjct: 123 QALKAVELFSFKVELFEITDLLVNVSKHVLRPKHQVLNDKEKESLLKKFSIEEKQ 177


>gi|8896071|gb|AAF81222.1| RPB5d [Brassica napus]
          Length = 223

 Score =  220 bits (561), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 106/170 (62%), Positives = 135/170 (79%)

Query: 26  SCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRL 85
           S LS  +D    DS  YYL+RRT +EML+DRGY ++  +INL++Q+FRA+YG  P+VDRL
Sbjct: 12  SGLSKSLDESRVDSHSYYLARRTTMEMLRDRGYDISNEDINLTLQEFRALYGDRPNVDRL 71

Query: 86  RISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKA 145
           RIS  H SD SK+I VVFCG GIVKV+ IR I + ++ R+ LTGLIL+LQ+ IT+QA KA
Sbjct: 72  RISAQHCSDSSKKIAVVFCGSGIVKVSAIRDIAADVLGRENLTGLILVLQSDITNQALKA 131

Query: 146 VGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           V LF FKVE+FQ+T+LLVNITKHVL+PKH VL +QEKE L KK+SI+E+Q
Sbjct: 132 VELFSFKVELFQLTELLVNITKHVLRPKHHVLNEQEKESLFKKFSIQEQQ 181


>gi|224053296|ref|XP_002297750.1| predicted protein [Populus trichocarpa]
 gi|222845008|gb|EEE82555.1| predicted protein [Populus trichocarpa]
          Length = 233

 Score =  191 bits (486), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 97/190 (51%), Positives = 139/190 (73%), Gaps = 3/190 (1%)

Query: 9   SSMEMEGGNG--YNGE-PTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEI 65
           ++ E   GNG  ++G    + CL+ FVD GS +S RYY+SRRTVLEMLKDRGY V  SE+
Sbjct: 3   ATTETFNGNGASFHGVLDRDRCLTDFVDEGSAESYRYYISRRTVLEMLKDRGYDVLDSEL 62

Query: 66  NLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRD 125
           N S+ +FR+++G  PD+D LR S+S +S P K+ LV+F G   +K   IR++  QI+N++
Sbjct: 63  NRSLTEFRSVFGNSPDLDSLRFSVSLRSIPHKKTLVMFLGTDEIKTANIRTVYGQILNKE 122

Query: 126 TLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKL 185
           +L GLILILQ+++   A K +  F FKVE+FQITDLLVNITKHVL+P+  +LT ++K+++
Sbjct: 123 SLHGLILILQSKMNHFAKKELEKFPFKVEVFQITDLLVNITKHVLQPQMDILTAEQKQQV 182

Query: 186 LKKYSIEEKQ 195
           + KY +E+KQ
Sbjct: 183 MNKYKLEDKQ 192


>gi|297742693|emb|CBI35146.3| unnamed protein product [Vitis vinifera]
          Length = 731

 Score =  184 bits (467), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 97/185 (52%), Positives = 128/185 (69%), Gaps = 5/185 (2%)

Query: 11  MEMEGGNGYNGEPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQ 70
           ME + G+  NG    SC++  ++ GS +S RYYLSRRT+ +ML DRGY V  SE+  S+ 
Sbjct: 511 MESQAGSHGNG----SCITADMEQGSIESYRYYLSRRTLFQMLSDRGYNVPHSELTRSLS 566

Query: 71  DFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGL 130
           DFRA +G +PD  RLRI +   S PSK+ILVVFCG   ++  VIR I  QI NR+ L  L
Sbjct: 567 DFRASFGHNPDPSRLRICLPLISSPSKKILVVFCGTDEIRKAVIRVIFQQI-NREGLHRL 625

Query: 131 ILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           IL+LQ+++ S A K V  +  KVE FQIT+LL+NITKHV  PKH++L+ QEK KL+ KY 
Sbjct: 626 ILVLQSKMNSHARKVVDEYPIKVEFFQITELLINITKHVSVPKHEILSAQEKRKLVNKYK 685

Query: 191 IEEKQ 195
           +E+KQ
Sbjct: 686 LEDKQ 690


>gi|359487223|ref|XP_002269723.2| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Vitis vinifera]
          Length = 221

 Score =  184 bits (466), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 97/185 (52%), Positives = 128/185 (69%), Gaps = 5/185 (2%)

Query: 11  MEMEGGNGYNGEPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQ 70
           ME + G+  NG    SC++  ++ GS +S RYYLSRRT+ +ML DRGY V  SE+  S+ 
Sbjct: 1   MESQAGSHGNG----SCITADMEQGSIESYRYYLSRRTLFQMLSDRGYNVPHSELTRSLS 56

Query: 71  DFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGL 130
           DFRA +G +PD  RLRI +   S PSK+ILVVFCG   ++  VIR I  QI NR+ L  L
Sbjct: 57  DFRASFGHNPDPSRLRICLPLISSPSKKILVVFCGTDEIRKAVIRVIFQQI-NREGLHRL 115

Query: 131 ILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           IL+LQ+++ S A K V  +  KVE FQIT+LL+NITKHV  PKH++L+ QEK KL+ KY 
Sbjct: 116 ILVLQSKMNSHARKVVDEYPIKVEFFQITELLINITKHVSVPKHEILSAQEKRKLVNKYK 175

Query: 191 IEEKQ 195
           +E+KQ
Sbjct: 176 LEDKQ 180


>gi|255544029|ref|XP_002513077.1| DNA-directed RNA polymerase II, putative [Ricinus communis]
 gi|223548088|gb|EEF49580.1| DNA-directed RNA polymerase II, putative [Ricinus communis]
          Length = 239

 Score =  181 bits (458), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 90/169 (53%), Positives = 127/169 (75%)

Query: 27  CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR 86
           CL+ FV+  S +S RYYLSR+TV+EML+DRGY VA SE+  S  +F + +G +PD+ +LR
Sbjct: 30  CLTKFVEQASLESQRYYLSRKTVMEMLRDRGYDVADSELTGSFTEFLSEFGDNPDILKLR 89

Query: 87  ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           IS S  S P K+++VVF G   +K+  IR ++ QI N+++L GLILILQ+++   A K +
Sbjct: 90  ISASLHSHPDKKMVVVFMGTEEIKLANIRGLLCQIKNKESLNGLILILQSKMNHYARKEL 149

Query: 147 GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           G F  KVE+F I+DLLVNITKHVLKP+H+VLT ++K++LL K+S E+KQ
Sbjct: 150 GQFPSKVEIFHISDLLVNITKHVLKPRHEVLTAEQKQQLLNKFSSEDKQ 198


>gi|108862173|gb|ABA96407.2| RNA polymerase Rpb5, N-terminal domain containing protein,
           expressed [Oryza sativa Japonica Group]
          Length = 335

 Score =  174 bits (440), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 83/170 (48%), Positives = 125/170 (73%), Gaps = 2/170 (1%)

Query: 27  CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR 86
           C++  +D GS +S R +L+RRT +EML+DRGY+V  +EI  ++ +FRA + + P ++RL 
Sbjct: 126 CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA 185

Query: 87  ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
            + +  SDPSK++ +VFC P  VK+  IR I  Q    + L+ L+LILQ++I S+A +A+
Sbjct: 186 FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQ-TKEENLSRLVLILQSKILSRAREAI 244

Query: 147 G-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +F+FKV++FQ TDLLVNITKHVLKPKH+VL+  +K KLLK+Y++E+ Q
Sbjct: 245 KEIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQ 294


>gi|125533361|gb|EAY79909.1| hypothetical protein OsI_35073 [Oryza sativa Indica Group]
          Length = 227

 Score =  171 bits (434), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 88/187 (47%), Positives = 131/187 (70%), Gaps = 3/187 (1%)

Query: 10  SMEMEGGNGYNGEPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSV 69
           + EME  +    E  E C++  +D GS +S R +L+RRT +EML+DRGY+V  +EI  + 
Sbjct: 2   AAEMEADDVDVHEVPE-CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTP 60

Query: 70  QDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTG 129
            +FRA + + P ++RL  + +  SDPSK++ +VFC P  VK+  IR I  Q    + L+ 
Sbjct: 61  PEFRAWWAEKPGIERLAFTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQ-TKEENLSR 119

Query: 130 LILILQNQITSQATKAVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           L+LILQ++I S+A +A+  +F+FKV++FQ TDLLVNITKHVLKPKH+VL+  +K KLLK+
Sbjct: 120 LVLILQSKILSRAREAIKEIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKE 179

Query: 189 YSIEEKQ 195
           Y++E+ Q
Sbjct: 180 YNVEDSQ 186


>gi|115487264|ref|NP_001066119.1| Os12g0139500 [Oryza sativa Japonica Group]
 gi|113648626|dbj|BAF29138.1| Os12g0139500 [Oryza sativa Japonica Group]
 gi|125535725|gb|EAY82213.1| hypothetical protein OsI_37416 [Oryza sativa Indica Group]
 gi|125578454|gb|EAZ19600.1| hypothetical protein OsJ_35178 [Oryza sativa Japonica Group]
 gi|346703760|emb|CBX24428.1| hypothetical_protein [Oryza glaberrima]
          Length = 227

 Score =  171 bits (434), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 83/170 (48%), Positives = 125/170 (73%), Gaps = 2/170 (1%)

Query: 27  CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR 86
           C++  +D GS +S R +L+RRT +EML+DRGY+V  +EI  ++ +FRA + + P ++RL 
Sbjct: 18  CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA 77

Query: 87  ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
            + +  SDPSK++ +VFC P  VK+  IR I  Q    + L+ L+LILQ++I S+A +A+
Sbjct: 78  FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQ-TKEENLSRLVLILQSKILSRAREAI 136

Query: 147 G-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +F+FKV++FQ TDLLVNITKHVLKPKH+VL+  +K KLLK+Y++E+ Q
Sbjct: 137 KEIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQ 186


>gi|115484123|ref|NP_001065723.1| Os11g0143400 [Oryza sativa Japonica Group]
 gi|77548620|gb|ABA91417.1| RNA polymerase Rpb5, N-terminal domain containing protein,
           expressed [Oryza sativa Japonica Group]
 gi|113644427|dbj|BAF27568.1| Os11g0143400 [Oryza sativa Japonica Group]
 gi|125576186|gb|EAZ17408.1| hypothetical protein OsJ_32930 [Oryza sativa Japonica Group]
          Length = 227

 Score =  171 bits (433), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 83/170 (48%), Positives = 125/170 (73%), Gaps = 2/170 (1%)

Query: 27  CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR 86
           C++  +D GS +S R +L+RRT +EML+DRGY+V  +EI  ++ +FRA + + P ++RL 
Sbjct: 18  CIASMIDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLA 77

Query: 87  ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
            + +  SDPSK++ +VFC P  VK+  IR I  Q    + L+ L+LILQ++I S+A +A+
Sbjct: 78  FTTTLVSDPSKKVQLVFCPPEPVKIATIREIYLQ-TKEENLSRLVLILQSKILSRAREAI 136

Query: 147 G-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +F+FKV++FQ TDLLVNITKHVLKPKH+VL+  +K KLLK+Y++E+ Q
Sbjct: 137 KEIFKFKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQ 186


>gi|357153158|ref|XP_003576358.1| PREDICTED: uncharacterized protein LOC100836489 [Brachypodium
           distachyon]
          Length = 468

 Score =  167 bits (423), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 78/170 (45%), Positives = 124/170 (72%), Gaps = 2/170 (1%)

Query: 27  CLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR 86
           C+S  +D+G  +S R +L+RRT LEML+DR YAV  +++  ++ +FRA + + P++DRL 
Sbjct: 259 CVSSMIDSGDPESHRLFLARRTALEMLRDRRYAVPEADLARTLPEFRAWWAERPEIDRLS 318

Query: 87  ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
            S +  SDPS ++ +VFC P   K+  IR +  ++ + + L+ LIL+LQ++ITS+A  A+
Sbjct: 319 FSTTLASDPSNKVQLVFCPPEPFKIAAIREVYGRVKD-ENLSCLILVLQSKITSRAKDAI 377

Query: 147 G-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +F++KV++FQI +LLVN+TKHVLKP+H+VLT +EK  LLKKY++ + Q
Sbjct: 378 KEIFKYKVDVFQIAELLVNVTKHVLKPEHEVLTPEEKAHLLKKYNVVDSQ 427


>gi|297816744|ref|XP_002876255.1| eukaryotic rpb5 RNA polymerase subunit family protein [Arabidopsis
           lyrata subsp. lyrata]
 gi|297322093|gb|EFH52514.1| eukaryotic rpb5 RNA polymerase subunit family protein [Arabidopsis
           lyrata subsp. lyrata]
          Length = 223

 Score =  167 bits (422), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 85/187 (45%), Positives = 125/187 (66%), Gaps = 4/187 (2%)

Query: 14  EGGNGYNGEPT----ESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSV 69
           E G   NGE T      C+S   D G  DS R+YL+R T  EML+DRGY V  +E++L++
Sbjct: 3   EEGCCENGESTFKNGSHCISKTEDTGGIDSKRFYLARTTAFEMLRDRGYEVNEAELSLTL 62

Query: 70  QDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTG 129
            +FR+++G+ PD++RLRI +  +SDP K+ILVVF G   + V  +R+I SQI N   +  
Sbjct: 63  SEFRSVFGEKPDLERLRICVPLRSDPKKKILVVFMGTEPITVKSVRAIHSQISNNVGVNA 122

Query: 130 LILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           +ILILQ+++   A K +  F F VE   I DLLVNI KH+ +PK ++L  +EKE+LL+K+
Sbjct: 123 MILILQSKMNHFAHKELTTFPFTVETIPIGDLLVNIAKHIQQPKIEILNKEEKEQLLRKH 182

Query: 190 SIEEKQQ 196
           ++E+KQ+
Sbjct: 183 ALEDKQE 189


>gi|346703190|emb|CBX25289.1| hypothetical_protein [Oryza brachyantha]
          Length = 288

 Score =  166 bits (421), Expect = 5e-39,   Method: Compositional matrix adjust.
 Identities = 87/188 (46%), Positives = 132/188 (70%), Gaps = 5/188 (2%)

Query: 10  SMEMEGGNGYNGEPTESCLSGFVD-NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLS 68
           + EME  +     P   C++  VD +GS +S R +L+RRT LEML+DRGY+V   EI  +
Sbjct: 63  AAEMEIDDDLPEVP--DCIASMVDRSGSVESKRLFLARRTALEMLRDRGYSVPEEEIART 120

Query: 69  VQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLT 128
           + +FRA +G+  +++RL  + +  SDPSK++ +VFC P  VK+  IR I  Q    + L+
Sbjct: 121 LPEFRAWWGEKSEIERLAFTTTLVSDPSKKVQIVFCPPEPVKIATIREIYRQ-TEGENLS 179

Query: 129 GLILILQNQITSQATKAVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            LILILQ++I S+A +++  +F+ KV++FQ+T+LLVNITKHVLKPKH+VL+  +K KLLK
Sbjct: 180 RLILILQSRILSRARESIKEIFKLKVDIFQVTELLVNITKHVLKPKHEVLSAAQKAKLLK 239

Query: 188 KYSIEEKQ 195
           +Y++E+ Q
Sbjct: 240 QYNVEDSQ 247


>gi|346703375|emb|CBX25472.1| hypothetical_protein [Oryza glaberrima]
          Length = 206

 Score =  166 bits (419), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 82/165 (49%), Positives = 122/165 (73%), Gaps = 2/165 (1%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D GS +S R +L+RRT +EML+DRGY+V  +EI  ++ +FRA + + P ++RL  + + 
Sbjct: 2   IDRGSVESHRLFLARRTAMEMLRDRGYSVPEAEIARTLPEFRAWWAEKPGIERLAFTTTL 61

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG-LFQ 150
            SDPSK++ +VFC P  VK+  IR I  Q    + L+ L+LILQ++I S+A +A+  +F+
Sbjct: 62  VSDPSKKVQLVFCPPEPVKIATIREIYLQ-TKEENLSRLVLILQSKILSRAREAIKEIFK 120

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           FKV++FQ TDLLVNITKHVLKPKH+VL+  +K KLLK+Y++E+ Q
Sbjct: 121 FKVDIFQATDLLVNITKHVLKPKHEVLSADQKAKLLKEYNVEDSQ 165


>gi|326520990|dbj|BAJ92858.1| predicted protein [Hordeum vulgare subsp. vulgare]
 gi|326531658|dbj|BAJ97833.1| predicted protein [Hordeum vulgare subsp. vulgare]
          Length = 251

 Score =  166 bits (419), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 84/180 (46%), Positives = 126/180 (70%), Gaps = 5/180 (2%)

Query: 20  NGEPTESCLSGFVDNGSR---DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY 76
           N      C+S  VD G     +S R +L+RRT LEML+DRGY+V   E+  ++ +FRA +
Sbjct: 32  NAPEVAGCISSMVDLGGAAGVESQRLFLARRTALEMLRDRGYSVPEDELARTLPEFRAWW 91

Query: 77  GQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN 136
            + P+++RL  S +  SDPS ++ +VFC P  VK+  IR +  +I   + L+ LILILQ+
Sbjct: 92  SETPEIERLSFSTTLASDPSSKVRIVFCPPEPVKIAAIREVHLRI-KEENLSCLILILQS 150

Query: 137 QITSQATKAVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +IT++A +++  +F+FKV++FQIT+LLVNITKHVLKP H+VLT +EK KLLK+Y++ + Q
Sbjct: 151 KITARARESIKEIFKFKVDVFQITELLVNITKHVLKPNHEVLTAEEKAKLLKEYNVVDSQ 210


>gi|242069947|ref|XP_002450250.1| hypothetical protein SORBIDRAFT_05g002600 [Sorghum bicolor]
 gi|241936093|gb|EES09238.1| hypothetical protein SORBIDRAFT_05g002600 [Sorghum bicolor]
          Length = 263

 Score =  165 bits (418), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 86/172 (50%), Positives = 122/172 (70%), Gaps = 3/172 (1%)

Query: 26  SCLSGFVD-NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR 84
           +C+S  +D  GS +S R +L+RRT LEML+DRGYAV   E+  ++ +FRA +   P+++R
Sbjct: 52  ACISAMLDLGGSVESKRLFLARRTALEMLRDRGYAVPEDELARTLPEFRAWWEDKPELER 111

Query: 85  LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           L  S +  SDPS ++ VVFC P  VK+  IR + +  V  + L+ LILILQ +I S+A +
Sbjct: 112 LAFSTTLASDPSSKVKVVFCPPEPVKIAAIRVVYTG-VKDENLSRLILILQGRIMSKARE 170

Query: 145 AVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A+  +F +KV+ FQIT+LLVNITKH LKPKHQVLT +EK KLLK+Y++ + Q
Sbjct: 171 AIKEIFPYKVDTFQITELLVNITKHALKPKHQVLTAEEKAKLLKEYNVVDSQ 222


>gi|195635599|gb|ACG37268.1| DNA-directed RNA polymerase II 23 kDa polypeptide [Zea mays]
          Length = 264

 Score =  164 bits (416), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 86/172 (50%), Positives = 123/172 (71%), Gaps = 3/172 (1%)

Query: 26  SCLSGFVDNG-SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR 84
           +C+S  +D G S +S R +L+RRT LEML+DRGYAV   E+  ++ +FRA +   P+++R
Sbjct: 53  ACISTMLDRGGSVESHRLFLARRTALEMLRDRGYAVPEEELARTLPEFRAWWEYRPELER 112

Query: 85  LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           L  S +  SDPS ++ VVFC PG VK+  IR I ++ V  + L+ LILILQ +I S   +
Sbjct: 113 LAFSTTLASDPSSKVKVVFCPPGPVKIAAIRLIYTE-VKDENLSRLILILQGKIMSTTRE 171

Query: 145 AVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++  +F+FKV+ FQIT+LLVNITKHVLKPKH+VLT + K KLLK+Y++ + Q
Sbjct: 172 SIKEIFRFKVDTFQITELLVNITKHVLKPKHEVLTAEGKAKLLKEYNVVDSQ 223


>gi|414588639|tpg|DAA39210.1| TPA: DNA-directed RNA polymerase II polypeptide [Zea mays]
          Length = 263

 Score =  164 bits (415), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 86/172 (50%), Positives = 123/172 (71%), Gaps = 3/172 (1%)

Query: 26  SCLSGFVDNG-SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR 84
           +C+S  +D G S +S R +L+RRT LEML+DRGYAV   E+  ++ +FRA +   P+++R
Sbjct: 52  ACISTMLDRGGSVESHRLFLARRTALEMLRDRGYAVPEEELARTLPEFRAWWEYRPELER 111

Query: 85  LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           L  S +  SDPS ++ VVFC PG VK+  IR I ++ V  + L+ LILILQ +I S   +
Sbjct: 112 LAFSTTLTSDPSSKVKVVFCPPGPVKIAAIRLIYTE-VKDENLSRLILILQGKIMSTTRE 170

Query: 145 AVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++  +F+FKV+ FQIT+LLVNITKHVLKPKH+VLT + K KLLK+Y++ + Q
Sbjct: 171 SIKEIFRFKVDTFQITELLVNITKHVLKPKHEVLTAEGKAKLLKEYNVVDSQ 222


>gi|15232524|ref|NP_191013.1| RNA polymerase II fifth largest subunit, E [Arabidopsis thaliana]
 gi|7258352|emb|CAB77569.1| RNA polymerase 24kDa subunit-like protein [Arabidopsis thaliana]
 gi|332645717|gb|AEE79238.1| RNA polymerase II fifth largest subunit, E [Arabidopsis thaliana]
          Length = 233

 Score =  164 bits (414), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 78/170 (45%), Positives = 121/170 (71%)

Query: 26  SCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRL 85
           +C+S   D G  +S R+YL+R T  EML+DRGY V  +E++L++ +FR+++G+ P+++RL
Sbjct: 23  NCISKTEDTGGIESKRFYLARTTAFEMLRDRGYEVNEAELSLTLSEFRSVFGEKPELERL 82

Query: 86  RISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKA 145
           RI +  +SDP K+ILVVF G   + V  +R++  QI N   L  +IL+LQ+++   A KA
Sbjct: 83  RICVPLRSDPKKKILVVFMGTEPITVKSVRALHIQISNNVGLHAMILVLQSKMNHFAQKA 142

Query: 146 VGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +  F F VE F I DLLVNITKH+ +PK ++L  +EKE+LL+K+++E+KQ
Sbjct: 143 LTTFPFTVETFPIEDLLVNITKHIQQPKIEILNKEEKEQLLRKHALEDKQ 192


>gi|226491902|ref|NP_001141853.1| uncharacterized protein LOC100273995 [Zea mays]
 gi|194706176|gb|ACF87172.1| unknown [Zea mays]
          Length = 248

 Score =  163 bits (413), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 86/172 (50%), Positives = 123/172 (71%), Gaps = 3/172 (1%)

Query: 26  SCLSGFVDNG-SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR 84
           +C+S  +D G S +S R +L+RRT LEML+DRGYAV   E+  ++ +FRA +   P+++R
Sbjct: 37  ACISTMLDRGGSVESHRLFLARRTALEMLRDRGYAVPEEELARTLPEFRAWWEYRPELER 96

Query: 85  LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           L  S +  SDPS ++ VVFC PG VK+  IR I ++ V  + L+ LILILQ +I S   +
Sbjct: 97  LAFSTTLTSDPSSKVKVVFCPPGPVKIAAIRLIYTE-VKDENLSRLILILQGKIMSTTRE 155

Query: 145 AVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++  +F+FKV+ FQIT+LLVNITKHVLKPKH+VLT + K KLLK+Y++ + Q
Sbjct: 156 SIKEIFRFKVDTFQITELLVNITKHVLKPKHEVLTAEGKAKLLKEYNVVDSQ 207


>gi|356541565|ref|XP_003539245.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Glycine max]
          Length = 214

 Score =  159 bits (401), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 81/171 (47%), Positives = 122/171 (71%), Gaps = 2/171 (1%)

Query: 27  CLSGFV-DNGSRDSLRYYLSRRTVLEMLKDRGY-AVALSEINLSVQDFRAIYGQDPDVDR 84
           C++    DNGS +SLRY+LSRRT+LEML+DRGY  V  + ++ S+ +FR+ +GQ+P+   
Sbjct: 3   CIAKMTKDNGSMESLRYFLSRRTLLEMLQDRGYDVVQHANLSPSLAEFRSRFGQNPNPQT 62

Query: 85  LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           L   +SH S+PS  + VVF G   ++   +  I +QI ++  L GLIL++Q+++TS A K
Sbjct: 63  LAFCVSHLSNPSNTVQVVFAGTDDIRKGTVNEICTQIADKGRLKGLILVVQSKMTSFAKK 122

Query: 145 AVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +    FKVE+ +I DLLVNITKHVL+PK+++LTD EK+ LL K++++EKQ
Sbjct: 123 DLESLPFKVEIIRIDDLLVNITKHVLQPKYEILTDDEKKALLTKHNLDEKQ 173


>gi|346703279|emb|CBX25377.1| hypothetical_protein [Oryza brachyantha]
          Length = 226

 Score =  157 bits (396), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 86/188 (45%), Positives = 130/188 (69%), Gaps = 7/188 (3%)

Query: 10  SMEMEGGNGYNGEPTESCLSGFVD-NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLS 68
           + EME  +     P   C++  VD +GS +S R +L+RRT LEML+DRGY+V   EI  +
Sbjct: 3   AAEMEIDDDLPEVP--DCIASMVDRSGSVESKRLFLARRTALEMLRDRGYSVPDEEIART 60

Query: 69  VQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLT 128
           + +FRA +G+  +++RL  + +  SDPSK++ +VFC P  VK+  IR I  Q    + L+
Sbjct: 61  LPEFRAWWGEKSEIERLAFTTTLVSDPSKKVQIVFCPPEPVKIATIREIYRQ-TEGENLS 119

Query: 129 GLILILQNQITSQATKAVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            LILILQ++I S+A +++  +F+ KV++FQ  +LLVNITKHVLKPKH+VL+  +K KLLK
Sbjct: 120 RLILILQSRILSRARESIKEIFKLKVDIFQ--ELLVNITKHVLKPKHEVLSAAQKAKLLK 177

Query: 188 KYSIEEKQ 195
           +Y++E+ Q
Sbjct: 178 QYNVEDSQ 185


>gi|357155279|ref|XP_003577067.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Brachypodium distachyon]
          Length = 270

 Score =  154 bits (389), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 80/172 (46%), Positives = 116/172 (67%), Gaps = 5/172 (2%)

Query: 28  LSGFVDNGSRDSLR---YYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR 84
           ++  VD G R S      +L+RRT LEML+DRGY+V   E+  ++ +FRA + + P++ R
Sbjct: 59  MASMVDRGGRASHEVHSLFLARRTALEMLRDRGYSVPEPELARTLTEFRAWWAEKPEMRR 118

Query: 85  LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           L  S +  SD S ++  VFC P  V +  IR + SQI   + L+ LILILQ  ITS+A  
Sbjct: 119 LSFSATFASDHSNKVQFVFCPPKPVNITTIREVYSQI-EEENLSRLILILQGDITSKARD 177

Query: 145 AVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +  +F FKV++FQ+T+LLVNI+KH LKPKH+VLT +EK +LLKKY++E+ +
Sbjct: 178 CIKEIFPFKVDIFQVTELLVNISKHELKPKHEVLTAEEKAELLKKYNLEDSR 229


>gi|87162511|gb|ABD28306.1| RNA polymerase subunit, RPB5; RNA polymerase Rpb5, N-terminal
           [Medicago truncatula]
          Length = 224

 Score =  148 bits (374), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 80/178 (44%), Positives = 125/178 (70%), Gaps = 2/178 (1%)

Query: 20  NGEPTES-CLSGFVDNGSR-DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG 77
           NG  T S CL    +  S  +++RY+  R+T+++ML DRGY V+ S++ LS+ +FR+ +G
Sbjct: 6   NGNETRSECLVRICNEESNIETIRYFECRKTLMDMLHDRGYNVSESDLTLSLSEFRSRFG 65

Query: 78  QDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQ 137
           + P    L +S+S +S+PS ++ VVF G   ++ + +  I SQIV+++ L+ LIL++Q++
Sbjct: 66  EFPKPHTLGVSVSLRSNPSIKVQVVFPGTDDIRKSNLIVIQSQIVDKERLSRLILVMQSK 125

Query: 138 ITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +TS A K +    FKVE+ Q+ DLLVN+TKHVL+PK++VLT  EK+KLL KY +EEKQ
Sbjct: 126 MTSYARKELENCPFKVEIIQLNDLLVNVTKHVLQPKYEVLTANEKQKLLNKYKVEEKQ 183


>gi|388498148|gb|AFK37140.1| unknown [Lotus japonicus]
          Length = 150

 Score =  147 bits (372), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 69/95 (72%), Positives = 85/95 (89%)

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITD 160
           V+FCGPG+VKV  IR+I  QIVN+DTL+G++LI++N IT QA KA+ LF FKVE+FQITD
Sbjct: 40  VIFCGPGVVKVTSIRNIAGQIVNKDTLSGVLLIVENNITGQALKAINLFSFKVEIFQITD 99

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LLVNITKHVLKPKHQVLTD++K+ LLKK++IEEKQ
Sbjct: 100 LLVNITKHVLKPKHQVLTDRQKKNLLKKFNIEEKQ 134


>gi|195606570|gb|ACG25115.1| DNA-directed RNA polymerase II 23 kDa polypeptide [Zea mays]
          Length = 154

 Score =  143 bits (360), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 76/150 (50%), Positives = 103/150 (68%), Gaps = 2/150 (1%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS 93
            GS +S R +L+RRT LEML DRGYAV   E+  ++ +FRA     P+++RL    +  S
Sbjct: 5   GGSVESHRLFLARRTALEMLXDRGYAVPEEELARTLPEFRAWXEYXPELERLAFXTTLTS 64

Query: 94  DPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG-LFQFK 152
           DPS ++ VVFC PG VK+  IR I ++ V  + L  LILILQ +I S   +++  +F+FK
Sbjct: 65  DPSSKVKVVFCPPGPVKIAAIRLIYTE-VKDENLARLILILQGKIMSPTRESIKEIFRFK 123

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEK 182
           V+ FQIT+LLVNITKHVLKPKH+VLT + K
Sbjct: 124 VDTFQITELLVNITKHVLKPKHEVLTAEGK 153


>gi|359481904|ref|XP_003632689.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerases I, II,
           and III subunit RPABC1-like [Vitis vinifera]
          Length = 207

 Score =  140 bits (352), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 75/132 (56%), Positives = 94/132 (71%), Gaps = 8/132 (6%)

Query: 28  LSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRI 87
           LS FVD GS +S RYYL+RRT+LEML+DRGY++   +I+        IY Q   V  L +
Sbjct: 41  LSSFVDEGSIESHRYYLARRTLLEMLRDRGYSIPALDID--------IYLQFXSVFHLFV 92

Query: 88  SISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG 147
           S S  S     ILV+FCGP +VKVN IRSI +QIVN+D+L+ LIL+LQN ITSQA KAV 
Sbjct: 93  SSSDYSLFXLHILVIFCGPDVVKVNAIRSIATQIVNKDSLSKLILVLQNHITSQALKAVD 152

Query: 148 LFQFKVEMFQIT 159
           LF F+VEMFQ++
Sbjct: 153 LFSFQVEMFQVS 164


>gi|356506928|ref|XP_003522225.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Glycine max]
          Length = 183

 Score =  114 bits (285), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 62/145 (42%), Positives = 98/145 (67%), Gaps = 4/145 (2%)

Query: 52  MLKDRGY-AVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVK 110
           ML+DRGY A+  + I+ S+ +F + + Q+P+   L   + H S+    + VVF GP  ++
Sbjct: 1   MLQDRGYDAIQHANISPSLTEFCSRFSQNPNPQTLDFCVPHLSN---TVQVVFVGPKEIR 57

Query: 111 VNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVL 170
              +  I SQI ++ +L  LIL++++++TS A K +  F FKVE  +I DLLVNITKHVL
Sbjct: 58  KGTVNEICSQIADKGSLKWLILVVKSKMTSFAKKDLENFPFKVETIKIDDLLVNITKHVL 117

Query: 171 KPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +PK+++LTD EK+ LL K++++EKQ
Sbjct: 118 QPKYEILTDDEKQALLTKHNLDEKQ 142


>gi|357497659|ref|XP_003619118.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|355494133|gb|AES75336.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 205

 Score =  107 bits (268), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 59/156 (37%), Positives = 98/156 (62%), Gaps = 2/156 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           + Y  RRTV +ML+DR Y V  SE+N+S Q+ +A +G++ +   L I  +++ DPS +I 
Sbjct: 10  KLYRIRRTVFQMLRDRNYRVLDSEVNMSKQELKAKFGENMNRKDLTIQTTNKDDPSDKIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKVEMFQIT 159
           V F     + V+ I++I   I+        I+++QN++ S+A   + LF + ++E F   
Sbjct: 70  VFFRDDAKLGVSTIKTIKDLILTEGVYRA-IIVVQNELKSKARSELNLFSEVRIEAFLED 128

Query: 160 DLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +LLVN+ +HVL P+HQVLT+ EK+ LL  Y+++E Q
Sbjct: 129 ELLVNVIEHVLVPEHQVLTNAEKKDLLSTYTVKETQ 164


>gi|401882166|gb|EJT46437.1| DNA-directed RNA polymerases ii 24 kda polypeptide [Trichosporon
           asahii var. asahii CBS 2479]
 gi|406701349|gb|EKD04497.1| DNA-directed RNA polymerases ii 24 kda polypeptide [Trichosporon
           asahii var. asahii CBS 8904]
          Length = 195

 Score =  104 bits (260), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 60/162 (37%), Positives = 89/162 (54%), Gaps = 5/162 (3%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISI--SH 91
           +  R+  R +   +TV EM++DRGY VA  EIN+S  DF+  YG    VDR R++   +H
Sbjct: 4   DSDRELARLWRVSKTVHEMIRDRGYEVADYEINMSFDDFKETYGGGGSVDRGRMAFHANH 63

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ- 150
             D   RI V FC    V     +S ++ +       GLI +   ++TS A K     Q 
Sbjct: 64  SRDSRDRIYVFFCAEEAVSKATYKSFVTSLDAVGAKRGLI-VHGGKLTSGAAKTQNEMQS 122

Query: 151 -FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
            + +E F+  DLLVNIT+H L PKH ++  +EK  L+K+Y++
Sbjct: 123 EYHLEDFKEADLLVNITRHFLVPKHTIMEPEEKSALIKRYAM 164


>gi|147776024|emb|CAN60800.1| hypothetical protein VITISV_022856 [Vitis vinifera]
          Length = 162

 Score =  104 bits (260), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 57/108 (52%), Positives = 74/108 (68%), Gaps = 1/108 (0%)

Query: 88  SISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG 147
           S SH+      ILVVFCG   ++  VIR I  QI NR+ L  LIL+LQ+++ S A K V 
Sbjct: 15  SWSHEITKLHMILVVFCGTDEIRKAVIRVIFQQI-NREGLHRLILVLQSKMNSHARKVVD 73

Query: 148 LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +  KVE FQIT+LL+NITKHV  PKH++L+ QEK KL+ KY +E+KQ
Sbjct: 74  EYPIKVEFFQITELLINITKHVSVPKHEILSAQEKRKLVNKYKLEDKQ 121


>gi|357480733|ref|XP_003610652.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|355511987|gb|AES93610.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 410

 Score =  103 bits (257), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 61/176 (34%), Positives = 101/176 (57%), Gaps = 11/176 (6%)

Query: 30  GFVDNGSRDSL--------RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD 81
            F D  ++ ++        R Y  R+TV++MLKDR Y V   E+N+S  DF+  YG++  
Sbjct: 195 AFCDTTTKKTMVFSEEEITRLYRIRKTVMQMLKDRNYLVGDFELNMSKHDFKDKYGENMK 254

Query: 82  VDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
            + L I+ + +  PS +I V F     V V  +++  +++ N + +   IL+ Q  +T  
Sbjct: 255 REDLVINKTKKDKPSDQIYVFFPEEAKVGVKTMKTYTNRM-NSENVYRAILVCQTSLTPF 313

Query: 142 ATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A   V     +F +E+FQ  +LLVNI +HVL P+HQ+L D EK+ LL++Y+++E Q
Sbjct: 314 AKTCVSEIASKFHLEVFQEAELLVNIKEHVLVPEHQILNDTEKKTLLERYTVKETQ 369


>gi|302795809|ref|XP_002979667.1| hypothetical protein SELMODRAFT_228648 [Selaginella moellendorffii]
 gi|302807361|ref|XP_002985375.1| hypothetical protein SELMODRAFT_181697 [Selaginella moellendorffii]
 gi|300146838|gb|EFJ13505.1| hypothetical protein SELMODRAFT_181697 [Selaginella moellendorffii]
 gi|300152427|gb|EFJ19069.1| hypothetical protein SELMODRAFT_228648 [Selaginella moellendorffii]
          Length = 206

 Score =  102 bits (254), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 57/157 (36%), Positives = 98/157 (62%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  RRT+++ML+DR Y VA  E++L+ + FR  +G +P  D L IS + +SD S +I 
Sbjct: 10  RLYRIRRTIMQMLRDRDYLVADYEVSLTKEQFRDKFGDEPKRDDLVISKAKRSDQSDQIF 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V V  I++   ++   + +   I+++Q  +T  A + +     ++++E+FQ 
Sbjct: 70  VFFPEEPKVGVKTIKTYAERM-KSELVFRAIMVVQTSLTPFAKQCLSEMAPKYQIEVFQE 128

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI +H L P+HQVL+ +EK+ LL++Y+++E Q
Sbjct: 129 AELLVNIKEHTLVPEHQVLSAEEKKTLLERYTVKESQ 165


>gi|388506474|gb|AFK41303.1| unknown [Medicago truncatula]
          Length = 206

 Score =  102 bits (254), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 59/157 (37%), Positives = 95/157 (60%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  R+TV++MLKDR Y V   E+N+S  DF+  YG++   + L I+ + +  PS +I 
Sbjct: 10  RLYRIRKTVMQMLKDRNYLVGDFELNMSKHDFKDKYGENMKREDLVINKTKKDKPSDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V V  +++  +++ N + +   IL+ Q  +T  A   V     +F +E+FQ 
Sbjct: 70  VFFPEEAKVGVKTMKTYTNRM-NSENVYRAILVCQTSLTPFAKTCVSEIASKFHLEVFQE 128

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI +HVL P+HQ+L D EK+ LL++Y+++E Q
Sbjct: 129 AELLVNIKEHVLVPEHQILNDTEKKTLLERYTVKETQ 165


>gi|168011548|ref|XP_001758465.1| predicted protein [Physcomitrella patens subsp. patens]
 gi|162690500|gb|EDQ76867.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 208

 Score =  102 bits (253), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/159 (37%), Positives = 95/159 (59%), Gaps = 3/159 (1%)

Query: 39  SLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKR 98
           S R Y  R+TV+EML+DR Y VA  E+ LS + FR  YG +P  + L I    +S+ ++ 
Sbjct: 10  SARLYRIRKTVMEMLRDRDYVVADYELTLSKEQFREKYGDEPKREDLVIQKPRRSNNAEH 69

Query: 99  ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMF 156
           I V F     V V  I++ + ++   + +   IL++Q  +T  A + V     ++ +E+F
Sbjct: 70  IFVFFPEEAKVGVKTIKTYVDRM-KTENVHRAILVVQQNLTPFARQCVSEMASKYHLEVF 128

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           Q  +LLVNI +HVL P H+VLT  EK+ LL++Y+++E Q
Sbjct: 129 QEAELLVNIKEHVLVPLHEVLTPDEKKTLLERYTVKETQ 167


>gi|357482711|ref|XP_003611642.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|355512977|gb|AES94600.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 331

 Score =  101 bits (252), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/155 (35%), Positives = 97/155 (62%), Gaps = 3/155 (1%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVV 102
           Y  R+TV+EML+DR Y V   E+N+S ++F+  YG+  + + L I+ + + +PS +I V 
Sbjct: 137 YRIRKTVMEMLRDRNYLVGDFEVNMSKEEFKEKYGEHMNREDLVINKAKKDNPSDQIYVF 196

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITD 160
           F     V V+  R+   ++ N + +   I++ Q  +T+ A  ++  F  +F +E+FQ  +
Sbjct: 197 FPEDEKVGVHTFRTYTKRM-NSENVYRAIIVCQTSLTNMAWNSISQFDSKFHLEVFQEAE 255

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LLVN+  H L P+HQ+LTD EK+ +L++Y+++E Q
Sbjct: 256 LLVNVRYHKLVPEHQLLTDNEKKTVLERYTVKETQ 290



 Score = 55.5 bits (132), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 64/117 (54%), Gaps = 2/117 (1%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVV 102
           Y  R+ V+EML+DR Y V   E+ +S Q+F+  YG++   + L I  + + +PS +I V 
Sbjct: 12  YRIRKKVMEMLRDRNYLVGDFEVCMSKQEFKETYGENLKREDLVIKKAKKDNPSDQIYVF 71

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKVEMFQI 158
           F     V V+ +R+  +++ + D +   I++ Q  +T  A     +  +F +E+F +
Sbjct: 72  FPENDKVDVHTLRTYTNRM-SSDNVYRAIVVCQTSLTKAARDFSEIASKFHLEVFHV 127


>gi|357482707|ref|XP_003611640.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|355512975|gb|AES94598.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 229

 Score =  101 bits (251), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 56/155 (36%), Positives = 96/155 (61%), Gaps = 2/155 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           + Y  R+TV+EML+DR Y V   E+N+S ++F+  YG+  + + L I+ + + +PS +I 
Sbjct: 10  KLYRIRKTVMEMLRDRNYLVGDFEVNMSKEEFKEKYGEHMNREDLVINKAKKDNPSDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITD 160
           V F     V V+  R+   ++ N + +   I++ Q  +T+ A   +   +F +E+FQ  +
Sbjct: 70  VFFPEDEKVGVHTFRTCTKRM-NSENVYRAIIVCQTSLTNMALSEIDS-KFHLEVFQEAE 127

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LLVN+  H L P+HQVLTD EK+ LL++Y+++E Q
Sbjct: 128 LLVNVRYHELVPEHQVLTDNEKKTLLERYTVKETQ 162


>gi|393242192|gb|EJD49711.1| DNA-directed RNA polymerase I [Auricularia delicata TFB-10046 SS5]
          Length = 209

 Score =  100 bits (250), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 95/160 (59%), Gaps = 5/160 (3%)

Query: 40  LRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISI--SHQSDPSK 97
           +R +   RT+ EM++DRGY V+  E N+S++ FRA +  +  V+R  ++    H  DP+ 
Sbjct: 10  VRLWKVSRTIHEMVRDRGYQVSEEETNMSLEQFRAQHTTNGTVNRTTLTFFTHHAKDPND 69

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLFQ-FKVEM 155
           ++ V FC    V +  +R  +  +  +    G+I +    +T  A K + G+ Q +K+E 
Sbjct: 70  QLFVFFCEDKNVSIKTMRKFLDVLQQKGIQRGII-VFSGTMTPSARKVITGMSQDYKLEE 128

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F   DL+VNIT+H+L PKH+V+T + K+ LL++Y ++E Q
Sbjct: 129 FAEADLIVNITQHILVPKHEVMTTEAKKALLERYRLKETQ 168


>gi|360043810|emb|CCD81356.1| putative dna-directed RNA polymerase II [Schistosoma mansoni]
          Length = 205

 Score =  100 bits (249), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 91/152 (59%), Gaps = 2/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+T+L+M KDRGY V   E+  S++DF+A  G  P    L + ++H+ DP+  + V F  
Sbjct: 13  RKTILKMCKDRGYLVMPKELEQSLEDFKATVGDPPTRKDLLMVVNHEEDPADMLYVFFPE 72

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V +  +R+ ++Q+    T   ++++ +  +T  A  A+     ++ +E F   +L+V
Sbjct: 73  EEKVNMKTVRAYLNQMQQDSTYRAILVLQEKGLTPSAKTAIAELSCKYTLECFFENELMV 132

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NIT+H L P+H VLT +EK++LL++Y ++E Q
Sbjct: 133 NITEHQLVPQHNVLTQEEKKELLERYRLKENQ 164


>gi|256071874|ref|XP_002572263.1| DNA-directed RNA polymerase II [Schistosoma mansoni]
          Length = 208

 Score =  100 bits (249), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 91/152 (59%), Gaps = 2/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+T+L+M KDRGY V   E+  S++DF+A  G  P    L + ++H+ DP+  + V F  
Sbjct: 16  RKTILKMCKDRGYLVMPKELEQSLEDFKATVGDPPTRKDLLMVVNHEEDPADMLYVFFPE 75

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V +  +R+ ++Q+    T   ++++ +  +T  A  A+     ++ +E F   +L+V
Sbjct: 76  EEKVNMKTVRAYLNQMQQDSTYRAILVLQEKGLTPSAKTAIAELSCKYTLECFFENELMV 135

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NIT+H L P+H VLT +EK++LL++Y ++E Q
Sbjct: 136 NITEHQLVPQHNVLTQEEKKELLERYRLKENQ 167


>gi|56755813|gb|AAW26085.1| SJCHGC05306 protein [Schistosoma japonicum]
 gi|226469816|emb|CAX70189.1| polymerase (RNA) II (DNA directed) polypeptide E [Schistosoma
           japonicum]
 gi|226469818|emb|CAX70190.1| polymerase (RNA) II (DNA directed) polypeptide E [Schistosoma
           japonicum]
 gi|226487596|emb|CAX74668.1| polymerase (RNA) II (DNA directed) polypeptide E [Schistosoma
           japonicum]
          Length = 206

 Score =  100 bits (249), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 91/152 (59%), Gaps = 2/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+T+L+M KDRGY V   E+  S++DF+A  G  P    L + ++H+ DP+  + V F  
Sbjct: 14  RKTILKMCKDRGYLVMPKELEQSLEDFKATVGDPPARKDLLMVVNHEEDPADMLYVFFPE 73

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V +  +R+ ++Q+    T   ++++ +  +T  A  A+     ++ +E F   +L+V
Sbjct: 74  EEKVNMKTVRAYLNQMQQDSTYRAILVLQEKGLTPSAKTAIAELSCKYTLECFFENELMV 133

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NIT+H L P+H VLT +EK++LL++Y ++E Q
Sbjct: 134 NITEHQLVPQHDVLTQEEKKELLERYRLKENQ 165


>gi|405118149|gb|AFR92924.1| DNA-directed RNA polymerase II 24 kda polypeptide [Cryptococcus
           neoformans var. grubii H99]
          Length = 255

 Score =  100 bits (249), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 93/165 (56%), Gaps = 5/165 (3%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISIS--HQ 92
            +R+  R +   RTV EM++DRGY +A  EIN+S ++F+  +G    VDR  +S    H+
Sbjct: 51  ANRELARLWRVSRTVHEMVRDRGYMLADYEINVSFEEFKDRHGATGSVDRSNMSFDAIHE 110

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-- 150
           SD + +I V FC    V    +++ I  +       G+I I   +++  A K +   Q  
Sbjct: 111 SDNTDKIFVYFCADKNVSKASMKTFIGSMDKMGARRGII-IWSEKMSPAAKKTLQEMQSE 169

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F  +DLLVNITKH L PKH V+  +EK  L+K+Y ++E Q
Sbjct: 170 YHLEDFPESDLLVNITKHFLVPKHTVMKPEEKSALIKRYRLKETQ 214


>gi|168003716|ref|XP_001754558.1| predicted protein [Physcomitrella patens subsp. patens]
 gi|162694179|gb|EDQ80528.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 208

 Score =  100 bits (248), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 58/157 (36%), Positives = 94/157 (59%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  R+TV+EML+DR Y VA  E+N + ++FR  YG +P  + L I    +S+ ++ I 
Sbjct: 12  RLYRIRKTVMEMLRDRDYVVAEFELNSTKEEFREKYGDEPKREDLVIQKPKRSNNAEHIF 71

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V V  I++ + ++   + +   IL++Q  +T  A + V     ++ VE+FQ 
Sbjct: 72  VFFPEEAKVGVKTIKTYVDRM-KTENVHRAILVVQQNLTPFARQCVSEMSSKYHVEVFQE 130

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI  HVL P+H+VL  +EK  LL++Y+++E Q
Sbjct: 131 AELLVNIKDHVLVPQHEVLNAEEKITLLQRYTVKETQ 167


>gi|116785870|gb|ABK23892.1| unknown [Picea sitchensis]
          Length = 191

 Score =  100 bits (248), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 58/152 (38%), Positives = 95/152 (62%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           RRTVL+ML DR Y V   EIN + + F   +G+DP  + L I+ + ++ PS++I V F  
Sbjct: 14  RRTVLQMLNDRDYLVGDFEINTTKEQFLDKFGEDPKKEDLVINKAKRNSPSEQIFVFFPE 73

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V V  I++ + ++ +       IL++Q  +T  A ++V  F  +F +E+FQ  +LLV
Sbjct: 74  EAKVGVKSIKTYVERMKSEGVFRA-ILVVQQALTPFARQSVQEFSGKFHLEVFQEAELLV 132

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI +HVL P+ Q+LT +EK+ LL++Y+++E Q
Sbjct: 133 NIKEHVLVPEQQILTPEEKKTLLERYTLKETQ 164


>gi|357500691|ref|XP_003620634.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|355495649|gb|AES76852.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 208

 Score =  100 bits (248), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 100/162 (61%), Gaps = 5/162 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           D  + +  ++T+L+ML DR Y V  +E+ +S +DF   YG+    ++L I+ +H+++PS+
Sbjct: 7   DITKLFRIQKTLLQMLSDRNYLVEETELTMSREDFIFKYGEHMKREQLEINKTHRNNPSE 66

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV----GLFQFKV 153
           +I V F     + V ++R  I++++  +  +G IL+ Q +++  A  AV     +   ++
Sbjct: 67  KICVFFSDDAKLGVKIVRGFITRMLQENVDSG-ILVCQTKLSHYARSAVTEMSSVGSKRL 125

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E+F   +LLVNITKH   P HQVLT+ EK  LLKKY++++ Q
Sbjct: 126 EVFLEDELLVNITKHERVPPHQVLTEAEKRALLKKYTVKDTQ 167


>gi|403418276|emb|CCM04976.1| predicted protein [Fibroporia radiculosa]
          Length = 207

 Score = 99.4 bits (246), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 56/161 (34%), Positives = 92/161 (57%), Gaps = 3/161 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD-PDVDR--LRISISHQSD 94
           +S R +   RT+ E++KDRG+ V+  EIN+ +  FR+ Y  +   VDR  L    +H+++
Sbjct: 6   ESARLWKVNRTIHELVKDRGFQVSDDEINMDLATFRSHYASNLGSVDRSQLNFFTNHKNN 65

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVE 154
           P  +I V F     V V  +R +++ +  ++ + G+I+   N   S       +  F +E
Sbjct: 66  PMTQIFVFFSDEKSVGVKTMRKMLTILEEKNIMQGIIVFPGNMTPSARKVISAMTNFALE 125

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            F   DLLVNIT H L PKH+VL+ +EK++LL+ Y ++E Q
Sbjct: 126 EFAEADLLVNITHHTLVPKHEVLSPKEKKELLETYRLKETQ 166


>gi|320168277|gb|EFW45176.1| DNA-directed RNA polymerase 2 [Capsaspora owczarzaki ATCC 30864]
          Length = 211

 Score = 99.0 bits (245), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 64/171 (37%), Positives = 103/171 (60%), Gaps = 8/171 (4%)

Query: 32  VDNGSRDSL-RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRA--IYGQD--PDVDRLR 86
           +D+  +  L R Y   +TV++M  DR Y V   E+  +++ FRA    G D  P  +R+ 
Sbjct: 1   MDSAEQQHLQRMYRIYQTVMQMCHDRHYIVTADELEQNLETFRAKVCTGNDLTPVRERML 60

Query: 87  ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITS--QATK 144
            + +++ DP+K ILV+F     V V  IR +I Q+  +    G+I++ Q+ +TS  ++T 
Sbjct: 61  CNFAYKDDPTKSILVMFATEVKVGVAPIRQMIEQMSTQSIQRGIIVV-QDCLTSFARSTL 119

Query: 145 AVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A  + QF +E F+  +LLVNIT+H L PKH+VL+D +K  LLK+Y ++E Q
Sbjct: 120 AEAMPQFIIEEFKEAELLVNITRHTLVPKHEVLSDDDKIALLKQYKLKEAQ 170


>gi|192910670|gb|ACF06443.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Elaeis
           guineensis]
          Length = 204

 Score = 98.6 bits (244), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 59/160 (36%), Positives = 99/160 (61%), Gaps = 3/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           D  R +  RRTV++ML+DRGY V   EIN++   F   +G+    + L I+ + ++DP+ 
Sbjct: 5   DISRLFRIRRTVMQMLRDRGYLVLDLEINMNKLQFLEKFGEGVKREDLVINKAKKNDPAD 64

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEM 155
           +I V F     V V  I+  + ++   +   G IL++Q  +T  A +++     ++ +E+
Sbjct: 65  QIYVFFPNDAKVGVKQIKQYVERMKAENVTRG-ILVVQQALTPFARQSLAEVSQKYMLEV 123

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           FQ T+LLVNI +HVL P+HQVLT +EK+ LL++Y+++E Q
Sbjct: 124 FQDTELLVNIKEHVLVPEHQVLTSEEKKTLLERYTLKETQ 163


>gi|449543190|gb|EMD34167.1| hypothetical protein CERSUDRAFT_141708, partial [Ceriporiopsis
           subvermispora B]
          Length = 208

 Score = 98.6 bits (244), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 59/162 (36%), Positives = 93/162 (57%), Gaps = 4/162 (2%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP-DVDR--LRISISHQSD 94
           DS + +   RT+ E++KDRG+ V+  EIN+ +  FR+ Y  +   VDR  L    +H S+
Sbjct: 6   DSAKLWKVNRTIHELVKDRGFQVSDDEINMDLATFRSHYANNSGSVDRSQLNFFTNHTSN 65

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKV 153
           P  +I V F     V V  +R ++  +  ++   G+I+   N   S     V +  Q+K+
Sbjct: 66  PLVQIFVFFSDEKSVGVKTMRKLLGILEEKNIQQGVIVFPGNMTPSARKVIVAMASQYKL 125

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F  +DLLVNIT H L P+H+VLT +EK++LL+ Y ++E Q
Sbjct: 126 EEFSESDLLVNITHHTLVPRHEVLTAEEKKELLETYRLKETQ 167


>gi|444321044|ref|XP_004181178.1| hypothetical protein TBLA_0F01160 [Tetrapisispora blattae CBS 6284]
 gi|387514222|emb|CCH61659.1| hypothetical protein TBLA_0F01160 [Tetrapisispora blattae CBS 6284]
          Length = 215

 Score = 97.8 bits (242), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 63/170 (37%), Positives = 95/170 (55%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM++DRGY +   EI+LS++DF++ Y         R +IS Q++P+
Sbjct: 7   RNVSRLWRTFRTVKEMVRDRGYFITQEEIDLSLEDFKSKYTNSMGTPE-RKNISFQANPT 65

Query: 97  KRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +  L          V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EETLAKFPELGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+D+EK++LLKKY ++E Q
Sbjct: 125 PSIPPATIETFHEASLIVNITHHELVPKHIRLSDEEKKELLKKYRLKESQ 174


>gi|299749820|ref|XP_001836357.2| DNA-directed RNA polymerase I [Coprinopsis cinerea okayama7#130]
 gi|298408613|gb|EAU85541.2| DNA-directed RNA polymerase I [Coprinopsis cinerea okayama7#130]
          Length = 208

 Score = 97.4 bits (241), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 96/163 (58%), Gaps = 6/163 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP---DVDRLRISISHQSD 94
           ++ R +   +T+ E++KDRG++V+  EIN+S++ FR +YG +    D ++L     H+ +
Sbjct: 6   ETARLWKVSKTIHELVKDRGFSVSDEEINMSLERFRQVYGNNMGVIDRNQLNFYTHHRLN 65

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FK 152
           PS +I V F     V V  +R ++  I+    +   I+I    +TS A K +      ++
Sbjct: 66  PSDQIFVYFTEEPNVGVKAMRKLLG-IMEEKAIQRGIIIFPATMTSSARKVISAMASTYR 124

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +E F   DLLVNIT H L P+H+VL+ +EK+ LL++Y +++ Q
Sbjct: 125 LEEFAEADLLVNITHHTLVPRHEVLSPEEKKTLLERYRLKDTQ 167


>gi|413952168|gb|AFW84817.1| hypothetical protein ZEAMMB73_052663 [Zea mays]
          Length = 238

 Score = 97.4 bits (241), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 97/157 (61%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  RRTV++ML+DRGY V   E+  S +DF   +G+    + L I+   ++DPS +I 
Sbjct: 14  RLYRIRRTVMQMLRDRGYLVVDHELATSRRDFLRKFGESFHREDLLINKYKKNDPSDQIY 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKV--EMFQI 158
           V F     V +  I+  + +++  + ++  +L+LQ  +T  A   +   + K+  E+FQ 
Sbjct: 74  VFFPNDDKVGMKHIKKYV-EMMTHENVSRAVLVLQQNLTPFAKSFLIELEPKIHLEIFQE 132

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            ++L+NI +HVL P+HQVLT++EK+ LL++Y+++E Q
Sbjct: 133 AEMLINIKEHVLVPEHQVLTNEEKKTLLERYTLKETQ 169


>gi|351723363|ref|NP_001238044.1| uncharacterized protein LOC100499667 [Glycine max]
 gi|255625665|gb|ACU13177.1| unknown [Glycine max]
          Length = 206

 Score = 97.4 bits (241), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 57/157 (36%), Positives = 95/157 (60%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  R+TV++ML+DRG+ V   EIN+S  +F++ YG+    + L I+ S + +   +I 
Sbjct: 10  RLYRIRKTVMQMLRDRGFLVGDFEINMSKHEFKSKYGEHMKREDLVINKSKKDNSGDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V V  +++  +++ N + +   IL+ Q  +T  A   +     +F +E+FQ 
Sbjct: 70  VFFPDEPKVGVKTMKTYTNRM-NSENVYRAILVTQTNLTPFARTCISEISSKFHLEVFQE 128

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI +H L P+HQVLTD EK+ LL++Y+++E Q
Sbjct: 129 AELLVNIKEHELVPEHQVLTDAEKKTLLERYTVKETQ 165


>gi|225445170|ref|XP_002284107.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 1 [Vitis vinifera]
 gi|225445172|ref|XP_002284110.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 2 [Vitis vinifera]
          Length = 206

 Score = 97.4 bits (241), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 97/157 (61%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  R+TV++MLKDRGY V   EIN++   F + +G++   + L I+ + ++D S +I 
Sbjct: 10  RLFRIRKTVMQMLKDRGYFVGDFEINMTKHQFVSKFGENMKREDLVINKAKRTDSSDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V V  +++  +++ + +     IL++Q  +T  A   +     +F +E+FQ 
Sbjct: 70  VFFPEEQKVGVKTMKTYTNRMKSENVFRA-ILVVQQNLTPFARTCINEISTKFHLEVFQE 128

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI +HVL P+HQVLT +EK+ LL++Y+++E Q
Sbjct: 129 AELLVNIKEHVLVPEHQVLTSEEKKTLLERYTVKETQ 165


>gi|159479030|ref|XP_001697601.1| DNA-directed RNA polymerase II, 23 kDa polypeptide [Chlamydomonas
           reinhardtii]
 gi|158274211|gb|EDO99994.1| DNA-directed RNA polymerase II, 23 kDa polypeptide [Chlamydomonas
           reinhardtii]
          Length = 206

 Score = 97.1 bits (240), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 92/157 (58%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRT L+ML DRGY V+  EI  +   FR  +G++P  D L I +  Q DP+++I 
Sbjct: 6   RLWRVRRTCLQMLNDRGYLVSQEEIGTTKDQFRDRFGENPRKDDLTILVPRQDDPTEQIF 65

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V V  I+ ++++ +  + +   I++  ++ T  A  A+     ++ +E F  
Sbjct: 66  VFFPEEQKVGVKTIK-LLAERMKDEKVNRAIMVTPSKFTPFAKSALEDMRPKYHIEHFLE 124

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++LLVNIT+HVL P+H++L+  EK  LL +Y I+E Q
Sbjct: 125 SELLVNITEHVLVPEHRILSPDEKRTLLDRYKIKETQ 161


>gi|395332226|gb|EJF64605.1| RPB5 subunit of DNA-directed RNA polymerase [Dichomitus squalens
           LYAD-421 SS1]
          Length = 211

 Score = 96.7 bits (239), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 93/162 (57%), Gaps = 4/162 (2%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDR--LRISISHQSD 94
           +S R +   RT+ E++KDRG+ VA  EIN+ +  FR+ Y  Q   VDR  L    +H+ +
Sbjct: 9   ESARLWKVNRTIHELVKDRGFQVADDEINMDLATFRSHYASQSGTVDRSQLNFFTNHRDN 68

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKV 153
           P  +I + F     V V  +R ++  +  ++   G+I+   N   S     V +  Q+K+
Sbjct: 69  PMLQIFIFFTDEKSVGVKTMRKLLGILEEKNIQQGIIVFPGNMTPSARKVIVAMASQYKL 128

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F  +DLLVNIT H L P+H++LT ++K++LL+ Y ++E Q
Sbjct: 129 EEFSESDLLVNITHHTLVPRHELLTPEQKKELLETYRLKETQ 170


>gi|388499936|gb|AFK38034.1| unknown [Lotus japonicus]
          Length = 206

 Score = 96.3 bits (238), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 94/152 (61%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+TV++ML+DR Y V   EIN+S  +F+  YG +   + L I+ + +  PS +I V F  
Sbjct: 15  RKTVMQMLRDRNYLVGDFEINMSRHEFKTKYGDNMKREDLTINKTKKDGPSDQIYVFFPD 74

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V V  +++  +++ N + +   IL+ Q+ +T  A   +     +F++E+FQ  +LLV
Sbjct: 75  EPKVGVKTMKTYTNRM-NSENVFRAILVCQSNLTPFAKTCISEMSSKFQLEVFQEAELLV 133

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI +HVL P+HQ+L + EK+ LL++Y+++E Q
Sbjct: 134 NIKEHVLVPEHQILNETEKKTLLERYTVKETQ 165


>gi|350018416|dbj|GAA37368.1| DNA-directed RNA polymerases I II and III subunit RPABC1
           [Clonorchis sinensis]
          Length = 206

 Score = 96.3 bits (238), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 90/152 (59%), Gaps = 2/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+T+L+M KDRGY V   E+  ++ DF+   G  P    L + ++H+ DP+  + V F  
Sbjct: 14  RKTILKMCKDRGYLVMPKELEQTLDDFKLSVGDPPSRKDLLMVVNHEEDPADMLYVFFPD 73

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V +  IR+ ++Q+    T   ++++ +  +T  A  A+     ++ +E F  T+L+V
Sbjct: 74  EEKVNMKTIRAYLNQMQQDSTYRAILVLQEKGLTPFAKTALAELSCKYTLECFFETELMV 133

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NIT+H L P+H VLT +EK++LL++Y ++E Q
Sbjct: 134 NITEHQLVPQHNVLTQEEKKELLERYRLKESQ 165


>gi|336370755|gb|EGN99095.1| hypothetical protein SERLA73DRAFT_181909 [Serpula lacrymans var.
           lacrymans S7.3]
 gi|336383518|gb|EGO24667.1| hypothetical protein SERLADRAFT_468322 [Serpula lacrymans var.
           lacrymans S7.9]
          Length = 206

 Score = 96.3 bits (238), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 55/154 (35%), Positives = 92/154 (59%), Gaps = 6/154 (3%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQSDPSKRILVVF 103
           RT+ E++KDRG+AV+  EI++ +  FR+ Y   G   D ++L    + +++P+ +I V F
Sbjct: 13  RTIHELVKDRGFAVSDDEIHMDLVTFRSHYANNGGSVDRNQLNFFTNSRTNPTDQIFVFF 72

Query: 104 CGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDL 161
                V V  +R ++  I+   ++   I++    +T  A K +     Q+++E F  +DL
Sbjct: 73  SDEKSVGVKTMRKLLG-ILEEKSIQRGIIVFPGNMTPSARKVIAAMAAQYRLEEFSESDL 131

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LVNIT H L PKH+VLT +EK+ LL+KY ++E Q
Sbjct: 132 LVNITHHTLVPKHEVLTPEEKKTLLEKYRLKETQ 165


>gi|213405090|ref|XP_002173317.1| DNA-directed RNA polymerase I [Schizosaccharomyces japonicus
           yFS275]
 gi|212001364|gb|EEB07024.1| DNA-directed RNA polymerase I [Schizosaccharomyces japonicus
           yFS275]
          Length = 211

 Score = 96.3 bits (238), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 7/165 (4%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQSDP 95
           R+ ++ +   +TV +++ DRGYAV+ SE+ L++  FRA++ G   ++DR  +S   +  P
Sbjct: 7   RNIVKVFRVWKTVHQLVHDRGYAVSQSELELTLDQFRAMHCGMGRNLDRSTLSFYAKPPP 66

Query: 96  SK---RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
                 I V F     V +  +R+ +  + + +  TG ILI  N +T  ATK +     Q
Sbjct: 67  GSDKGTIYVEFAKEPSVGIKEMRTFVHTLGDHNHKTG-ILIYANNMTPSATKIISTVTGQ 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F +E FQ +DL+VNIT H L PKH +LT +EK++LL +Y + E Q
Sbjct: 126 FTIETFQESDLIVNITHHELVPKHVLLTPEEKKELLDRYKLRETQ 170


>gi|328770744|gb|EGF80785.1| hypothetical protein BATDEDRAFT_88106 [Batrachochytrium
           dendrobatidis JAM81]
          Length = 207

 Score = 96.3 bits (238), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 56/153 (36%), Positives = 92/153 (60%), Gaps = 5/153 (3%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR--LRISISHQSDPSKRILVVFC 104
           RT+ EM+  RGY V+ +E+ +S+ DFR  Y +   +DR  L   + H S  + ++LV F 
Sbjct: 15  RTIHEMVSHRGYLVSKAELEMSLDDFRYTYTKGGIIDRQGLTFLVQHSSSENDQLLVFFT 74

Query: 105 GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLL 162
               V +  I+ I  +++++  + G ILI +  +T  A K V     ++++E+FQ ++LL
Sbjct: 75  DDDSVGIKPIKKICERMISQSIMKG-ILIYKKSLTPSANKVVQEMAPKYQLELFQESELL 133

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           VNIT+H L P H+VLT  EK+ LL +Y ++E Q
Sbjct: 134 VNITQHTLVPVHEVLTVDEKKTLLARYRLKETQ 166


>gi|343424911|emb|CBQ68449.1| probable 25 kD subunit of DNA-directed RNA polymerases I, II and
           III [Sporisorium reilianum SRZ2]
          Length = 208

 Score = 96.3 bits (238), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 93/164 (56%), Gaps = 6/164 (3%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQS 93
           R+++R +   RT+ E+++DRGY VA  EIN+ ++ F+A Y   G   D  +L     H  
Sbjct: 5   RETVRLWRVNRTIHELVRDRGYQVADDEINVDLETFKAEYAPTGGAVDRTKLNFFTEHSE 64

Query: 94  DPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--F 151
             ++R+ V +     V V  +R  IS +  RD   G+I I   ++TS A K +   +  F
Sbjct: 65  HANQRLFVFYSMERNVGVKTMRQFISIMEERDIQRGII-IWPEKMTSAARKVIDAMRGTF 123

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F+   LLVNIT H L PKH+ L  QEK++LL++Y ++E Q
Sbjct: 124 HLEDFEEAFLLVNITHHHLVPKHEPLYPQEKKELLQRYRLKETQ 167


>gi|325181796|emb|CCA16252.1| DNAdirected RNA polymerase I putative [Albugo laibachii Nc14]
          Length = 210

 Score = 96.3 bits (238), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 58/165 (35%), Positives = 101/165 (61%), Gaps = 4/165 (2%)

Query: 34  NG-SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           NG S ++LR +  R+T ++ML +RGY V+ +E+ ++ + F+  +G +P  + + I +   
Sbjct: 6   NGLSAEALRLFRVRKTTVKMLHNRGYIVSENELIMTPEGFQQQFGDNPTREMMTILVEKI 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DPS  + V F     V V  IR+  +++ + + +T  IL++Q  IT  A +A+     +
Sbjct: 66  DDPSDNLFVFFPEDTKVGVKPIRNYCNRMKD-ENVTKAILVVQEGITPFARQALNEMAPR 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +K+E F+ T+LLV+IT+H L P H+VL  +EK  LLK+Y I++ Q
Sbjct: 125 YKIEHFKETELLVDITEHTLVPVHRVLCREEKAALLKRYRIKDSQ 169


>gi|392594893|gb|EIW84217.1| RPB5 subunit of DNA-directed RNA polymerase [Coniophora puteana
           RWD-64-598 SS2]
          Length = 207

 Score = 95.9 bits (237), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/154 (35%), Positives = 92/154 (59%), Gaps = 6/154 (3%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQSDPSKRILVVF 103
           RTV E++KDRGY V+  EI++    F++ Y   G   D ++L    + Q +P+++I + F
Sbjct: 14  RTVHELVKDRGYQVSDDEIHMDFATFKSHYANNGGSVDRNQLNFFTNSQENPTEQIFIYF 73

Query: 104 CGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDL 161
                V +  +R +I+ I+   ++   I+I    +T  A K +     Q+++E F  +DL
Sbjct: 74  SDERSVGIKTMRKLIA-ILEEKSIQRAIIIFPGAMTGAARKVIVAMASQYRIEEFSESDL 132

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LVNIT H+L PKH+VLT ++K+ LL+KY +++ Q
Sbjct: 133 LVNITHHILVPKHEVLTPEQKKALLEKYRLKDTQ 166


>gi|224119828|ref|XP_002331171.1| predicted protein [Populus trichocarpa]
 gi|222873254|gb|EEF10385.1| predicted protein [Populus trichocarpa]
          Length = 206

 Score = 95.5 bits (236), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 95/152 (62%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+TV++MLKDRGY V   EI ++ + F + YG +   + L I+ + ++D S +I V F  
Sbjct: 15  RKTVMQMLKDRGYFVGDFEIKMTREQFESKYGNNMKREDLVINKTKRNDSSDQIYVFFPE 74

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V V  +++  +++ + +     IL++Q  +T  A   +     +F +E+FQ  +LLV
Sbjct: 75  EAKVGVKTMKTYTNRMKSENVFRA-ILVVQQNLTPFARTCINEISTKFHLEVFQEAELLV 133

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI +HVL P+HQVL+++EK+ LL++Y+++E Q
Sbjct: 134 NIKEHVLVPEHQVLSNEEKKTLLERYTVKETQ 165


>gi|384249623|gb|EIE23104.1| DNA-directed RNA polymerase II, 23 kDa polypeptide [Coccomyxa
           subellipsoidea C-169]
          Length = 202

 Score = 95.5 bits (236), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 51/157 (32%), Positives = 90/157 (57%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  R+T LEML DRGY +A  +  ++ + F+  +G DP  D L +    Q DP+++I 
Sbjct: 6   RLYRIRKTCLEMLHDRGYLIAQDDRQMTKEGFKDRFGDDPRKDDLTVLAPKQDDPTEQIF 65

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V +     V V  I++   ++ N + ++  I++    +T  A + +     ++ +E+F  
Sbjct: 66  VFYPEEDKVGVKTIKTFAERMRN-EGVSRAIMVTMASMTPFAKQCLAEMAPKYYIEVFNA 124

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LL+NIT+HVL P+H +LT +EK  LL +Y +++ Q
Sbjct: 125 AELLINITQHVLVPEHHLLTPEEKRTLLDRYKVKDTQ 161


>gi|346470667|gb|AEO35178.1| hypothetical protein [Amblyomma maculatum]
          Length = 205

 Score = 95.5 bits (236), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 59/157 (37%), Positives = 95/157 (60%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRTV+EML+DR Y V   E+N++  DF   +G+    D L I+   + DPS +I 
Sbjct: 9   RLFRIRRTVMEMLRDRNYLVVDYELNMTKLDFLHKFGEGVKRDDLTINKYKKGDPSDQIY 68

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V +  I+  + +++  + +T  IL++Q  +T  A   +     +F +E+F  
Sbjct: 69  VFFPNDDKVGMKHIKKCV-ELMKTENVTRSILVVQQNLTPFAKAHLLELTPKFILEVFLE 127

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI KHVL P+HQVLT++EK+ LL++Y+++E Q
Sbjct: 128 AELLVNIKKHVLIPEHQVLTNEEKKTLLERYTLKETQ 164


>gi|353236892|emb|CCA68877.1| probable 25 kD subunit of DNA-directed RNA polymerases I, II and
           III [Piriformospora indica DSM 11827]
          Length = 211

 Score = 95.1 bits (235), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 56/159 (35%), Positives = 100/159 (62%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISI-SH-QSDPSK 97
           R +   RT+ E+++DRGYAVA  EIN+++ +F+  + +   V DR  +   +H ++DP+ 
Sbjct: 13  RLWKVNRTIHELVRDRGYAVADEEINMTLDEFKQQFARAGSVVDRASLGFWAHLRNDPAT 72

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLFQFKVEMF 156
            I V FC    V V  ++ ++  +  ++ + G+I I  N +T  A K + G+ Q+++E F
Sbjct: 73  SIYVYFCDERSVGVQHMKKLLGILDEKNIVRGII-IYPNVLTPAARKVLTGMPQYQLEEF 131

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             T+LLVNIT+H L P+H++L+ ++K  LL++Y ++E Q
Sbjct: 132 AETELLVNITQHTLVPQHEILSPEQKRLLLERYRLKETQ 170


>gi|302854284|ref|XP_002958651.1| hypothetical protein VOLCADRAFT_109457 [Volvox carteri f.
           nagariensis]
 gi|300255976|gb|EFJ40254.1| hypothetical protein VOLCADRAFT_109457 [Volvox carteri f.
           nagariensis]
          Length = 202

 Score = 95.1 bits (235), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 57/157 (36%), Positives = 91/157 (57%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRT L+ML DRGY V+  EIN S   FR  +G++P  D L I +  Q DP++++ 
Sbjct: 6   RLWRVRRTCLQMLNDRGYLVSQEEINTSKDQFRDRFGENPRKDDLTILVPKQDDPTEQMF 65

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK--VEMFQI 158
           V F     V V  I+ ++++ +  + +   I++   + T  A  A+   + K  +E F  
Sbjct: 66  VFFPEEQKVGVKTIK-LLAERMKDEKVNRAIMVTAVKFTPFAKSALEDMRPKYCIEHFLE 124

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++LLVNIT+H L P+H++L+  EK  LL +Y I+E Q
Sbjct: 125 SELLVNITEHTLVPEHRILSPDEKRTLLDRYKIKETQ 161


>gi|226530454|ref|NP_001141164.1| uncharacterized protein LOC100273250 [Zea mays]
 gi|226533456|ref|NP_001152590.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Zea mays]
 gi|194703030|gb|ACF85599.1| unknown [Zea mays]
 gi|195657875|gb|ACG48405.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Zea mays]
 gi|413952167|gb|AFW84816.1| DNA-directed RNA polymerase II polypeptide [Zea mays]
          Length = 210

 Score = 95.1 bits (235), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 97/157 (61%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  RRTV++ML+DRGY V   E+  S +DF   +G+    + L I+   ++DPS +I 
Sbjct: 14  RLYRIRRTVMQMLRDRGYLVVDHELATSRRDFLRKFGESFHREDLLINKYKKNDPSDQIY 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKV--EMFQI 158
           V F     V +  I+  + +++  + ++  +L+LQ  +T  A   +   + K+  E+FQ 
Sbjct: 74  VFFPNDDKVGMKHIKKYV-EMMTHENVSRAVLVLQQNLTPFAKSFLIELEPKIHLEIFQE 132

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            ++L+NI +HVL P+HQVLT++EK+ LL++Y+++E Q
Sbjct: 133 AEMLINIKEHVLVPEHQVLTNEEKKTLLERYTLKETQ 169


>gi|388855814|emb|CCF50598.1| probable 25 kD subunit of DNA-directed RNA polymerases I, II and
           III [Ustilago hordei]
          Length = 236

 Score = 94.7 bits (234), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 59/164 (35%), Positives = 92/164 (56%), Gaps = 6/164 (3%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQS 93
           R+++R +   RT+ E+++DRGY VA  EIN+ ++ F++ Y   G   D  +L     H  
Sbjct: 5   RETVRLWRVNRTIHELVRDRGYQVADDEINIDLETFKSEYAPTGGSVDRTKLNFFTEHSE 64

Query: 94  DPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--F 151
             ++R+ V +     V V  +R  IS +  RD   G+I I   ++TS A K +   +  F
Sbjct: 65  HENQRLFVFYSMERNVGVKTMRQFISIMEERDIQRGII-IWPEKMTSAARKVIDAMRGTF 123

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F+   LLVNIT H L PKH+ L  QEK++LL +Y ++E Q
Sbjct: 124 HLEDFEEAFLLVNITHHHLVPKHEPLYPQEKKELLARYRLKETQ 167


>gi|215713497|dbj|BAG94634.1| unnamed protein product [Oryza sativa Japonica Group]
          Length = 167

 Score = 94.7 bits (234), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 57/160 (35%), Positives = 93/160 (58%), Gaps = 3/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R +  RRTV++ML+DRGY V   +I+L   DF A +G   D D L  S   + + + 
Sbjct: 6   ETSRLFRIRRTVMQMLRDRGYLVTELDIDLPRGDFVARFGDPVDRDHLVFSRHKKDNGAD 65

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEM 155
           +I V F       V  IRS + ++       G IL++Q  +++ A  AV     +F +E+
Sbjct: 66  QIYVFFPKDAKPGVKTIRSYVERMKQESVFNG-ILVVQQALSAFARSAVQEVSQKFHLEV 124

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           FQ  +LLVNI  H L P+H++LT ++K+ LL++Y+++E Q
Sbjct: 125 FQEAELLVNIKDHTLVPEHELLTPEQKKTLLERYTVKETQ 164


>gi|45190642|ref|NP_984896.1| AER036Wp [Ashbya gossypii ATCC 10895]
 gi|54036391|sp|Q757H7.1|RPAB1_ASHGO RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1
 gi|44983621|gb|AAS52720.1| AER036Wp [Ashbya gossypii ATCC 10895]
 gi|374108119|gb|AEY97026.1| FAER036Wp [Ashbya gossypii FDAG1]
          Length = 215

 Score = 94.7 bits (234), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 63/173 (36%), Positives = 97/173 (56%), Gaps = 13/173 (7%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS 93
           +  R+  R + + RTV EM++DRGY +   E++LS++DF+A Y  D      R  +S QS
Sbjct: 4   DNERNVSRLWRAFRTVKEMVRDRGYFITQEEVDLSLEDFKAKYC-DSMGRPQRKMMSFQS 62

Query: 94  DPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
           +P++  L          V FC    V +  +++ +  I  ++  TG I I QN IT  A 
Sbjct: 63  NPTEETLKKSPNMGSVWVEFCDEPSVGIKTMKNFVIHIGEKNFQTG-IFIYQNGITPSAL 121

Query: 144 KAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           K +  +    +E F  T L+VNIT H L PKH  L+D+EK++LLK+Y ++E Q
Sbjct: 122 KLLPSVAPATIETFNETALVVNITHHELVPKHIKLSDEEKKELLKRYRLKESQ 174


>gi|351722355|ref|NP_001237497.1| uncharacterized protein LOC100306098 [Glycine max]
 gi|255627545|gb|ACU14117.1| unknown [Glycine max]
          Length = 206

 Score = 94.7 bits (234), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 94/157 (59%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  R+TV++ML+DR + V   EIN+S  +F++ YG+    + L I+ S + +   +I 
Sbjct: 10  RLYRIRKTVMQMLRDRNFLVGDFEINMSKHEFKSKYGEHMKREDLVINKSKKDNSGDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V V  +++  +++ N + +   IL+ Q  +T  A   +     +F +E+FQ 
Sbjct: 70  VFFPDEPKVGVKTMKTYTNRM-NSENVYRAILVTQTNLTPFARTCISEISSKFHLEVFQE 128

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI +H L P+HQVLTD EK+ LL++Y+++E Q
Sbjct: 129 AELLVNIKEHELVPEHQVLTDAEKKTLLERYTVKETQ 165


>gi|449455411|ref|XP_004145446.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
 gi|449487698|ref|XP_004157756.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
          Length = 205

 Score = 94.7 bits (234), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 54/156 (34%), Positives = 101/156 (64%), Gaps = 2/156 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           + + +R+TVL+ML+DRG+ V   E+ +S + F+  YG+    + L I+ S +++ S +I 
Sbjct: 10  KLFRARKTVLQMLRDRGFVVGDFELAMSREQFKNQYGETMKKEDLVINKSMRNNSSDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKVEMFQIT 159
           V F     V V  +R+ I+++   D +   IL++Q +++S A  ++    +F +E+FQ  
Sbjct: 70  VFFPEEPKVSVKTVRTYINRM-KSDNVFRAILVVQEKLSSFARSSICEAPKFHLEVFQEA 128

Query: 160 DLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +LLVNI  HVL P+HQ+LT+++K+ LL++Y++++ Q
Sbjct: 129 ELLVNIKDHVLIPEHQLLTNEDKKTLLERYTVKDTQ 164


>gi|148910132|gb|ABR18148.1| unknown [Picea sitchensis]
          Length = 194

 Score = 94.4 bits (233), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 54/150 (36%), Positives = 90/150 (60%), Gaps = 10/150 (6%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           RRTVL+ML DR Y V   EIN + + F   +G+DP  + L I+ + ++ PS++I V F  
Sbjct: 14  RRTVLQMLNDRDYLVGDFEINTTKEQFLDKFGEDPKKEDLVINKAKRNSPSEQIFVFFPE 73

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNI 165
              V V  I++ + ++ +       IL++Q + +          +F +E+FQ  +LLVNI
Sbjct: 74  EAKVGVKSIKTYVERMKSEGVFRA-ILVVQQEFSG---------KFHLEVFQEAELLVNI 123

Query: 166 TKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +HVL P+ Q+LT +EK+ LL++Y+++E Q
Sbjct: 124 KEHVLVPEQQILTPEEKKTLLERYTLKETQ 153


>gi|406699193|gb|EKD02404.1| DNA-directed RNA polymerases ii 24 kda polypeptide [Trichosporon
           asahii var. asahii CBS 8904]
          Length = 211

 Score = 94.4 bits (233), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 55/145 (37%), Positives = 78/145 (53%), Gaps = 5/145 (3%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISI--SHQSD 94
           R+  R +   +TV EM++DRGY VA  EIN+S  DF+  YG    VDR R++   +H  D
Sbjct: 7   RELARLWRVSKTVHEMIRDRGYEVADYEINMSFDDFKETYGGGGSVDRGRMAFHANHSRD 66

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FK 152
              RI V FC    V     +S ++ +       GLI +   ++TS A K     Q  + 
Sbjct: 67  SRDRIYVFFCAEEAVSKATYKSFVTSLDAVGAKRGLI-VHGGKLTSGAAKTQNEMQSEYH 125

Query: 153 VEMFQITDLLVNITKHVLKPKHQVL 177
           +E F+  DLLVNIT+H L PKH ++
Sbjct: 126 LEDFKEADLLVNITRHFLVPKHTIM 150


>gi|212722800|ref|NP_001132429.1| hypothetical protein [Zea mays]
 gi|194694360|gb|ACF81264.1| unknown [Zea mays]
 gi|414586666|tpg|DAA37237.1| TPA: hypothetical protein ZEAMMB73_455773 [Zea mays]
          Length = 206

 Score = 94.4 bits (233), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 57/157 (36%), Positives = 89/157 (56%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRTV EML+DRGY V   +I L    F   YG     D L  + +  + PS +I 
Sbjct: 10  RLFRIRRTVYEMLRDRGYGVRDEQIKLERHKFIERYGNPVRRDELTFNATKLNGPSDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F       V  IR+ + ++ N +   G IL++Q  +++ A  AV     ++ +E+FQ 
Sbjct: 70  VFFPNEAKPGVKTIRNYVEKMKNENVFAG-ILVVQQALSAFARSAVQEVSQKYHLEVFQE 128

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LLVNI  HVL P+H +LT ++K+ LL++Y+++E Q
Sbjct: 129 AELLVNIKDHVLVPEHVLLTPEDKKTLLERYTVKETQ 165


>gi|390594286|gb|EIN03698.1| DNA-directed RNA polymerase RPB5 subunit [Punctularia
           strigosozonata HHB-11173 SS5]
          Length = 208

 Score = 94.4 bits (233), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 55/162 (33%), Positives = 90/162 (55%), Gaps = 4/162 (2%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQSD 94
           +S + +   RT+ E++KDRG+ V+  EI + +  FR  Y   G   D ++L    + +++
Sbjct: 6   ESAKLWKVNRTIHELVKDRGFQVSDDEIQMDLATFRQAYANNGGSVDRNQLNFFTNSRAN 65

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL-FQFKV 153
           P+ +I V F     V V  +R ++  +  +    G+I+   N   S     V +  QF++
Sbjct: 66  PADQIFVFFSEEKSVGVKTMRKLLGILEEKSIQRGIIIFPGNMTPSARKVIVAMSAQFRL 125

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F  +DLLVNIT H L P+H+VLT +EK  LL+KY ++E Q
Sbjct: 126 EEFSESDLLVNITHHTLVPRHEVLTPEEKRNLLEKYRLKETQ 167


>gi|357500693|ref|XP_003620635.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|355495650|gb|AES76853.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 239

 Score = 94.4 bits (233), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 61/193 (31%), Positives = 104/193 (53%), Gaps = 36/193 (18%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           D  + Y  R+T+L+ML DR Y V  +++ +S +DF   +G+    ++L I+ +H+++ S+
Sbjct: 7   DITKLYRIRKTILQMLFDRNYLVDETQLTMSREDFIFKFGEHMKREQLEINTTHRNNLSE 66

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG----LFQFKV 153
           +I V F     + VN++R II++++  +   G I++ QN+++  A KAV     +   ++
Sbjct: 67  KICVFFFDDAKLGVNIVRGIINRMLKENVDNG-IMVCQNKLSPAARKAVAGMSSIGSKRL 125

Query: 154 EMFQITD-------------------------------LLVNITKHVLKPKHQVLTDQEK 182
           E+F  TD                               LLVNITKH   P HQVLTD EK
Sbjct: 126 EVFMDTDTCRTAGTPSIKSVGAIELDSLMCRWWKKEDELLVNITKHERVPPHQVLTDTEK 185

Query: 183 EKLLKKYSIEEKQ 195
           + LLK+Y++++ Q
Sbjct: 186 KALLKRYTVKDTQ 198


>gi|302683883|ref|XP_003031622.1| hypothetical protein SCHCODRAFT_55942 [Schizophyllum commune H4-8]
 gi|300105315|gb|EFI96719.1| hypothetical protein SCHCODRAFT_55942 [Schizophyllum commune H4-8]
          Length = 210

 Score = 94.4 bits (233), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 60/160 (37%), Positives = 91/160 (56%), Gaps = 6/160 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDR--LRISISHQSDPSK 97
           R +   RT+ E++KDRG+ VA  EINLS+ DF++ Y  Q   VDR  L    +H+ D + 
Sbjct: 11  RLWKVNRTIHELVKDRGFQVADYEINLSLDDFKSQYASQSRSVDRNQLNFFTNHRDDTTD 70

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEM 155
           +I V F     V V  +R ++  +  +    G+I+   N +T  A K +   Q  +++E 
Sbjct: 71  QIFVFFSDERSVGVKTMRKLLGILEEKGIRRGIIIFPGN-MTPAARKVIVAMQSQYRLEE 129

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F   DLLVNIT H L P+H VL  +EK +LL++Y ++E Q
Sbjct: 130 FSEADLLVNITHHTLVPQHIVLKPEEKRELLERYRLKETQ 169


>gi|38344231|emb|CAD41325.2| OJ991113_30.8 [Oryza sativa Japonica Group]
          Length = 205

 Score = 94.0 bits (232), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 57/160 (35%), Positives = 93/160 (58%), Gaps = 3/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R +  RRTV++ML+DRGY V   +I+L   DF A +G   D D L  S   + + + 
Sbjct: 6   ETSRLFRIRRTVMQMLRDRGYLVTELDIDLPRGDFVARFGDPVDRDHLVFSRHKKDNGAD 65

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEM 155
           +I V F       V  IRS + ++       G IL++Q  +++ A  AV     +F +E+
Sbjct: 66  QIYVFFPKDAKPGVKTIRSYVERMKQESVFNG-ILVVQQALSAFARSAVQEVSQKFHLEV 124

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           FQ  +LLVNI  H L P+H++LT ++K+ LL++Y+++E Q
Sbjct: 125 FQEAELLVNIKDHTLVPEHELLTPEQKKTLLERYTVKETQ 164


>gi|392564185|gb|EIW57363.1| DNA-directed RNA polymerase RPB5 subunit [Trametes versicolor
           FP-101664 SS1]
          Length = 209

 Score = 94.0 bits (232), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 91/162 (56%), Gaps = 4/162 (2%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDR--LRISISHQSD 94
           +S + +   RT+ E++KDRG+ V+  EIN+ +  FR  Y  Q   VDR  L    +H+ +
Sbjct: 7   ESAKLWKVNRTIHELVKDRGFQVSDDEINMDLSTFRDHYANQSGSVDRSQLNFFTNHRDN 66

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-FKV 153
           PS +I + F     V V  +R ++  +  +    G+I+   N   S     V +   +K+
Sbjct: 67  PSVQIFIFFTDEKSVGVKTMRKLLGILEEKAIQQGIIVFPGNMTPSARKVIVAMASTYKL 126

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F  +DLLVNIT H L PKH++LT Q+K++LL+ Y ++E Q
Sbjct: 127 EEFSESDLLVNITHHTLVPKHELLTPQQKKELLETYRLKETQ 168


>gi|443896772|dbj|GAC74115.1| hypothetical protein PANT_10d00023 [Pseudozyma antarctica T-34]
          Length = 283

 Score = 94.0 bits (232), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 57/164 (34%), Positives = 94/164 (57%), Gaps = 6/164 (3%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQS 93
           R+++R +   +T+ E+++DRGY VA  EIN+ ++ F+A Y   G   D  +L     H +
Sbjct: 80  RETVRLWRVNKTIHELVRDRGYQVADDEINIDLESFKAEYAPTGGSVDRTKLNFFTEHSA 139

Query: 94  DPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--F 151
             ++R+ V +     V V  +R  IS +  RD   G+I I  +++TS A K +   +  F
Sbjct: 140 HENQRLFVFYSMERNVGVKTMRQFISIMEERDIQRGII-IWPDKMTSAARKVIDAMRGTF 198

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F+   LLVNIT H L P+H+ L   EK++LL++Y ++E Q
Sbjct: 199 HLEDFEEAYLLVNITHHHLVPRHEPLYPDEKKELLQRYRLKETQ 242


>gi|348680008|gb|EGZ19824.1| hypothetical protein PHYSODRAFT_494802 [Phytophthora sojae]
          Length = 206

 Score = 94.0 bits (232), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 56/160 (35%), Positives = 96/160 (60%), Gaps = 3/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R Y  R+T ++ML +RGY V+ +E+ ++ + F+A +G +P  + + I +    DPS 
Sbjct: 7   EASRLYRVRKTTVKMLHNRGYIVSENELVMTPEAFQAQFGDNPTREMMTILVEKIDDPSD 66

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEM 155
            + V F     V V  IR+  +++ + + +T  IL++Q  IT  A +A+     ++K+E 
Sbjct: 67  NLFVFFPEDTKVGVKPIRNYCNRMKD-ENVTKAILVVQEGITPFARQALNEMAPRYKIEH 125

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F+ T+LLV+IT+H L P H+VL   EK  LLK+Y I + Q
Sbjct: 126 FKETELLVDITEHTLVPVHRVLGRDEKAALLKRYRIRDSQ 165


>gi|308803436|ref|XP_003079031.1| RNA polymerase I, II and III 24.3 kDa subunit (ISS) [Ostreococcus
            tauri]
 gi|116057485|emb|CAL51912.1| RNA polymerase I, II and III 24.3 kDa subunit (ISS) [Ostreococcus
            tauri]
          Length = 1124

 Score = 94.0 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 52/158 (32%), Positives = 87/158 (55%), Gaps = 4/158 (2%)

Query: 41   RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
            R +  R+T+ +ML  RGY V+  E+      F   +G++P  D L I    + DPS+ I 
Sbjct: 927  RLFRVRKTIHKMLAARGYLVSARELERDADSFAEEFGEEPKRDSLTILAPRKDDPSENIF 986

Query: 101  VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ---FKVEMFQ 157
            V F     V V  I+ +  ++   +    +I++ Q  +T  A +++   Q   F +E FQ
Sbjct: 987  VFFPDEEKVGVKTIKDLAKRMKEENVFRAIIVV-QASLTPFAKQSLLECQTQKFYIEQFQ 1045

Query: 158  ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             T+LLVNI  HVL P+H +L+D++K  LL++Y +++ Q
Sbjct: 1046 ETELLVNIVDHVLVPEHILLSDEQKRTLLERYKVKDTQ 1083


>gi|409048291|gb|EKM57769.1| hypothetical protein PHACADRAFT_251606 [Phanerochaete carnosa
           HHB-10118-sp]
          Length = 208

 Score = 94.0 bits (232), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 56/154 (36%), Positives = 91/154 (59%), Gaps = 6/154 (3%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDR--LRISISHQSDPSKRILVVF 103
           RT+ E+++DRG+ V+  EI++ +  FR++Y  Q   VDR  L    +HQ++P ++I   F
Sbjct: 15  RTIHELVRDRGFQVSDDEIHMDLATFRSLYANQMGSVDRSQLNFFTNHQNNPMEQIFTFF 74

Query: 104 CGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDL 161
                V V  +R I++ +  ++   G+I +    +T  A K +     Q+K+E F   DL
Sbjct: 75  SDEKSVGVKTMRKILNILEEKNIQRGII-VFPGIMTPSARKVIVAMASQYKLEEFSEADL 133

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LVNIT H L P+H VLT ++K+ LL+KY ++E Q
Sbjct: 134 LVNITHHTLVPRHDVLTPEQKKNLLEKYRLKETQ 167


>gi|105923218|gb|ABF81464.1| TIR-NBS-LRR type disease resistance protein [Populus trichocarpa]
          Length = 1617

 Score = 93.6 bits (231), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 47/106 (44%), Positives = 72/106 (67%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKV 111
           M KDRGY VA +E+  S+ +FR+I+G  PD+D LR SIS +S+P  + LV+F G   ++ 
Sbjct: 1   MHKDRGYDVADTELTRSLMEFRSIFGNCPDLDSLRFSISLRSNPYNKNLVIFMGTDEIRT 60

Query: 112 NVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQ 157
             IR++  QI+++++  GLILILQ+++   A K    F FKV++FQ
Sbjct: 61  ANIRAVYGQILSKESRQGLILILQSKMNHFAKKEPEKFPFKVKVFQ 106


>gi|125548794|gb|EAY94616.1| hypothetical protein OsI_16393 [Oryza sativa Indica Group]
 gi|125590811|gb|EAZ31161.1| hypothetical protein OsJ_15260 [Oryza sativa Japonica Group]
          Length = 217

 Score = 93.6 bits (231), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 57/160 (35%), Positives = 93/160 (58%), Gaps = 3/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R +  RRTV++ML+DRGY V   +I+L   DF A +G   D D L  S   + + + 
Sbjct: 6   ETSRLFRIRRTVMQMLRDRGYLVTELDIDLPRGDFVARFGDPVDRDHLVFSRHKKDNGAD 65

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEM 155
           +I V F       V  IRS + ++       G IL++Q  +++ A  AV     +F +E+
Sbjct: 66  QIYVFFPKDAKPGVKTIRSYVERMKQESVFNG-ILVVQQALSAFARSAVQEVSQKFHLEV 124

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           FQ  +LLVNI  H L P+H++LT ++K+ LL++Y+++E Q
Sbjct: 125 FQEAELLVNIKDHTLVPEHELLTPEQKKTLLERYTVKETQ 164


>gi|17507947|ref|NP_491961.1| Protein RPB-5 [Caenorhabditis elegans]
 gi|54036433|sp|Q9N5K2.1|RPAB1_CAEEL RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=RPB5 homolog
 gi|351064177|emb|CCD72467.1| Protein RPB-5 [Caenorhabditis elegans]
          Length = 211

 Score = 93.2 bits (230), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 51/165 (30%), Positives = 98/165 (59%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ R +  R+TVL+M+ DRGY VA  E++  ++ F+  YG  P   +     L I ++H 
Sbjct: 7   ETYRLWRIRKTVLQMVHDRGYLVAQDELDQPLETFKVQYGDRPSEKKPARSDLTILVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++I  Q+  ++ ++  I+++Q  +T  A +++G    +
Sbjct: 67  DDPADQMFVFFPEDAKIGIKTIKAICQQMQEQN-ISRAIIVVQTGMTPSAKQSIGDMAPK 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +L+VNIT+H L P+H V+T +EK +LL +Y +++ Q
Sbjct: 126 YMLEHFLEAELMVNITEHELVPEHVVMTAEEKAELLARYKLKDSQ 170


>gi|367013608|ref|XP_003681304.1| hypothetical protein TDEL_0D05090 [Torulaspora delbrueckii]
 gi|359748964|emb|CCE92093.1| hypothetical protein TDEL_0D05090 [Torulaspora delbrueckii]
          Length = 215

 Score = 93.2 bits (230), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 62/170 (36%), Positives = 94/170 (55%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RT+ EM+KDRGY +A  EI LS++DF+  Y  D      R  +S QS+P+
Sbjct: 7   RNISRLWRTFRTMKEMVKDRGYFIAQEEIELSLEDFKVKYC-DSMGRPQRKMMSFQSNPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EESITKFPNLGSLWVEFCDEPTVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+++EK++LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFHEASLVVNITHHELVPKHIKLSEEEKKELLKRYRLKESQ 174


>gi|384497437|gb|EIE87928.1| hypothetical protein RO3G_12639 [Rhizopus delemar RA 99-880]
          Length = 188

 Score = 93.2 bits (230), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 56/148 (37%), Positives = 85/148 (57%), Gaps = 5/148 (3%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR--LRISISHQSDPSKRILVVFCGPGIV 109
           M+ DRGY V+ SE+++ ++ F+  +    DVDR  L   +  + DP+ ++LV F     V
Sbjct: 1   MVHDRGYLVSQSELDMDLESFKRTFAPSGDVDRDQLTFVVQKKDDPTDQLLVFFPKDPSV 60

Query: 110 KVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK--VEMFQITDLLVNITK 167
            V  +R  + ++  +    G I I Q  +TS A K +     K  +E FQ  +LLVNIT 
Sbjct: 61  GVKPLRVYVERMAQQQIPKG-ICIYQKSMTSSANKVIQQLPSKHTLESFQENELLVNITH 119

Query: 168 HVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           HVL PKH+VLT +EK  LL++Y ++E Q
Sbjct: 120 HVLVPKHEVLTAEEKSTLLQRYRLKETQ 147


>gi|328865416|gb|EGG13802.1| RapGAP/RanGAP domain-containing protein [Dictyostelium
           fasciculatum]
          Length = 1144

 Score = 92.8 bits (229), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 59/162 (36%), Positives = 92/162 (56%), Gaps = 9/162 (5%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQSDPSKRI 99
           R Y  R+T+L+ML DRGY +  SE+ L+ +DF+  +   +   + L  S + + D + RI
Sbjct: 6   RLYHIRKTILQMLSDRGYMITNSELELTKEDFKKDFTAHNNSREHLNSSYNKKDDAADRI 65

Query: 100 LVVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF----QFKV 153
              F  P  VKV V  IR  + Q+         I+I+Q+ +T+ A +A+  F    +  +
Sbjct: 66  FTFF--PADVKVGVTPIRKFVDQMKGPHGGNRAIIIVQSNLTAFAKQALSEFSQAKKIVL 123

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F   +LLVNIT H L PKH +LT +EK++LL +Y ++E Q
Sbjct: 124 EQFNEAELLVNITHHQLVPKHILLTKEEKKELLTRYKMKETQ 165


>gi|115440569|ref|NP_001044564.1| Os01g0805800 [Oryza sativa Japonica Group]
 gi|55296830|dbj|BAD68174.1| putative DNA-directed RNA polymerase II 23K chain [Oryza sativa
           Japonica Group]
 gi|113534095|dbj|BAF06478.1| Os01g0805800 [Oryza sativa Japonica Group]
 gi|215737136|dbj|BAG96065.1| unnamed protein product [Oryza sativa Japonica Group]
 gi|215765546|dbj|BAG87243.1| unnamed protein product [Oryza sativa Japonica Group]
 gi|218189238|gb|EEC71665.1| hypothetical protein OsI_04128 [Oryza sativa Indica Group]
          Length = 210

 Score = 92.8 bits (229), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 94/152 (61%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           RRTV++ML+DRGY V   E+ +  +DF   YG+    + L I+   ++DPS +I V F  
Sbjct: 19  RRTVMQMLRDRGYLVVEHELAMGRRDFLRKYGESFHREDLLINKYKKNDPSDQIYVFFPN 78

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKV--EMFQITDLLV 163
              V +  I+  + +++  + ++  +L+LQ  +T  A   +   + K+  E+FQ  +LL+
Sbjct: 79  DDKVGMKHIKKYV-EMMKAENVSRAVLVLQQNLTPFARSFLQELEPKIHLEIFQEAELLI 137

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI +HVL P+HQVL ++EK+ LL++Y+++E Q
Sbjct: 138 NIKEHVLVPEHQVLNNEEKKTLLERYTLKETQ 169


>gi|392576849|gb|EIW69979.1| hypothetical protein TREMEDRAFT_29545 [Tremella mesenterica DSM
           1558]
          Length = 218

 Score = 92.8 bits (229), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 60/172 (34%), Positives = 90/172 (52%), Gaps = 14/172 (8%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVD-----------RL 85
           R+  R +   RTV EM++DRGY VA  EI  S +DF+  +G    V+            +
Sbjct: 7   RELARLWRVSRTVHEMVRDRGYLVAEYEIEQSFEDFKDAHGSSGVVEMKKELIVNSRNNM 66

Query: 86  RISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKA 145
             +  H      R+LV FC    V  + I+  + Q+ +R    G ILI  +++ S A KA
Sbjct: 67  HFTCDHSERTGDRLLVWFCPERNVPKSSIKIFLGQMEHRSANKG-ILIHPDKMGSAANKA 125

Query: 146 VGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +   Q  + +E F   DLLVNIT+H L PKH ++  +EK  L+K+Y ++E Q
Sbjct: 126 MMEMQAEYHLESFSEADLLVNITRHFLVPKHTIMRPEEKAALIKRYRLKETQ 177


>gi|326492457|dbj|BAK02012.1| predicted protein [Hordeum vulgare subsp. vulgare]
 gi|326504136|dbj|BAK02854.1| predicted protein [Hordeum vulgare subsp. vulgare]
 gi|326511589|dbj|BAJ91939.1| predicted protein [Hordeum vulgare subsp. vulgare]
          Length = 210

 Score = 92.8 bits (229), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 96/152 (63%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           RRTV+ ML+DRGY V   E++++ +DF+  YG+    + + I+   ++DP+ +I V F  
Sbjct: 19  RRTVMHMLRDRGYLVVEHELSMTRRDFQRKYGETFHREDMLINKCKKNDPNDQIYVFFPN 78

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKV--EMFQITDLLV 163
              V +  I+  + +++N + ++  IL++Q  +T  A   +   + K+  E+FQ  ++L+
Sbjct: 79  DEKVGMKHIKKYV-EMMNAEKVSRAILVVQQNLTPFAKSFLQELEPKIHLEVFQDAEMLI 137

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI +HVL P+HQVL ++EK+ LL +Y+++E Q
Sbjct: 138 NIKEHVLVPEHQVLANEEKKTLLARYTLKETQ 169


>gi|341885241|gb|EGT41176.1| CBN-RPB-5 protein [Caenorhabditis brenneri]
 gi|341885706|gb|EGT41641.1| hypothetical protein CAEBREN_11585 [Caenorhabditis brenneri]
          Length = 211

 Score = 92.4 bits (228), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 98/165 (59%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ R +  R+TVL+M+ DRGY VA  E++  ++ F+  +G  P   +     L I ++H 
Sbjct: 7   ETYRLWRIRKTVLQMVHDRGYLVAQEELDQPLEHFKETFGDRPSEKKPARADLTILVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++I  Q+  ++ ++  I+++Q  +T  A +++G    +
Sbjct: 67  DDPADQMFVFFPDDTKIGIKTIKAICQQMQEQN-ISRAIIVVQTGMTPSAKQSIGDMAPK 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +L+VNIT+H L P+H V+T +EK +LL +Y +++ Q
Sbjct: 126 YMLEHFLEAELMVNITEHELVPEHVVMTSEEKAELLARYKLKDSQ 170


>gi|291000790|ref|XP_002682962.1| predicted protein [Naegleria gruberi]
 gi|284096590|gb|EFC50218.1| predicted protein [Naegleria gruberi]
          Length = 229

 Score = 92.4 bits (228), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 59/188 (31%), Positives = 100/188 (53%), Gaps = 24/188 (12%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD---------- 81
           ++N + +S R +  R+TVL+ML  RGY V  SE N+ + +F + +G  P+          
Sbjct: 1   MNNANSESYRLWRIRKTVLQMLDARGYMVLESEKNMDLAEFESKFGTGPNNVSQSGQARG 60

Query: 82  -----VDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILIL-- 134
                 DRL I  S   DPS+ I V F     + +  I+   S++ + +    ++++   
Sbjct: 61  YTTIGRDRLSIVTSMADDPSEMIFVFFPATKAIGMKQIKDYHSKMKDNNVKRAILVLRPA 120

Query: 135 ----QNQITSQATKAVGLFQ---FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
               Q  ++SQA +A+   Q   + +E F+ T+LLVNIT+HVL P+H  L   + E+LL+
Sbjct: 121 DSFQQKDLSSQAKRAIEALQAIGYILETFKETELLVNITEHVLVPQHVPLNKAQHEELLQ 180

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 181 RYKLKETQ 188


>gi|449462431|ref|XP_004148944.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
          Length = 207

 Score = 92.4 bits (228), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 52/161 (32%), Positives = 96/161 (59%), Gaps = 10/161 (6%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  R+TV +ML+DRGY V   EI+++ + F+  YG++   + + I+ S ++D S +I 
Sbjct: 10  RLFRIRKTVFQMLRDRGYFVGDFEIDMTREQFKQKYGENMKREDIVINKSKRNDSSDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN------QITSQATKAVGLFQFKVE 154
           V F     V +  +++  +++ + +    ++++ QN         S+AT       F +E
Sbjct: 70  VFFPEEAKVGIKPLKTYTTRMKSENVFRAILVVQQNLTPFARACMSEATSK----SFHLE 125

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +FQ  +LLVNI  HVL P+HQ+L ++EK+ LL++Y+++E Q
Sbjct: 126 VFQEAELLVNIKDHVLVPEHQLLNNEEKKTLLERYTVKETQ 166


>gi|268568358|ref|XP_002640230.1| C. briggsae CBR-RPB-5 protein [Caenorhabditis briggsae]
 gi|296439763|sp|A8XGH1.1|RPAB1_CAEBR RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=RPB5 homolog
          Length = 211

 Score = 92.0 bits (227), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 98/165 (59%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ R +  R+TVL+M+ DRGY VA  E++  ++ F+  +G  P   +     L I ++H 
Sbjct: 7   ETYRLWRIRKTVLQMVHDRGYLVAQEELDQPLETFKETFGDRPSEKKPARSDLTILVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++I  Q+  ++ ++  I+++Q  +T  A +++G    +
Sbjct: 67  DDPADQMFVFFPEDTKIGIKTIKAICQQMQEQN-ISRAIIVVQTGMTPSAKQSIGDMAPK 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +L+VNIT+H L P+H V+T +EK +LL +Y +++ Q
Sbjct: 126 YMLEHFLEAELMVNITEHELVPEHVVMTAEEKAELLARYKLKDSQ 170


>gi|410081459|ref|XP_003958309.1| hypothetical protein KAFR_0G01400 [Kazachstania africana CBS 2517]
 gi|372464897|emb|CCF59174.1| hypothetical protein KAFR_0G01400 [Kazachstania africana CBS 2517]
          Length = 215

 Score = 91.7 bits (226), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 64/170 (37%), Positives = 94/170 (55%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + +TV EM+KDRGY V   EI+LS++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNIRRLWRTFKTVKEMVKDRGYFVNDEEIDLSLEDFKAKYS-DSMGRPQRKMMSFQANPN 65

Query: 97  KRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
              L          V FC    V V  +++ +  I  ++  TG I I QN +T  A K V
Sbjct: 66  DEFLAKFPDLGSLWVEFCDEPSVGVKTMKNFVVHIQEKNYSTG-IFIYQNNVTPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E FQ   L+VNIT H L PKH  L+ +EK++LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFQEASLVVNITHHELVPKHIRLSLEEKKELLKRYRLKESQ 174


>gi|156848515|ref|XP_001647139.1| hypothetical protein Kpol_1036p23 [Vanderwaltozyma polyspora DSM
           70294]
 gi|156117823|gb|EDO19281.1| hypothetical protein Kpol_1036p23 [Vanderwaltozyma polyspora DSM
           70294]
          Length = 215

 Score = 91.7 bits (226), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 63/176 (35%), Positives = 97/176 (55%), Gaps = 14/176 (7%)

Query: 32  VDNGSRDSL-RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISIS 90
           +D  S  S+ R + + RTV EM++DRGY +A  EI+LS++DF+A Y  D      R  +S
Sbjct: 1   MDQDSERSISRLWRTFRTVKEMVRDRGYFIAQEEIDLSLEDFKAKYC-DSMGRPQRKMMS 59

Query: 91  HQSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITS 140
            Q++P++  +          V FC    V V  +++ +  I  ++  TG I + Q  +T 
Sbjct: 60  FQANPTEETMEKFPTMSSLWVEFCDEPSVGVKTMKNFVIHIQEKNYQTG-IFVYQTNVTP 118

Query: 141 QATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            A K V  +    +E F    L+VNIT H L PKH  L++ EK++LLKKY ++E Q
Sbjct: 119 SAMKLVPSIPPATIETFHEASLIVNITHHELVPKHIRLSENEKKELLKKYRLKESQ 174


>gi|449450868|ref|XP_004143184.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
 gi|449524595|ref|XP_004169307.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
          Length = 207

 Score = 91.3 bits (225), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 53/153 (34%), Positives = 93/153 (60%), Gaps = 4/153 (2%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+TVL+MLKDRGY V   E+++S   F+  +G++   + L I+ S +++ S +I V F  
Sbjct: 15  RKTVLQMLKDRGYFVGDFELDMSKVQFKNKFGENMKREDLVINKSKRNNSSDQIYVFFPE 74

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF---QFKVEMFQITDLL 162
              V + ++ + + ++ + +     I ++Q  +T  A   +      +  +E+FQ T+LL
Sbjct: 75  EPKVGIKIVETYVGRMKSENVFRA-IFVVQLNLTPFARNKIAELSSSKLHLEVFQETELL 133

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           VNI +HVL P+HQ LTD+EK+ LL +Y+++E Q
Sbjct: 134 VNIKEHVLIPEHQTLTDEEKKTLLGRYTVKETQ 166


>gi|312095335|ref|XP_003148322.1| RPB-5 protein [Loa loa]
 gi|307756513|gb|EFO15747.1| DNA-directed RNA polymerase I [Loa loa]
          Length = 211

 Score = 91.3 bits (225), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 97/165 (58%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-----QDPDVDRLRISISHQ 92
           ++ + +  R+T+++M  DRGY V   E++ ++++F+  +G     + P  + L + ++H 
Sbjct: 7   ETYKLWRVRKTIMQMCHDRGYLVTQEELDQTLENFKETFGDKPSERHPSRNELTVLVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++I  Q+     +T  I+++Q  +T  A +A+     +
Sbjct: 67  DDPTDQMFVFFPEDSKIGIKTIKAICQQM-QEQAITRAIIVVQTGMTPSAKQAIADMAPK 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +L+VNIT+H L P+H V+T++EK +LL +Y +++ Q
Sbjct: 126 YTLEQFLEAELMVNITEHELVPEHVVMTNEEKNELLGRYKLKDTQ 170


>gi|222619416|gb|EEE55548.1| hypothetical protein OsJ_03801 [Oryza sativa Japonica Group]
          Length = 210

 Score = 91.3 bits (225), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 93/152 (61%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           RRTV++ML+DRGY V   E+ +  +DF   YG+    + L I+   ++DPS +I V F  
Sbjct: 19  RRTVMQMLRDRGYLVVEHELAMGRRDFLRKYGESFHREDLLINKYKKNDPSDQIYVFFPN 78

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKV--EMFQITDLLV 163
              V +  I+  + +++  + ++  +L+LQ  +T  A   +   + K+  E+FQ  +LL+
Sbjct: 79  DDKVGMKHIKKYV-EMMKAENVSRAVLVLQQNLTPFARSFLQELEPKIHLEIFQEAELLI 137

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI +HVL P+HQVL + EK+ LL++Y+++E Q
Sbjct: 138 NIKEHVLVPEHQVLNNGEKKTLLERYTLKETQ 169


>gi|241017563|gb|ACS66689.1| RNA polymerase II B subunit [Caenorhabditis brenneri]
          Length = 211

 Score = 90.9 bits (224), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 97/165 (58%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ R +  R+TVL+M+ DRGY VA  E++  +  F+  +G  P   +     L I ++H 
Sbjct: 7   ETYRLWRIRKTVLQMVHDRGYLVAQEELDQPLGHFKETFGDRPSEKKPARADLTILVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++I  Q+  ++ ++  I+++Q  +T  A +++G    +
Sbjct: 67  DDPADQMFVFFPDDTKIGIKTIKAICQQMQEQN-ISRAIIVVQTGMTPSAKQSIGDMAPK 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +L+VNIT+H L P+H V+T +EK +LL +Y +++ Q
Sbjct: 126 YMLEHFLEAELMVNITEHELVPEHVVMTSEEKAELLARYKLKDSQ 170


>gi|409078308|gb|EKM78671.1| hypothetical protein AGABI1DRAFT_114282, partial [Agaricus bisporus
           var. burnettii JB137-S8]
 gi|426199299|gb|EKV49224.1| hypothetical protein AGABI2DRAFT_191302, partial [Agaricus bisporus
           var. bisporus H97]
          Length = 208

 Score = 90.9 bits (224), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 52/153 (33%), Positives = 88/153 (57%), Gaps = 4/153 (2%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP---DVDRLRISISHQSDPSKRILVVF 103
           RT+ E+++DRG+ V+  EI++ +Q FR  Y  +    D ++L    + +++P+ +I V F
Sbjct: 15  RTIHELVRDRGFLVSDEEIHMDLQHFRDQYANNSGMVDRNQLNFYTTSRANPTDQIFVYF 74

Query: 104 CGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL-FQFKVEMFQITDLL 162
                V V  +R ++S +  +    G+I+   N   S     V +  Q+++E F   DLL
Sbjct: 75  TDERSVGVKTMRKLLSILEEKSIQRGIIVFPGNMTPSARKVIVAMSAQYRLEEFSEADLL 134

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           VNI  H L P+H+VLT +EK+ LL+KY ++E Q
Sbjct: 135 VNIVHHTLVPRHEVLTPEEKKVLLEKYRLKETQ 167


>gi|255085448|ref|XP_002505155.1| predicted protein [Micromonas sp. RCC299]
 gi|226520424|gb|ACO66413.1| predicted protein [Micromonas sp. RCC299]
          Length = 204

 Score = 90.5 bits (223), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 90/163 (55%), Gaps = 4/163 (2%)

Query: 36  SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDP 95
           S    R +  R+TV +ML  RGY VA +E++     F   +G+DP  D L +    + DP
Sbjct: 2   SEKKTRLFRIRKTVCKMLNARGYLVAQAELDRDKDSFTEEFGEDPRRDALTLQFDLREDP 61

Query: 96  SKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ---FK 152
           ++ I V F     V V  I+    ++ + + +   I+++Q  +T  A +++   Q   F 
Sbjct: 62  TQHIFVFFPDEEKVGVKTIKEYAKRMKD-EQVNRAIIVVQQSLTPFARQSLLECQAQKFY 120

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +E FQ  +LLVNIT HVL P+H +L+D++K  LL +Y ++E Q
Sbjct: 121 IEQFQEAELLVNITDHVLVPEHILLSDEQKRVLLDRYKVKETQ 163


>gi|58259413|ref|XP_567119.1| DNA-directed RNA polymerases ii 24 kda polypeptide [Cryptococcus
           neoformans var. neoformans JEC21]
 gi|134107497|ref|XP_777633.1| hypothetical protein CNBA7540 [Cryptococcus neoformans var.
           neoformans B-3501A]
 gi|50260327|gb|EAL22986.1| hypothetical protein CNBA7540 [Cryptococcus neoformans var.
           neoformans B-3501A]
 gi|57223256|gb|AAW41300.1| DNA-directed RNA polymerases ii 24 kda polypeptide, putative
           [Cryptococcus neoformans var. neoformans JEC21]
          Length = 221

 Score = 90.5 bits (223), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 57/179 (31%), Positives = 93/179 (51%), Gaps = 17/179 (9%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD--------PDVDR 84
           +  +R+  R +   RTV EM++DRGY +A  EIN+S ++F+  +G          P  D+
Sbjct: 3   NEANRELARLWRVSRTVHEMVRDRGYLLADYEINVSFEEFKDRHGATGSVEWMKCPQADK 62

Query: 85  ------LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQI 138
                 +     H++D + +I V FC    V    +++ I  +       G+I I   ++
Sbjct: 63  SSSRSNMSFDAIHENDNTDKIFVYFCADKNVSKASMKTFIGSMDKMGARRGII-IWSEKM 121

Query: 139 TSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +  A K +   Q  + +E F  +DLLVNITKH L PKH V+  +EK  L+K+Y ++E Q
Sbjct: 122 SPAAKKTLQEMQSEYHLEDFPESDLLVNITKHFLVPKHTVMKPEEKSALIKRYRLKETQ 180


>gi|255718861|ref|XP_002555711.1| KLTH0G15598p [Lachancea thermotolerans]
 gi|238937095|emb|CAR25274.1| KLTH0G15598p [Lachancea thermotolerans CBS 6340]
          Length = 215

 Score = 90.5 bits (223), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 58/170 (34%), Positives = 94/170 (55%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + +TV EM++DRGY +   E++LS++DF+A Y  D      R  +S QS+P 
Sbjct: 7   RNVSRLWRAFKTVKEMVRDRGYFITQEEVDLSLEDFKAKYC-DSMGRPQRKMMSFQSNPV 65

Query: 97  KRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +  L          V FC    V +  +++ +  I  ++  TG I + QN +T  A K +
Sbjct: 66  EEALEKFPNMGSLWVEFCDEASVGIKTMKNFVIHISEKNFQTG-IFVYQNGVTPSAMKLL 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+D+EK++LL++Y ++E Q
Sbjct: 125 PSVAPATIETFHEASLVVNITHHELVPKHIKLSDEEKKELLRRYRLKESQ 174


>gi|393221284|gb|EJD06769.1| RPB5 subunit of DNA-directed RNA polymerase [Fomitiporia
           mediterranea MF3/22]
          Length = 212

 Score = 90.1 bits (222), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 53/166 (31%), Positives = 93/166 (56%), Gaps = 6/166 (3%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP---DVDRLRISISH 91
           G  ++ R +   RT+ E++KDRG+ V+  EI + +  F+  +       D ++L    +H
Sbjct: 7   GPDEAARLWRVNRTIHELIKDRGFQVSDEEIEVDLVTFKQQFANSSGSVDRNQLNFFATH 66

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-- 149
           +SDPS  I + F     V +  ++ +   I+   ++   I+I    +T  A K +     
Sbjct: 67  ESDPSDHIFIYFSDQKSVGIKTMQKVCI-ILEEKSINKGIVIFPGTMTPSARKFIVQMSV 125

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++++E F  +DLLVNIT+H+L P H+VLT +EK+ LL+KY ++E Q
Sbjct: 126 RYRLEEFSESDLLVNITRHILVPHHEVLTPEEKDTLLEKYRLKETQ 171


>gi|363753390|ref|XP_003646911.1| hypothetical protein Ecym_5335 [Eremothecium cymbalariae
           DBVPG#7215]
 gi|356890547|gb|AET40094.1| hypothetical protein Ecym_5335 [Eremothecium cymbalariae
           DBVPG#7215]
          Length = 215

 Score = 90.1 bits (222), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 60/173 (34%), Positives = 94/173 (54%), Gaps = 13/173 (7%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS 93
           +  R+  R + + RTV EM++DRGY +   EI+L++ DF+A Y  D      R  +S QS
Sbjct: 4   HNERNVSRLWRAFRTVKEMVRDRGYFITQEEIDLALDDFKAKYC-DSMGRPQRKMMSFQS 62

Query: 94  DPSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
           +P++           + + FC    V +  +++ +  I  ++  TG I I QN IT  A 
Sbjct: 63  NPTEESIVKSPQMGSVWIEFCDEPSVGIKTMKNFVIHIGEKNFQTG-IFIYQNGITPSAL 121

Query: 144 KAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           K +  +    +E F    L+VNIT H L PKH  L+D+EK +LLK+Y ++E Q
Sbjct: 122 KLLPSVAPATIETFNEASLVVNITHHELVPKHIKLSDEEKRELLKRYRLKESQ 174


>gi|406605852|emb|CCH42738.1| DNA-directed RNA polymerase [Wickerhamomyces ciferrii]
          Length = 215

 Score = 90.1 bits (222), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 61/166 (36%), Positives = 90/166 (54%), Gaps = 13/166 (7%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R + + RTV EM  DRGY +A  EI +++++FR+ Y  D      R  +S Q+ P+   L
Sbjct: 11  RLWRAFRTVKEMALDRGYFIATEEITMNLEEFRSKYC-DAMGRPQRKLMSFQASPTSESL 69

Query: 101 ----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ 150
                     V FC    V +  +++ +  I  ++   G I I QN IT  A K +    
Sbjct: 70  GQFPNMGSLWVEFCDEASVGIKTMKNFVIHISEKNFSVG-IFIYQNGITPSANKLIPTVA 128

Query: 151 FKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             V E FQ +DL+VNIT H L PKH VL+D EK++LL++Y ++E Q
Sbjct: 129 PAVIETFQESDLIVNITHHELVPKHIVLSDDEKKELLERYRLKESQ 174


>gi|301106302|ref|XP_002902234.1| DNA-directed RNA polymerase I, II, and III subunit RPABC1, putative
           [Phytophthora infestans T30-4]
 gi|262098854|gb|EEY56906.1| DNA-directed RNA polymerase I, II, and III subunit RPABC1, putative
           [Phytophthora infestans T30-4]
          Length = 206

 Score = 90.1 bits (222), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 54/160 (33%), Positives = 94/160 (58%), Gaps = 3/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R Y  R+T ++ML +R Y V+ +E+ ++ + F+  +G +P  + + I +    DPS 
Sbjct: 7   EASRLYRVRKTTVKMLHNRSYIVSENELVMTPEAFQTQFGDNPTREMMTILVEKIDDPSD 66

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEM 155
            + V F     V V  IR+  +++ + + +T  IL++Q  IT  A +A+     ++K+E 
Sbjct: 67  NLFVFFPEDTKVGVKPIRNYCNRMKD-ENVTKAILVVQEGITPFARQALNEMAPRYKIEH 125

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F+ T+LLV+IT+H L P H+VL   EK  LLK+Y I + Q
Sbjct: 126 FKETELLVDITEHTLVPVHRVLDRNEKAALLKRYRIRDSQ 165


>gi|254578454|ref|XP_002495213.1| ZYRO0B06006p [Zygosaccharomyces rouxii]
 gi|238938103|emb|CAR26280.1| ZYRO0B06006p [Zygosaccharomyces rouxii]
          Length = 215

 Score = 89.7 bits (221), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 91/170 (53%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + +TV EM+KDRGY +A  EI L ++DF+A Y  D      R  +S QS+P+
Sbjct: 7   RNISRLWRTFKTVKEMVKDRGYFIAQEEIELPLEDFKAKYC-DSMGRPQRKMMSFQSNPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN +T  A K V
Sbjct: 66  EESIAKFPSMGSLWVEFCDEPTVGVKTMKTFVIHIQEKNFQTG-IFVYQNNVTPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH   ++ EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFHEASLVVNITHHELVPKHIRFSEDEKRELLKRYRLKESQ 174


>gi|448112295|ref|XP_004202060.1| Piso0_001533 [Millerozyma farinosa CBS 7064]
 gi|359465049|emb|CCE88754.1| Piso0_001533 [Millerozyma farinosa CBS 7064]
          Length = 214

 Score = 89.7 bits (221), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 59/175 (33%), Positives = 92/175 (52%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R   R + + +TV EM++DRGY +   EI +S+ +FRA       + + R+ +  
Sbjct: 1   MDDNDRTVSRLWRTFKTVKEMVRDRGYYITQEEIEMSLDEFRAHVCDSMGIPQRRL-MCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q++P+   L          V FC    V +  +R+    I  ++  TG I I Q  IT  
Sbjct: 60  QANPTAEALEKFPSLGSLWVEFCDEASVGIKTMRNFCIHISEKNFSTG-IFIYQASITPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ATK +       +E FQ +DL+VNIT H L PKH  L+  EK++LL +Y ++E Q
Sbjct: 119 ATKLIPTVSPASIETFQESDLVVNITHHELVPKHIKLSKDEKKELLDRYRLKESQ 173


>gi|357125497|ref|XP_003564430.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Brachypodium distachyon]
          Length = 210

 Score = 89.7 bits (221), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 94/152 (61%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R TV+ ML+DRGY V   E+ ++ +DF   YG+    + L I+   ++DP+ +I V F  
Sbjct: 19  RSTVMHMLRDRGYLVVEHELAMTRRDFERKYGESFHREDLLINKCKKNDPNDQIYVFFPN 78

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKV--EMFQITDLLV 163
              V +  I+  + +++N + ++  ++++Q  +T  A   +   + K+  E+FQ  ++L+
Sbjct: 79  DEKVGMKHIKKYV-EMMNAEKVSRAVVVVQQNLTPFAKSFLQELEPKIHLEVFQDAEMLI 137

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI +HVL P+HQVLT+ EK+ LL++Y+++E Q
Sbjct: 138 NIKEHVLVPEHQVLTNDEKKTLLERYTLKETQ 169


>gi|164656180|ref|XP_001729218.1| hypothetical protein MGL_3685 [Malassezia globosa CBS 7966]
 gi|159103108|gb|EDP42004.1| hypothetical protein MGL_3685 [Malassezia globosa CBS 7966]
          Length = 159

 Score = 89.7 bits (221), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 56/159 (35%), Positives = 89/159 (55%), Gaps = 5/159 (3%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISI--SH 91
           N  R++ R +   RT+ E++ DRGY V+  E+N+ +  F+A    +  VDR R++    H
Sbjct: 2   NDDRETARLWRVNRTIHELVADRGYEVSEEELNVDLDTFKAEVTSNGIVDRNRMNFFTQH 61

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL--F 149
           +  P +R+ V +     V V  +R  I+ I+    +T  I+I  +++TS A K +     
Sbjct: 62  KDKPEERLFVFYSTERNVGVKTMRQFIN-ILEEKNITRGIIIWSDKMTSAAKKVIEAMRL 120

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           Q  +E F+   LLVNIT H L PKH+VLT  EK++LL +
Sbjct: 121 QLVLEDFEEAFLLVNITHHQLVPKHEVLTPDEKKELLHR 159


>gi|449019061|dbj|BAM82463.1| RNA polymerase I, II, III common subunit [Cyanidioschyzon merolae
           strain 10D]
          Length = 211

 Score = 89.4 bits (220), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 61/171 (35%), Positives = 99/171 (57%), Gaps = 12/171 (7%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAV--ALSEINLSVQDFRAIYGQDPDVDRLRISIS 90
           D  + ++ R +  RRT+LEML+DRGY V    +++ L +++F   +       R R S++
Sbjct: 4   DIQADETRRLHRIRRTILEMLRDRGYLVLPTKTDLELPLEEFAHKFDA---AGRARESLT 60

Query: 91  ----HQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
               H++D S +I V F     V V  IR    ++   + L  +I++ Q  +T  A +AV
Sbjct: 61  MLRQHRNDRSNQIYVFFPKEEKVGVKPIREYCLRLETENVLRAIIVV-QTGLTPIAKQAV 119

Query: 147 GLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              Q  F +E+FQ  +LLVNIT+H L PKH+VLT ++K+ LLK+Y +++ Q
Sbjct: 120 AELQPRFHLELFQEAELLVNITRHQLVPKHEVLTAEQKKTLLKRYQLKDTQ 170


>gi|440803359|gb|ELR24265.1| RNA polymerase Rpb5, Cterminal domain containing protein
           [Acanthamoeba castellanii str. Neff]
          Length = 204

 Score = 89.4 bits (220), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 53/159 (33%), Positives = 95/159 (59%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR--LRISISHQSDPSKR 98
           R +L R+TVL+ML+DRGY V  S++++    FR+ +  +  ++R  L + +  + DP+ +
Sbjct: 6   RVFLVRKTVLQMLQDRGYIVPQSDLDMDRDSFRSKFMGESALNREALTLLMQKKDDPTDQ 65

Query: 99  ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMF 156
           I V +     V V  ++    ++   + +   I+I+Q  +T+ A +       ++ +E F
Sbjct: 66  IFVFWPEDLKVGVRPVKKYCDRM-KEEAVFRAIVIIQQTLTAFAKQVFAEMAPRYTIEHF 124

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           Q  +LLVNIT+H+L PKH++LT+ EK+ LL KY +E+ Q
Sbjct: 125 QEAELLVNITEHILVPKHKLLTELEKQTLLAKYKLEDSQ 163


>gi|308505230|ref|XP_003114798.1| CRE-RPB-5 protein [Caenorhabditis remanei]
 gi|308258980|gb|EFP02933.1| CRE-RPB-5 protein [Caenorhabditis remanei]
          Length = 211

 Score = 89.4 bits (220), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 97/165 (58%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ R +  R+TVL+M+ DRGY VA  E++  ++ F+  YG  P   +     L I ++H 
Sbjct: 7   ETYRLWRIRKTVLQMVHDRGYLVAQEELDQPLETFKEQYGDRPSEKKPARSDLTILVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++I  Q+  ++ ++  ++++Q  +T  A +++G    +
Sbjct: 67  DDPADQMFVFFPEDTKIGIKTIKAICQQMQEQN-ISRAVIVVQIGMTPSAKQSIGDMAPK 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +L+VNIT+H L P+H V+T  EK +LL +Y +++ Q
Sbjct: 126 YMLEHFLEAELMVNITEHELVPEHVVMTADEKAELLARYKLKDSQ 170


>gi|448114850|ref|XP_004202684.1| Piso0_001533 [Millerozyma farinosa CBS 7064]
 gi|359383552|emb|CCE79468.1| Piso0_001533 [Millerozyma farinosa CBS 7064]
          Length = 214

 Score = 89.4 bits (220), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 59/175 (33%), Positives = 92/175 (52%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R   R + + +TV EM++DRGY +   EI +S+ +FRA       + + R+ +  
Sbjct: 1   MDDNDRTVTRLWRTFKTVKEMVRDRGYYITQEEIEMSLDEFRAHVCDSMGIPQRRL-MCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q++P+   L          V FC    V +  +R+    I  ++  TG I I Q  IT  
Sbjct: 60  QANPTAEELEKFPSLGSLWVEFCDEASVGIKTMRNFCIHISEKNFSTG-IFIYQASITPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ATK +       +E FQ +DL+VNIT H L PKH  L+  EK++LL +Y ++E Q
Sbjct: 119 ATKLIPTVSPASIETFQESDLVVNITHHELVPKHIKLSKDEKKELLDRYRLKESQ 173


>gi|389742519|gb|EIM83705.1| DNA-directed RNA polymerase RPB5 subunit [Stereum hirsutum FP-91666
           SS1]
          Length = 209

 Score = 89.4 bits (220), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 57/153 (37%), Positives = 87/153 (56%), Gaps = 5/153 (3%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQSDPSKRILVVF 103
           RT+ E++KDRGY VA  EI++ +  F++ Y   G   D ++L    + + +  + I V F
Sbjct: 17  RTIHELVKDRGYQVADDEIHMDLTTFKSHYANSGGSVDRNQLNFFTNLRVNVEEHIFVFF 76

Query: 104 CGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKA-VGLFQFKVEMFQITDLL 162
                V V  +R ++ QI+    +   I+I    +T  A K  V + +FKVE F   DLL
Sbjct: 77  SDEKSVGVKTMRKLL-QIMTEKNIRRGIIIFPGIMTPAARKVIVSMAEFKVEEFSEADLL 135

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           VNIT H L P+H VLT +EK+ LL++Y ++E Q
Sbjct: 136 VNITHHKLVPRHDVLTTEEKKMLLERYRLKETQ 168


>gi|320582063|gb|EFW96281.1| RNA polymerase subunit ABC27 [Ogataea parapolymorpha DL-1]
          Length = 214

 Score = 89.0 bits (219), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 97/175 (55%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R + R + + RTV EM++DRGY +   EI++S+  FR        + + ++ +S 
Sbjct: 1   MDDIERTTSRLWRAYRTVKEMVRDRGYYITQEEIDISLDQFREKICDSMGMPQRKL-MSF 59

Query: 92  QSDPSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q++ S+           + V FC    V +  +++    I +++  TG I I Q  +T  
Sbjct: 60  QANASQEAAEKYGDLGPLWVEFCDEPSVGITTMKNFCQHIADKNFATG-IFIYQQNMTPS 118

Query: 142 ATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ATKA+ + +  + E FQ  D++VNIT H L PKH  L+ +EK++LL +Y ++E Q
Sbjct: 119 ATKAIAVAEPAIIETFQEADIIVNITHHELVPKHIRLSTEEKKELLARYRLKESQ 173


>gi|324521545|gb|ADY47878.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Ascaris
           suum]
          Length = 211

 Score = 89.0 bits (219), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 95/165 (57%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-----QDPDVDRLRISISHQ 92
           ++ + +  R+TV++M  DRGY V   E++ ++ +F+  +G     + P  + L I ++H 
Sbjct: 7   ETYKLWRVRKTVMQMCHDRGYLVTQEELDQTLDNFKETFGDKPSERKPGRNELTILVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++I  Q+     +T  I+++Q  +T  A +A+     +
Sbjct: 67  DDPTDQMFVFFPEDAKIGIKTIKAICQQM-QEQAITRAIIVVQAGMTPSAKQAITDMAPK 125

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +L+VNIT+H L P+H V+ ++EK +LL +Y +++ Q
Sbjct: 126 YTLEQFLEAELMVNITEHELVPEHVVMNNEEKTELLARYKLKDTQ 170


>gi|297738790|emb|CBI28035.3| unnamed protein product [Vitis vinifera]
          Length = 186

 Score = 88.6 bits (218), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/146 (35%), Positives = 89/146 (60%), Gaps = 3/146 (2%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKV 111
           MLKDRGY V   EIN++   F + +G++   + L I+ + ++D S +I V F     V V
Sbjct: 1   MLKDRGYFVGDFEINMTKHQFVSKFGENMKREDLVINKAKRTDSSDQIYVFFPEEQKVGV 60

Query: 112 NVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHV 169
             +++  +++ + +     IL++Q  +T  A   +     +F +E+FQ  +LLVNI +HV
Sbjct: 61  KTMKTYTNRMKSENVFRA-ILVVQQNLTPFARTCINEISTKFHLEVFQEAELLVNIKEHV 119

Query: 170 LKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           L P+HQVLT +EK+ LL++Y+++E Q
Sbjct: 120 LVPEHQVLTSEEKKTLLERYTVKETQ 145


>gi|12229927|sp|Q9P4B9.1|RPAB1_KLUMA RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1
 gi|9651716|gb|AAF91238.1|AF225206_4 RNA polymerase subunit [Kluyveromyces marxianus]
          Length = 215

 Score = 88.6 bits (218), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 61/166 (36%), Positives = 90/166 (54%), Gaps = 13/166 (7%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKR-- 98
           R + + RTV EM++DRGY +   EI+LS++DF+  Y  D      R  +S QS+P++   
Sbjct: 11  RLWRAFRTVKEMVRDRGYFITQEEIDLSLEDFKVKYC-DSMGKPQRKMMSFQSNPTEESI 69

Query: 99  --------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ 150
                   + V FC    V V  +++ +  I  ++  TG I I Q+ IT  A K +    
Sbjct: 70  EKFPEMGSLWVEFCDEASVGVKTMKNFVVHITEKNFQTG-IFIYQSGITPSANKILPTAA 128

Query: 151 FKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             V E F    L+VNIT H L PKH  L+D EK++LLK+Y ++E Q
Sbjct: 129 PAVIETFPEASLVVNITHHELVPKHIRLSDAEKKELLKRYRLKESQ 174


>gi|449502080|ref|XP_004161536.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cucumis sativus]
          Length = 208

 Score = 88.2 bits (217), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/163 (31%), Positives = 98/163 (60%), Gaps = 13/163 (7%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  R+TV +ML+DRGY V   EI+++ + F+  YG++   + + I+ S ++D S ++ 
Sbjct: 10  RLFRIRKTVFQMLRDRGYFVGDFEIDMTREQFKQKYGENMKREDIVINKSKRNDSSDQVY 69

Query: 101 VVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQN------QITSQATKAVGLFQFK 152
           + F  P   KV +  +++  +++ + +    ++++ QN         S+AT       F 
Sbjct: 70  ICFF-PEEAKVGIKPLKTYTTRMKSENVFRAILVVQQNLTPFARACMSEATSK----SFH 124

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +E+FQ  +LLVNI  HVL P+HQ+L ++EK+ LL++Y+++E Q
Sbjct: 125 LEVFQEAELLVNIKDHVLVPEHQLLNNEEKKTLLERYTVKETQ 167


>gi|50311991|ref|XP_456027.1| hypothetical protein [Kluyveromyces lactis NRRL Y-1140]
 gi|54036341|sp|Q6CJ62.1|RPAB1_KLULA RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1
 gi|49645163|emb|CAG98735.1| KLLA0F21098p [Kluyveromyces lactis]
          Length = 215

 Score = 88.2 bits (217), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 61/170 (35%), Positives = 93/170 (54%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + +TV EM++DRGY +   EI+LS++DF+A Y  D      R  +S QS+P+
Sbjct: 7   RNISRLWRAFKTVKEMVRDRGYFITQEEIDLSLEDFKAKYC-DSMGKPQRKMMSFQSNPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I I Q+ IT  A K +
Sbjct: 66  EESIEKFPEMGSLWVEFCDEASVGVKTMKNFVVHITEKNFQTG-IFIYQSGITPSANKIL 124

Query: 147 GLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
                 V E F    L+VNIT H L PKH  L++ EK++LLK+Y ++E Q
Sbjct: 125 PTAAPAVIETFPEASLVVNITHHELVPKHIRLSEAEKKELLKRYRLKESQ 174


>gi|290878169|emb|CBK39228.1| Rpb5p [Saccharomyces cerevisiae EC1118]
          Length = 215

 Score = 88.2 bits (217), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 91/170 (53%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L++ EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFNEAALVVNITHHELVPKHIRLSNDEKRELLKRYRLKESQ 174


>gi|72109111|ref|XP_783584.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 2 [Strongylocentrotus purpuratus]
 gi|390354452|ref|XP_003728337.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 1 [Strongylocentrotus purpuratus]
          Length = 210

 Score = 87.8 bits (216), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           N   ++ R +  RRT++++  DRGY V   E++ +++ F+  +G  P  +R     L + 
Sbjct: 2   NDEAETYRLWRVRRTIMQLCHDRGYLVTQEELDQTLEQFKEQFGDKPSENRPSRKDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I++   Q +  + +T  I+ +Q ++T  A  ++G 
Sbjct: 62  VAHNDDPTDQMFVFFPEEKKVGMKTIKAY-CQRMQEENITRAIITVQEKMTPSAKTSLGD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H   P+H V+T +EK +LL +Y +++ Q
Sbjct: 121 MAPKYILEQFLEAELLINITEHDFVPEHVVMTGEEKAELLARYKLKDHQ 169


>gi|365982519|ref|XP_003668093.1| hypothetical protein NDAI_0A06960 [Naumovozyma dairenensis CBS 421]
 gi|343766859|emb|CCD22850.1| hypothetical protein NDAI_0A06960 [Naumovozyma dairenensis CBS 421]
          Length = 215

 Score = 87.8 bits (216), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 58/170 (34%), Positives = 93/170 (54%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM++DRGY +   E++LS++DF+A Y  D      R  +S QS+P+
Sbjct: 7   RNISRLWRTFRTVKEMVRDRGYFITQEEVDLSLEDFKAKYC-DSMGRPQRKMMSFQSNPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           +   FC    V V  +++ +  I  ++  TG I + Q  +T  A K V
Sbjct: 66  EESIAKFPDMGSLWAEFCDEESVGVKTMKNFVIHIQEKNFQTG-IFVYQTNVTPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+++EK++LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFHEASLVVNITHHELVPKHIKLSEEEKKELLKRYRLKESQ 174


>gi|358054002|dbj|GAA99801.1| hypothetical protein E5Q_06504 [Mixia osmundae IAM 14324]
          Length = 298

 Score = 87.8 bits (216), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 55/174 (31%), Positives = 93/174 (53%), Gaps = 12/174 (6%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISI--- 89
           D+  RD  R +   RTV E+ +DRGY ++  EIN+S+Q F   Y  +  +DR  ++    
Sbjct: 3   DDTERDIARVWRVNRTVRELCRDRGYTMSEQEINMSLQKFTESYTMNGHLDRTALNFHAS 62

Query: 90  ------SHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
                   +    ++I V F     + +  +R  ++ +++R+  +G ILI +  IT  A 
Sbjct: 63  RHVPVAGREETEVQQIYVFFAEERSLGIKPVREFLTVLLDRNLHSG-ILIYKQSITPPAL 121

Query: 144 KAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +A+         E    ++LLVNIT+H L PKH+VL+  +K +LLKKY +++ Q
Sbjct: 122 RALAQAGQHTTAEALSESELLVNITQHTLVPKHEVLSPMDKAELLKKYRLKDTQ 175


>gi|331224607|ref|XP_003324975.1| DNA-directed RNA polymerase II subunit E [Puccinia graminis f. sp.
           tritici CRL 75-36-700-3]
 gi|309303965|gb|EFP80556.1| DNA-directed RNA polymerase II subunit E [Puccinia graminis f. sp.
           tritici CRL 75-36-700-3]
          Length = 204

 Score = 87.8 bits (216), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 95/163 (58%), Gaps = 8/163 (4%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-LRISISH-QSD 94
           R+  R +   RT+ E+++DRGY V+ +EIN+S+ +F+A    DP  ++  R++ +    +
Sbjct: 5   REVSRLHRVNRTIKELVRDRGYEVSDAEINVSLDEFKA---SDPISNKSTRLNFAAINPE 61

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFK 152
            ++ I V +     V +  +R  IS I++   L   ILI    +T  A K +     QF 
Sbjct: 62  TNQGIYVYYSDEKSVGIKTMRKFIS-ILDEKKLESGILIYSQAMTPSANKVIASMAQQFT 120

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +E FQ  +LLVNIT+H++ PKH+V+  +EK+ LL +Y +++ Q
Sbjct: 121 LEAFQEAELLVNITRHIMVPKHEVMKPEEKKALLARYRLKDTQ 163


>gi|71019505|ref|XP_759983.1| hypothetical protein UM03836.1 [Ustilago maydis 521]
 gi|46099489|gb|EAK84722.1| hypothetical protein UM03836.1 [Ustilago maydis 521]
          Length = 554

 Score = 87.4 bits (215), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 55/157 (35%), Positives = 89/157 (56%), Gaps = 6/157 (3%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQS 93
           R+++R +   RT+ E+++DRGY VA  EI++ ++ F+A Y   G   D ++L     H  
Sbjct: 5   RETVRLWRVNRTIHELVRDRGYQVADDEISVDLETFKAEYAPTGGSVDRNKLNFFTEHGE 64

Query: 94  DPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--F 151
             ++R+ V +     V V  +R  IS +  RD   G+I I   ++TS A K +   +  F
Sbjct: 65  HENQRLFVFYSSDRNVGVKTMRQFISIMEERDIQRGII-IWPEKMTSAARKVIDAMRGTF 123

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
            +E F+   LLVNIT H L PKH+ L  +EK++LL++
Sbjct: 124 HLEDFEEAFLLVNITHHHLVPKHEPLYPEEKKELLQR 160


>gi|50290313|ref|XP_447588.1| hypothetical protein [Candida glabrata CBS 138]
 gi|54036350|sp|Q6FQA6.1|RPAB1_CANGA RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1
 gi|49526898|emb|CAG60525.1| unnamed protein product [Candida glabrata]
          Length = 215

 Score = 87.4 bits (215), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 90/166 (54%), Gaps = 13/166 (7%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKR-- 98
           R + + RTV EM++DRGY +A  E++L+++DF+  Y  D      R  +S Q++P++   
Sbjct: 11  RLWRTFRTVKEMVRDRGYFIAQEELDLTLEDFKVKYC-DSMGRAQRKMMSFQANPTEESM 69

Query: 99  --------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLF 149
                   + V FC    V V  +++ +  I  +   TG I I QN IT  A K V  + 
Sbjct: 70  TKFPDMGTLWVEFCDEPSVGVKTMKTFVIHIQEKQFQTG-IFIYQNNITPSAMKLVPSIP 128

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              +E F    L+VNIT H L PKH  L ++EK +LLK+Y ++E Q
Sbjct: 129 PATIETFHEAALVVNITHHDLVPKHIRLNEEEKAELLKRYRLKESQ 174


>gi|344302236|gb|EGW32541.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Spathaspora
           passalidarum NRRL Y-27907]
          Length = 214

 Score = 87.4 bits (215), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 59/175 (33%), Positives = 92/175 (52%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R   R + S +TV EM++DRGY +   EI++++ +FRA       V + ++ +  
Sbjct: 1   MDDNDRVISRLFRSFKTVKEMVRDRGYYITQEEIDMTLDEFRAKVCDSMGVPQRKL-MCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q+ P+   L          V FC    V +  +R+    I  ++  TGL  I QN IT  
Sbjct: 60  QAQPTGESLEKFPDLGALWVEFCDEASVGIKTMRNFCIHITEKNFSTGL-FIYQNSITPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +       +E FQ  DL+VNIT H L PKH  L+  EK++LL++Y ++E Q
Sbjct: 119 ANKLIPTVSPASIETFQEGDLVVNITHHELVPKHIKLSKDEKKELLERYRLKESQ 173


>gi|405965226|gb|EKC30623.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Crassostrea gigas]
          Length = 210

 Score = 87.4 bits (215), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 100/169 (59%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +  +++ + +  R+T++++  DRGY V   E++ ++++F+  +G  P   +     L + 
Sbjct: 2   DDEQETYKLWRIRKTIMQLCHDRGYLVTQDELDQTLEEFKGQFGDKPSERKPSRSDLIVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I++   Q +  + +T  I+++QN++T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPNVGIKTIKTY-CQRMQEENITRAIIVVQNRMTPSAKQSLTD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H+L P+H V+T +EK +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLEAELLINITEHMLVPEHVVMTPEEKTELLSRYKLKESQ 169


>gi|238878328|gb|EEQ41966.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Candida
           albicans WO-1]
          Length = 214

 Score = 87.4 bits (215), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 92/175 (52%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R   R + S +TV EM++DRGY ++  E+++++++FR+         + R  +  
Sbjct: 1   MDDTDRAVSRLFRSFKTVKEMVRDRGYYISQEELDMTLEEFRSKICDSMGTPQ-RKQMCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q+ P+   L          V FC    V +  +R+    I  ++  TG I I QN +T  
Sbjct: 60  QATPTAETLEKFPETGSLWVEFCDEASVGIKTMRNFCIHITEKNFSTG-IFIYQNSMTPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +       +E+FQ  DL+VNIT H L PKH  L  +EK++LL +Y ++E Q
Sbjct: 119 ANKLIPTVSPATIEIFQENDLIVNITHHELVPKHLKLNREEKKELLTRYRLKESQ 173


>gi|6319630|ref|NP_009712.1| Rpb5p [Saccharomyces cerevisiae S288c]
 gi|133338|sp|P20434.1|RPAB1_YEAST RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=ABC27; AltName: Full=DNA-directed
           RNA polymerases I, II, and III 27 kDa polypeptide
 gi|9257127|pdb|1DZF|A Chain A, Rpb5 From S.Cerevisiae
 gi|14278327|pdb|1I3Q|E Chain E, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
 gi|14278338|pdb|1I50|E Chain E, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
 gi|14278368|pdb|1I6H|E Chain E, Rna Polymerase Ii Elongation Complex
 gi|20150716|pdb|1K83|E Chain E, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
           With The Inhibitor Alpha Amanitin
 gi|30749620|pdb|1NIK|E Chain E, Wild Type Rna Polymerase Ii
 gi|30749741|pdb|1NT9|E Chain E, Complete 12-Subunit Rna Polymerase Ii
 gi|34810557|pdb|1PQV|E Chain E, Rna Polymerase Ii-Tfiis Complex
 gi|46015418|pdb|1R5U|E Chain E, Rna Polymerase Ii Tfiib Complex
 gi|46015783|pdb|1SFO|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex
 gi|56965914|pdb|1R9S|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex,
           Matched Nucleotide
 gi|56965926|pdb|1R9T|E Chain E, Rna Polymerase Ii Strand Separated Elongation Complex,
           Mismatched Nucleotide
 gi|56966110|pdb|1TWA|E Chain E, Rna Polymerase Ii Complexed With Atp
 gi|56966124|pdb|1TWC|E Chain E, Rna Polymerase Ii Complexed With Gtp
 gi|56966134|pdb|1TWF|E Chain E, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution
 gi|56966144|pdb|1TWG|E Chain E, Rna Polymerase Ii Complexed With Ctp
 gi|56966154|pdb|1TWH|E Chain E, Rna Polymerase Ii Complexed With 2'datp
 gi|58177168|pdb|1WCM|E Chain E, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
 gi|61679448|pdb|1Y1W|E Chain E, Complete Rna Polymerase Ii Elongation Complex
 gi|61679465|pdb|1Y77|E Chain E, Complete Rna Polymerase Ii Elongation Complex With
           Substrate Analogue Gmpcpp
 gi|61679506|pdb|1Y1V|E Chain E, Refined Rna Polymerase Ii-tfiis Complex
 gi|61679519|pdb|1Y1Y|E Chain E, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
 gi|83754247|pdb|2B63|E Chain E, Complete Rna Polymerase Ii-Rna Inhibitor Complex
 gi|110590858|pdb|2B8K|E Chain E, 12-Subunit Rna Polymerase Ii
 gi|122920064|pdb|2E2H|E Chain E, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp
 gi|122920079|pdb|2E2I|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
           Dgtp
 gi|122920094|pdb|2E2J|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With
           Gmpcpp
 gi|122921033|pdb|2NVQ|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
           2'dutp
 gi|122921069|pdb|2NVT|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
           Gmpcpp
 gi|122921085|pdb|2NVX|E Chain E, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
           Dutp
 gi|122921100|pdb|2NVY|E Chain E, Rna Polymerase Ii Form Ii In 150 Mm Mn+2
 gi|122921112|pdb|2NVZ|E Chain E, Rna Polymerase Ii Elongation Complex With Utp, Updated
           112006
 gi|134104678|pdb|2JA5|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           A
 gi|134104693|pdb|2JA6|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           B
 gi|134104714|pdb|2JA7|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           C
 gi|134104726|pdb|2JA7|Q Chain Q, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           C
 gi|134104738|pdb|2JA8|E Chain E, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           D
 gi|146387187|pdb|2YU9|E Chain E, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
           Utp
 gi|160877777|pdb|2R7Z|E Chain E, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
           Complex
 gi|161172231|pdb|2R92|E Chain E, Elongation Complex Of Rna Polymerase Ii With Artificial
           Rdrp Scaffold
 gi|161172244|pdb|2R93|E Chain E, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
           Delta Virus-Derived Rna Stem Loop
 gi|190613466|pdb|2VUM|E Chain E, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
           Elongation Complex
 gi|194368737|pdb|3CQZ|E Chain E, Crystal Structure Of 10 Subunit Rna Polymerase Ii In
           Complex With The Inhibitor Alpha-Amanitin
 gi|224983594|pdb|3FKI|E Chain E, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
 gi|239781919|pdb|3GTG|E Chain E, Backtracked Rna Polymerase Ii Complex With 12mer Rna
 gi|239781932|pdb|3GTJ|E Chain E, Backtracked Rna Polymerase Ii Complex With 13mer Rna
 gi|239781945|pdb|3GTK|E Chain E, Backtracked Rna Polymerase Ii Complex With 18mer Rna
 gi|239781958|pdb|3GTL|E Chain E, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u
           Mismatch
 gi|239781971|pdb|3GTM|E Chain E, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
 gi|239781985|pdb|3GTO|E Chain E, Backtracked Rna Polymerase Ii Complex With 15mer Rna
 gi|239781998|pdb|3GTP|E Chain E, Backtracked Rna Polymerase Ii Complex With 24mer Rna
 gi|239782011|pdb|3GTQ|E Chain E, Backtracked Rna Polymerase Ii Complex Induced By Damage
 gi|240104515|pdb|3H3V|F Chain F, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
           Active Site
 gi|254839445|pdb|3HOU|E Chain E, Complete Rna Polymerase Ii Elongation Complex I With A T-U
           Mismatch
 gi|254839460|pdb|3HOU|Q Chain Q, Complete Rna Polymerase Ii Elongation Complex I With A T-U
           Mismatch
 gi|254839475|pdb|3HOV|E Chain E, Complete Rna Polymerase Ii Elongation Complex Ii
 gi|254839490|pdb|3HOW|E Chain E, Complete Rna Polymerase Ii Elongation Complex Iii With A
           T-U Mismatch And A Frayed Rna 3'-Uridine
 gi|254839505|pdb|3HOX|E Chain E, Complete Rna Polymerase Ii Elongation Complex V
 gi|254839520|pdb|3HOY|E Chain E, Complete Rna Polymerase Ii Elongation Complex Vi
 gi|254839535|pdb|3HOZ|E Chain E, Complete Rna Polymerase Ii Elongation Complex Iv With A
           T-U Mismatch And A Frayed Rna 3'-Guanine
 gi|257471950|pdb|3I4M|E Chain E, 8-oxoguanine Containing Rna Polymerase Ii Elongation
           Complex D
 gi|257471965|pdb|3I4N|E Chain E, 8-oxoguanine Containing Rna Polymerase Ii Elongation
           Complex E
 gi|266618769|pdb|3K1F|E Chain E, Crystal Structure Of Rna Polymerase Ii In Complex With
           Tfiib
 gi|269914555|pdb|3K7A|E Chain E, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
 gi|295982478|pdb|3M3Y|E Chain E, Rna Polymerase Ii Elongation Complex C
 gi|295982491|pdb|3M4O|E Chain E, Rna Polymerase Ii Elongation Complex B
 gi|325053967|pdb|3PO2|E Chain E, Arrested Rna Polymerase Ii Elongation Complex
 gi|325053982|pdb|3PO3|E Chain E, Arrested Rna Polymerase Ii Reactivation Intermediate
 gi|326634542|pdb|3QT1|E Chain E, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
           Subunit
 gi|343197459|pdb|3RZD|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
 gi|343197471|pdb|3RZO|E Chain E, Rna Polymerase Ii Initiation Complex With A 4-Nt Rna
 gi|343197483|pdb|3S14|E Chain E, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
 gi|343197495|pdb|3S15|E Chain E, Rna Polymerase Ii Initiation Complex With A 7-Nt Rna
 gi|343197507|pdb|3S16|E Chain E, Rna Polymerase Ii Initiation Complex With An 8-Nt Rna
 gi|343197519|pdb|3S17|E Chain E, Rna Polymerase Ii Initiation Complex With A 9-Nt Rna
 gi|343197531|pdb|3S1M|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
           (Variant 1)
 gi|343197543|pdb|3S1N|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
           (Variant 2)
 gi|343197555|pdb|3S1Q|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
           Rna Soaked With Atp
 gi|343197567|pdb|3S1R|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
           Rna Soaked With Gtp
 gi|343197579|pdb|3S2D|E Chain E, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
           Containing A 5br- U
 gi|343781200|pdb|3S2H|E Chain E, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
           Containing A 2[prime]-Iodo Atp
 gi|353251637|pdb|3J0K|E Chain E, Orientation Of Rna Polymerase Ii Within The Human
           Vp16-Mediator-Pol Ii-Tfiif Assembly
 gi|357380840|pdb|4A3C|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
           Dna-Rna Hybrid
 gi|359546294|pdb|4A3B|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
           Dna-Rna Hybrid
 gi|359546312|pdb|4A3D|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
           Dna-Rna Hybrid
 gi|359546329|pdb|4A3E|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 gi|359546346|pdb|4A3F|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 gi|359546363|pdb|4A3J|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
           Dna-Rna Hybrid And Soaked With Gmpcpp
 gi|359546380|pdb|4A3K|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
           Dna-Rna Hybrid
 gi|359546396|pdb|4A3L|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 gi|359546413|pdb|4A3M|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 gi|374977883|pdb|4A3G|E Chain E, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
           Dna-Rna Hybrid
 gi|374977898|pdb|4A3I|E Chain E, Rna Polymerase Ii Binary Complex With Dna
 gi|380764983|pdb|4A93|E Chain E, Rna Polymerase Ii Elongation Complex Containing A Cpd
           Lesion
 gi|414145450|pdb|4BBR|E Chain E, Structure Of Rna Polymerase Ii-tfiib Complex
 gi|414145463|pdb|4BBS|E Chain E, Structure Of An Initially Transcribing Rna Polymerase Ii-
           Tfiib Complex
 gi|287822|emb|CAA37381.1| RNA polymerase RPB5 subunit [Saccharomyces cerevisiae]
 gi|396754|emb|CAA50472.1| DNA-directed RNA polymerase [Saccharomyces cerevisiae]
 gi|536484|emb|CAA85113.1| RPB5 [Saccharomyces cerevisiae]
 gi|151946543|gb|EDN64765.1| 25 kDa RNA polymerase subunit [Saccharomyces cerevisiae YJM789]
 gi|190408693|gb|EDV11958.1| 25 kDa RNA polymerase subunit [Saccharomyces cerevisiae RM11-1a]
 gi|207347621|gb|EDZ73732.1| YBR154Cp-like protein [Saccharomyces cerevisiae AWRI1631]
 gi|256270199|gb|EEU05422.1| Rpb5p [Saccharomyces cerevisiae JAY291]
 gi|285810484|tpg|DAA07269.1| TPA: Rpb5p [Saccharomyces cerevisiae S288c]
 gi|323334603|gb|EGA75977.1| Rpb5p [Saccharomyces cerevisiae AWRI796]
 gi|323338690|gb|EGA79906.1| Rpb5p [Saccharomyces cerevisiae Vin13]
 gi|323356099|gb|EGA87904.1| Rpb5p [Saccharomyces cerevisiae VL3]
 gi|349576528|dbj|GAA21699.1| K7_Rpb5p [Saccharomyces cerevisiae Kyokai no. 7]
 gi|392300997|gb|EIW12086.1| Rpb5p [Saccharomyces cerevisiae CEN.PK113-7D]
          Length = 215

 Score = 87.4 bits (215), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 90/170 (52%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+  EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQ 174


>gi|313226453|emb|CBY21598.1| unnamed protein product [Oikopleura dioica]
          Length = 210

 Score = 87.4 bits (215), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 89/157 (56%), Gaps = 8/157 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQSDPSKRIL 100
           R+T++ M  DR Y VA  E++ +++ F+A +G  P   +     L I + H  DP+ ++ 
Sbjct: 14  RKTIMAMCHDRKYLVAQRELDQTLEQFKAEFGSQPSQGQPSRKDLTIIVCHSDDPTDQMF 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V +  ++ I  Q +  + +T  ++++Q  +T  A +A+     ++ +E F  
Sbjct: 74  VFFPEDPKVTIKQVK-IYCQRMQEENITRALIVIQQSMTPSAKQALDDMAPKYTLESFYE 132

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +L++N+T+H L P H VLTD EK +LLK+Y ++E Q
Sbjct: 133 QELMINLTEHELVPTHAVLTDDEKNELLKRYKLKESQ 169


>gi|414586665|tpg|DAA37236.1| TPA: hypothetical protein ZEAMMB73_455773 [Zea mays]
          Length = 203

 Score = 87.4 bits (215), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 55/155 (35%), Positives = 85/155 (54%), Gaps = 2/155 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRTV EML+DRGY V   +I L    F   YG     D L  + +  + PS +I 
Sbjct: 10  RLFRIRRTVYEMLRDRGYGVRDEQIKLERHKFIERYGNPVRRDELTFNATKLNGPSDQIY 69

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITD 160
           V F       V  IR+ + ++ N +   G IL++Q  +++ A  AV     K  + +  +
Sbjct: 70  VFFPNEAKPGVKTIRNYVEKMKNENVFAG-ILVVQQALSAFARSAVQEVSQKYHLEE-AE 127

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LLVNI  HVL P+H +LT ++K+ LL++Y+++E Q
Sbjct: 128 LLVNIKDHVLVPEHVLLTPEDKKTLLERYTVKETQ 162


>gi|19114099|ref|NP_593187.1| DNA-directed RNA polymerase I, II and III subunit Rpb5
           [Schizosaccharomyces pombe 972h-]
 gi|2500628|sp|Q09191.1|RPAB1_SCHPO RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=RPC24B
 gi|256599719|pdb|3H0G|E Chain E, Rna Polymerase Ii From Schizosaccharomyces Pombe
 gi|256599731|pdb|3H0G|Q Chain Q, Rna Polymerase Ii From Schizosaccharomyces Pombe
 gi|1345439|dbj|BAA07843.1| RNA polymerase II 5th largest subunit [Schizosaccharomyces pombe]
 gi|2465157|emb|CAB16886.1| DNA-directed RNA polymerase I, II and III subunit Rpb5
           [Schizosaccharomyces pombe]
 gi|2708526|gb|AAB92515.1| Rpb5 [Schizosaccharomyces pombe]
          Length = 210

 Score = 87.0 bits (214), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 54/165 (32%), Positives = 97/165 (58%), Gaps = 7/165 (4%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISI-SHQSD 94
           ++ +R + + +T  +++ DRGY V+ +E++L++  F+A++ G   ++DR  +S  +  S+
Sbjct: 6   KNIVRVFRAWKTAHQLVHDRGYGVSQAELDLTLDQFKAMHCGMGRNLDRTTLSFYAKPSN 65

Query: 95  PSKR--ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            S +  I + F     V +  +R+ +  + + +  TG ILI  N +T  A K +     Q
Sbjct: 66  DSNKGTIYIEFAKEPSVGIKEMRTFVHTLGDHNHKTG-ILIYANSMTPSAAKIIATVTGQ 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F +E FQ +DL+VNIT H L PKH +L+  EK++LL +Y + E Q
Sbjct: 125 FTIETFQESDLIVNITHHELVPKHILLSPDEKKELLDRYKLRETQ 169


>gi|303282333|ref|XP_003060458.1| predicted protein [Micromonas pusilla CCMP1545]
 gi|226457929|gb|EEH55227.1| predicted protein [Micromonas pusilla CCMP1545]
          Length = 206

 Score = 87.0 bits (214), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 81/152 (53%), Gaps = 4/152 (2%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGP 106
           +TV +ML  RGY V   E+      FR  YG DP  + L + +  + DPS+ I V F   
Sbjct: 15  KTVHKMLNARGYLVQQKELERDKDSFREAYGDDPKRESLTLMLPRRDDPSENIFVFFPEE 74

Query: 107 GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV---GLFQFKVEMFQITDLLV 163
             V V  I+    ++ +      +I++ Q  +T  A +++       F +E FQ  +LLV
Sbjct: 75  EKVGVKTIKEYAKRMKDESVFRAIIVV-QASLTPFAKQSLLECASQSFYIEQFQEMELLV 133

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NIT+HVL P+H +L+D EK  LL +Y +++ Q
Sbjct: 134 NITEHVLVPEHVLLSDAEKRTLLARYKVKDTQ 165


>gi|326503328|dbj|BAJ99289.1| predicted protein [Hordeum vulgare subsp. vulgare]
          Length = 207

 Score = 87.0 bits (214), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 49/160 (30%), Positives = 93/160 (58%), Gaps = 2/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R +  RRTV++ML+DRGY V  ++++L++ +F   YG     D L I+ + + +P +
Sbjct: 7   ETSRLFRVRRTVMQMLRDRGYLVVDADVDLTMGEFVGRYGDPVRRDDLVINRAKKDNPDE 66

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEM 155
           +I + F       V  ++S   ++   +   G++++ Q          +GL Q   ++E+
Sbjct: 67  QIYIFFPNEPKPGVKTVKSYAEKMKQENVYNGILVVQQALTAFSRNLLLGLSQEKLQLEV 126

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           FQ  +LL+NI  H L P+H +LT ++K+ LL+KY+++E Q
Sbjct: 127 FQEGELLINIKNHDLVPEHVLLTKEQKKTLLEKYTVKETQ 166


>gi|365766868|gb|EHN08357.1| Rpb5p [Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7]
          Length = 215

 Score = 87.0 bits (214), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 90/170 (52%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+  EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFNEAALVVNITHHELVPKHIRLSXDEKRELLKRYRLKESQ 174


>gi|255728687|ref|XP_002549269.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Candida
           tropicalis MYA-3404]
 gi|240133585|gb|EER33141.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Candida
           tropicalis MYA-3404]
          Length = 214

 Score = 87.0 bits (214), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 59/175 (33%), Positives = 93/175 (53%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D   R   R + + +TV EM++DRGY ++  EI++++++FR+    D   +  R  +  
Sbjct: 1   MDETDRSISRLFRTFKTVKEMVRDRGYYISQEEIDMTLEEFRSKIC-DSMGNPQRKQMCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q+ P+   L          V FC    V +  +R+    I  ++  TGL  I QN IT  
Sbjct: 60  QAQPTGETLEKFPELGSLWVEFCDESSVGIKTMRNFCIHITEKNFSTGL-FIYQNSITPS 118

Query: 142 ATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +      V E+FQ +DL+VNIT H L PKH  L+  EK +LL++Y ++E Q
Sbjct: 119 ANKLIPTVSPSVIEIFQESDLIVNITHHELVPKHLKLSKDEKVELLERYRLKESQ 173


>gi|145346274|ref|XP_001417617.1| predicted protein [Ostreococcus lucimarinus CCE9901]
 gi|144577844|gb|ABO95910.1| predicted protein [Ostreococcus lucimarinus CCE9901]
          Length = 205

 Score = 87.0 bits (214), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 87/158 (55%), Gaps = 4/158 (2%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  R+T+ +ML  RGY V+  E+   +  F   +G++P  + L I    + DPS+ I 
Sbjct: 8   RLFRVRKTIHKMLAARGYLVSAKELERDIDSFTEDFGEEPKRESLTILAPKRDDPSENIF 67

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ---FKVEMFQ 157
           V F     V V  I+ +  ++ + +    +I++ Q  +T  A +++   Q   F +E FQ
Sbjct: 68  VFFPDEEKVGVKTIKDLAKRMKDENVFRAIIVV-QASLTPFAKQSLLECQTQKFYIEQFQ 126

Query: 158 ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            T+LLVNI  HVL P+H +L+D +K  LL +Y +++ Q
Sbjct: 127 ETELLVNIIDHVLVPEHILLSDDQKRTLLDRYKVKDTQ 164


>gi|241950235|ref|XP_002417840.1| DNA-directed RNA polymerases I, II and III subunit, putative
           [Candida dubliniensis CD36]
 gi|223641178|emb|CAX45555.1| DNA-directed RNA polymerases I, II and III subunit, putative
           [Candida dubliniensis CD36]
          Length = 214

 Score = 87.0 bits (214), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 92/175 (52%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R   R + S +TV EM++DRGY ++  E+++++++FR+         + R  +  
Sbjct: 1   MDDTDRAVSRLFRSFKTVKEMVRDRGYYISQEELDMTLEEFRSKICDSMGTPQ-RKQMCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q+ P+   L          V FC    V +  +R+    I  ++  TG I I QN +T  
Sbjct: 60  QATPTGETLEKFPETGSLWVEFCDESSVGIKTMRNFCIHITEKNFSTG-IFIYQNSMTPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +       +E+FQ  DL+VNIT H L PKH  L  +EK++LL +Y ++E Q
Sbjct: 119 ANKLIPTVSPATIEIFQENDLIVNITHHELVPKHLKLNHEEKKELLTRYRLKESQ 173


>gi|170098869|ref|XP_001880653.1| predicted protein [Laccaria bicolor S238N-H82]
 gi|164644178|gb|EDR08428.1| predicted protein [Laccaria bicolor S238N-H82]
          Length = 208

 Score = 86.7 bits (213), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 86/153 (56%), Gaps = 4/153 (2%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP---DVDRLRISISHQSDPSKRILVVF 103
           RT+ E++KDRG+ V+  EI++ +Q FR++Y  +    D ++L    + +++ + +I V F
Sbjct: 15  RTIHELVKDRGFLVSDDEIHMDLQRFRSLYANNSGVVDRNQLNFYTTSRTNSTDQIFVFF 74

Query: 104 CGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-FKVEMFQITDLL 162
                V V  +R ++  +  +    G+I+   N   S     V + Q +++E F   DLL
Sbjct: 75  SEEKSVGVKTMRKLLGILEEKSIQRGIIVFPGNMTPSARKVIVAMAQQYRLEEFSEADLL 134

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           VNI  H L P+H VL+  EK+ LL+KY ++E Q
Sbjct: 135 VNIVHHTLVPRHDVLSPDEKKTLLEKYRLKETQ 167


>gi|366996969|ref|XP_003678247.1| hypothetical protein NCAS_0I02370 [Naumovozyma castellii CBS 4309]
 gi|342304118|emb|CCC71905.1| hypothetical protein NCAS_0I02370 [Naumovozyma castellii CBS 4309]
          Length = 215

 Score = 86.7 bits (213), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 57/170 (33%), Positives = 91/170 (53%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM++DRGY +   E++LS++DF+  Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRTFRTVKEMVRDRGYFITQEEVDLSLEDFKTKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           +   FC    V V  ++S +  I  ++  TG I + Q  +T  A K V
Sbjct: 66  EESIAKFPSMGSLWAEFCDEPSVGVKTMKSFVIHIQEKNFQTG-IFVFQTNVTPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+++EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFHEASLVVNITHHELVPKHIRLSEEEKRELLKRYRLKESQ 174


>gi|15228724|ref|NP_188871.1| DNA-directed RNA polymerase II subunit E [Arabidopsis thaliana]
 gi|13899113|gb|AAK48978.1|AF370551_1 RNA polymerase I, II and III 24.3 kDa subunit [Arabidopsis
           thaliana]
 gi|15724322|gb|AAL06554.1|AF412101_1 AT3g22320/MCB17_5 [Arabidopsis thaliana]
 gi|3372233|gb|AAC28253.1| RNA polymerase I, II and III 24.3 kDa subunit [Arabidopsis
           thaliana]
 gi|9293866|dbj|BAB01769.1| RNA polymerase I, II and III 24.3 kDa subunit [Arabidopsis
           thaliana]
 gi|21554280|gb|AAM63355.1| RNA polymerase I, II and III 24.3 kDa subunit [Arabidopsis
           thaliana]
 gi|25083949|gb|AAN72141.1| RNA polymerase I, II and III 24.3 kDa subunit [Arabidopsis
           thaliana]
 gi|332643100|gb|AEE76621.1| DNA-directed RNA polymerase II subunit E [Arabidopsis thaliana]
          Length = 205

 Score = 86.7 bits (213), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 50/157 (31%), Positives = 94/157 (59%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  ++T+++ML+DRGY +A SE+ ++ Q F   +G +   + L    + ++D S ++ 
Sbjct: 9   RLYRIQKTLMQMLRDRGYFIADSELTMTKQQFIRKHGDNMKREDLVTLKAKRNDNSDQLY 68

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           + F     V V  ++   +++ + +     IL++Q  +T  A   +     +F +E+FQ 
Sbjct: 69  IFFPDEAKVGVKTMKMYTNRMKSENVFRA-ILVVQQNLTPFARTCISEISSKFHLEVFQE 127

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            ++LVNI +HVL P+HQVLT +EK+ LL++Y+++E Q
Sbjct: 128 AEMLVNIKEHVLVPEHQVLTTEEKKTLLERYTVKETQ 164


>gi|237834761|ref|XP_002366678.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1,
           putative [Toxoplasma gondii ME49]
 gi|211964342|gb|EEA99537.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1,
           putative [Toxoplasma gondii ME49]
 gi|221486036|gb|EEE24306.1| DNA-directed RNA polymerase II 23 kDa, putative [Toxoplasma gondii
           GT1]
 gi|221503532|gb|EEE29223.1| DNA-directed RNA polymerase II 23 kDa, putative [Toxoplasma gondii
           VEG]
          Length = 205

 Score = 86.7 bits (213), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 57/159 (35%), Positives = 90/159 (56%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP-DVDRLRISISHQSDPSKRI 99
           R + +R+T  +ML+DRGY V+  E N S  DF   + ++  +  R+ +  SH+ DP  R+
Sbjct: 7   RLFRARKTCCDMLQDRGYIVSAQEKNESWNDFLQRFKENECNRSRMLLIASHKVDPDNRV 66

Query: 100 LVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK--VEMF 156
           +V F        V  IR +  ++  R+ +   IL+ QN +T+ A  A+     +  +E F
Sbjct: 67  IVYFADETKKTGVKPIRELTERMEERN-IQRAILVTQNVLTAFARDAISEAAPRHIIENF 125

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             ++LLVNITKH L PKH  LT+ EK+ LL +Y ++E Q
Sbjct: 126 MESELLVNITKHELVPKHVPLTNDEKQNLLNRYRVKEIQ 164


>gi|255546411|ref|XP_002514265.1| DNA-directed RNA polymerase II, putative [Ricinus communis]
 gi|223546721|gb|EEF48219.1| DNA-directed RNA polymerase II, putative [Ricinus communis]
          Length = 225

 Score = 86.7 bits (213), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 60/176 (34%), Positives = 97/176 (55%), Gaps = 22/176 (12%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ--SD---- 94
           R +  RRTV++MLKDR Y V  SEIN++   F + YG +   + L I  S +  SD    
Sbjct: 10  RLFRIRRTVMQMLKDRTYLVTDSEINITKHQFTSKYGDNMKREDLVIHKSKRDGSDSFYP 69

Query: 95  -------------PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
                        P  +I V F     V V  +++  +++ + +     IL++Q  +T  
Sbjct: 70  TKLLFLNQLEAWLPLYQIYVFFPEEQKVGVKTMKTYTNRMKSENVFRA-ILVVQQSLTPF 128

Query: 142 ATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A   +     +F +E+FQ ++LLVNI +HVL P+HQVLT++EK+ LL++Y+++E Q
Sbjct: 129 ARTCIAEIASKFHLEVFQESELLVNIKEHVLVPEHQVLTNEEKKTLLERYTVKETQ 184


>gi|384497180|gb|EIE87671.1| hypothetical protein RO3G_12382 [Rhizopus delemar RA 99-880]
          Length = 140

 Score = 86.3 bits (212), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 53/141 (37%), Positives = 80/141 (56%), Gaps = 5/141 (3%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR--LRISISHQSDPSKRILVVFCGPGIV 109
           M+ DRGY V+ SE+++ ++ F+  +    DVDR  L   +  + DP+ ++LV F     V
Sbjct: 1   MVHDRGYLVSQSELDMDLESFKRTFAPSGDVDRDQLTFVVQKKDDPTDQLLVFFPKDPSV 60

Query: 110 KVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK--VEMFQITDLLVNITK 167
            V  +R  + ++  +    G I I Q  +TS A K +     K  +E FQ  +LLVNIT 
Sbjct: 61  GVKPLRVYVERMAQQQIPKG-ICIYQKSMTSSANKVIQQLPSKHTLESFQENELLVNITH 119

Query: 168 HVLKPKHQVLTDQEKEKLLKK 188
           HVL PKH+VLT +EK  LL++
Sbjct: 120 HVLVPKHEVLTAEEKSTLLQR 140


>gi|209878710|ref|XP_002140796.1| DNA-directed RNA polymerase 2 [Cryptosporidium muris RN66]
 gi|209556402|gb|EEA06447.1| DNA-directed RNA polymerase 2, putative [Cryptosporidium muris
           RN66]
          Length = 205

 Score = 86.3 bits (212), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 55/159 (34%), Positives = 91/159 (57%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R++ +RRT+ EML+DRGY V+  + +     F+  +     +  R+ +  SH+ D +KRI
Sbjct: 7   RFFRARRTLCEMLEDRGYIVSSQDKDEQFATFKERFESHQRLRSRMLMVASHKQDQTKRI 66

Query: 100 LVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMF 156
           +  F        V  IR I+ ++ +   +   ILI QN +T+ A  A+     +  +E F
Sbjct: 67  ICYFADESKKTGVKPIRDIVEKM-DEHNIQRAILISQNVLTAHAKVAILDAAPKHYIESF 125

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              +LLVNIT+H L PKH +L+D+EK +LL++Y ++E Q
Sbjct: 126 LENELLVNITRHELVPKHVLLSDEEKSQLLERYKVKETQ 164


>gi|401626842|gb|EJS44762.1| rpb5p [Saccharomyces arboricola H-6]
          Length = 215

 Score = 86.3 bits (212), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 59/170 (34%), Positives = 91/170 (53%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + +TV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFKTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EESITKFPEMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+  EK++LLK+Y ++E Q
Sbjct: 125 PSIPPASIETFNEAALVVNITHHELVPKHIRLSTDEKKELLKRYRLKESQ 174


>gi|367006695|ref|XP_003688078.1| hypothetical protein TPHA_0M00690 [Tetrapisispora phaffii CBS 4417]
 gi|357526385|emb|CCE65644.1| hypothetical protein TPHA_0M00690 [Tetrapisispora phaffii CBS 4417]
          Length = 215

 Score = 86.3 bits (212), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 58/160 (36%), Positives = 87/160 (54%), Gaps = 13/160 (8%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL------ 100
           RTV EM++DRGY ++  EI L ++DFRA Y  D      R  +S Q++P++  L      
Sbjct: 17  RTVKEMVRDRGYFISQDEIELPLEDFRAKYC-DYMGKPQRKMMSFQANPTEESLEKFPET 75

Query: 101 ----VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLFQFKVEM 155
               V FC    V V  +++ +  I  ++  TG I + Q  +T  A K V  +    +E 
Sbjct: 76  GSLWVEFCDEPSVGVKTMKNFVIHIQEKNYQTG-IFVYQTNVTPSAMKLVPSIPPATIET 134

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F    L+VNIT H L PKH  L+++EK+ LLK+Y ++E Q
Sbjct: 135 FHEASLVVNITHHELVPKHIRLSEEEKKDLLKRYRLKESQ 174


>gi|323349753|gb|EGA83968.1| Rpb5p [Saccharomyces cerevisiae Lalvin QA23]
          Length = 215

 Score = 86.3 bits (212), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 89/170 (52%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  +   TG I + QN IT  A K V
Sbjct: 66  EESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKXFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+  EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFNEAALVVNITHHELVPKHIRLSXDEKRELLKRYRLKESQ 174


>gi|297830274|ref|XP_002883019.1| hypothetical protein ARALYDRAFT_341806 [Arabidopsis lyrata subsp.
           lyrata]
 gi|297328859|gb|EFH59278.1| hypothetical protein ARALYDRAFT_341806 [Arabidopsis lyrata subsp.
           lyrata]
          Length = 211

 Score = 85.9 bits (211), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 95/157 (60%), Gaps = 5/157 (3%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVV 102
           +L +RT+++MLKDRGY++  SEI +++ +F   YG++     L    + ++D + ++ + 
Sbjct: 12  FLVQRTLMQMLKDRGYSIEDSEITMTLGEFIEKYGENMKRKALVTLKAKKNDDNDKLYIF 71

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN--QITSQATKAVGLF--QFKVEMFQI 158
           F     V V  ++  I+++ + +     IL+ Q+  + +  A  ++G    +F +E+FQ 
Sbjct: 72  FPNKAKVGVADMKKYINRLKSENVFRA-ILVKQDIKEFSRHAQLSIGAAYPKFNIEVFQE 130

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +L+VN+  HV  P+HQ LT +EK++ L++Y+++E Q
Sbjct: 131 KELIVNVNHHVFVPEHQALTTEEKQQFLERYTVKENQ 167


>gi|1680605|gb|AAC60556.1|S59774_1 RNA polymerase subunit [Saccharomyces cerevisiae]
          Length = 215

 Score = 85.9 bits (211), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 59/170 (34%), Positives = 89/170 (52%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM+KDRGY +   E+   ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFRTVKEMVKDRGYFITQEEVEWPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+  EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQ 174


>gi|365761982|gb|EHN03600.1| Rpb5p [Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7]
 gi|401841351|gb|EJT43753.1| RPB5-like protein [Saccharomyces kudriavzevii IFO 1802]
          Length = 215

 Score = 85.9 bits (211), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 59/170 (34%), Positives = 90/170 (52%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + +TV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFKTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +           + V FC    V V  +++ +  I  ++  TG I + QN IT  A K V
Sbjct: 66  EESVSKFPEMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTG-IFVYQNNITPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F    L+VNIT H L PKH  L+  EK +LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFNEAALVVNITHHELVPKHIRLSTDEKRELLKRYRLKESQ 174


>gi|425770508|gb|EKV08978.1| hypothetical protein PDIP_66930 [Penicillium digitatum Pd1]
 gi|425771874|gb|EKV10306.1| hypothetical protein PDIG_57390 [Penicillium digitatum PHI26]
          Length = 234

 Score = 85.9 bits (211), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 63/193 (32%), Positives = 97/193 (50%), Gaps = 30/193 (15%)

Query: 29  SGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRL 85
           S +     R+  R + + RTV E+L DRGY V+ +E+ L ++DFRA Y      PD  ++
Sbjct: 5   SAYSMEAEREMTRLWRTFRTVYELLADRGYEVSDNELVLPLEDFRAKYADPLGYPDRTKM 64

Query: 86  RI--------SISHQSDPSKR----------ILVVFC----GPGIVKVNVIRSIISQIVN 123
           +I         + + + PSK           I V FC    G G  +V       + +V+
Sbjct: 65  KIQARPTETMKLKYTALPSKANPNPQPDCGTIYVDFCPDSSGVGTKQVRAF----NHLVD 120

Query: 124 RDTLTGLILILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEK 182
            +     I I Q  I+  A + +     ++ E FQ  DLLVNIT+H L PKH +L+ +EK
Sbjct: 121 ENNFHTGIFITQTPISPSAVRLLSGVPGRICEHFQEQDLLVNITRHELVPKHVLLSPEEK 180

Query: 183 EKLLKKYSIEEKQ 195
            KLL++Y ++E Q
Sbjct: 181 GKLLERYRLKESQ 193


>gi|317137040|ref|XP_003190012.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Aspergillus oryzae RIB40]
          Length = 235

 Score = 85.5 bits (210), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 62/197 (31%), Positives = 99/197 (50%), Gaps = 31/197 (15%)

Query: 25  ESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PD 81
           E   SG VD   R+  R + + RTV EML+DRGY V   E+ +S+++F+  Y      PD
Sbjct: 3   EDYSSGSVD-ADREMTRLWRTWRTVFEMLQDRGYEVTEEEVQISLEEFKQKYSDPLGYPD 61

Query: 82  VDRLRI-------------SISHQSDPSKR-----ILVVFC----GPGIVKVNVIRSIIS 119
            +++++             +I   ++P  +     I V FC    G G  +V       +
Sbjct: 62  RNKMKVQARPTEAMQHKYTAIKTNANPDPQPDCGIIYVEFCPDSTGVGTKQVRAF----N 117

Query: 120 QIVNRDTLTGLILILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLT 178
            +V+ +     + I Q  I+  A + +     ++ E FQ  DLLVNIT+H L PKH +L+
Sbjct: 118 HVVDENNFHTGVFITQTPISPSAVRLLSGVPGRICEHFQEQDLLVNITRHELVPKHVLLS 177

Query: 179 DQEKEKLLKKYSIEEKQ 195
            +EK KLL +Y ++E Q
Sbjct: 178 PEEKAKLLARYRLKESQ 194


>gi|149034611|gb|EDL89348.1| rCG29511, isoform CRA_d [Rattus norvegicus]
          Length = 242

 Score = 85.5 bits (210), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRESQ 169


>gi|326501686|dbj|BAK02632.1| predicted protein [Hordeum vulgare subsp. vulgare]
          Length = 207

 Score = 85.5 bits (210), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 95/161 (59%), Gaps = 4/161 (2%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R +  RRTV++ML+DRGY V  +++++++ +F   YG     D L I+ + + +P +
Sbjct: 7   ETSRLFRVRRTVMQMLRDRGYLVVDADVDMTMGEFVGRYGDPVRRDDLVINRAKKDNPDE 66

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV---GLFQFKVE 154
           +I V F          ++S + ++   +   G IL++Q  +TS A   +      + +V+
Sbjct: 67  QIYVFFPNEPKPGQKAVKSYVEKMTQENVRNG-ILVVQQALTSFARNNLLGNSPDKLQVQ 125

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +FQ  +LL+NI  H L P+H +LT ++K+ LL+KY+++E Q
Sbjct: 126 VFQEKELLINIKNHDLVPEHVLLTKEQKKTLLEKYTVKETQ 166


>gi|297835232|ref|XP_002885498.1| ATRPABC24.3 [Arabidopsis lyrata subsp. lyrata]
 gi|297331338|gb|EFH61757.1| ATRPABC24.3 [Arabidopsis lyrata subsp. lyrata]
          Length = 205

 Score = 85.5 bits (210), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/157 (32%), Positives = 93/157 (59%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  ++T+++MLKDRGY +A SE+ ++ Q F   +G +   + L      ++D S ++ 
Sbjct: 9   RLYRIQKTLMQMLKDRGYFIADSELTMTKQQFIRKHGDNMKREDLVTLKVKRNDNSDQLY 68

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           + F     V V  ++   +++ + +     IL++Q  +T  A   +     +F +E+FQ 
Sbjct: 69  IFFPDEAKVGVKTMKMYTNRMKSENVYRA-ILVVQQNLTPFARTCISEISSKFHLEVFQE 127

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            ++LVNI +HVL P+HQVLT +EK+ LL++Y+++E Q
Sbjct: 128 AEMLVNIKEHVLVPEHQVLTTEEKKTLLERYTVKETQ 164


>gi|344230604|gb|EGV62489.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Candida
           tenuis ATCC 10573]
 gi|344230605|gb|EGV62490.1| hypothetical protein CANTEDRAFT_114816 [Candida tenuis ATCC 10573]
          Length = 214

 Score = 85.5 bits (210), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 94/175 (53%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D   R   R + + +TV EM++DRGY ++  E+++S+ +FR       ++ + ++ +  
Sbjct: 1   MDEADRSMSRLWRTFKTVKEMVRDRGYYISQEELDMSLDEFRQKICDSMNMPQRKL-MCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q++P+   L          V FC    V +  +R+    I  R+  TG I I Q+ IT  
Sbjct: 60  QANPTAESLEKFPELGTLWVEFCDEDSVGIKTMRNFCIHISERNFSTG-IFIYQSSITPS 118

Query: 142 ATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +  +    +E FQ +DL+VNIT H L PKH  L+  EK++LL +Y ++E Q
Sbjct: 119 ANKLIPTVAPASIETFQESDLVVNITHHELVPKHIKLSKGEKKELLDRYRLKESQ 173


>gi|297275632|ref|XP_001117242.2| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Macaca mulatta]
          Length = 203

 Score = 85.5 bits (210), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   D+ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEDTYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|403218074|emb|CCK72566.1| hypothetical protein KNAG_0K02020 [Kazachstania naganishii CBS
           8797]
          Length = 215

 Score = 85.1 bits (209), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 58/170 (34%), Positives = 90/170 (52%), Gaps = 13/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RT+ EM+KDRGY +   E+ LS++DF+  Y  D      R  +S Q++P 
Sbjct: 7   RNVRRLWRTFRTIKEMVKDRGYFITQEEVELSLEDFKVKYC-DSMGRPQRKMMSFQANPM 65

Query: 97  KRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           +  +          V FC    V V  +++ +  I  ++   G I + QN +T  A K V
Sbjct: 66  EEAIAKFPDMGSLWVEFCDEPSVGVKTMKNFVIHIQEKNYQIG-IFVYQNNVTPSAMKLV 124

Query: 147 -GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +    +E F  T L+VNIT H L PKH  L+  EK++LLK+Y ++E Q
Sbjct: 125 PSIPPATIETFHETSLVVNITHHELVPKHIKLSTDEKKELLKRYRLKESQ 174


>gi|198427419|ref|XP_002130595.1| PREDICTED: similar to 25-kDa subunit RNA polymerase [Ciona
           intestinalis]
          Length = 210

 Score = 85.1 bits (209), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/167 (31%), Positives = 95/167 (56%), Gaps = 12/167 (7%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ R +  R+TV+++  DRGY V   E++ S+++F+  +G  P   R     L I ++H 
Sbjct: 6   ETYRLWRIRKTVMQLCHDRGYLVTQHELDQSLEEFKEEFGDKPSERRPGRQDLTILVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--- 149
            DP+ ++ V F     V V  I++   Q +  + +   I+++Q  +T  A ++  LF   
Sbjct: 66  DDPTDQMFVFFPEEPKVGVKTIKTY-CQRMQEENIQRAIIVVQQSMTPSAKQS--LFDMA 122

Query: 150 -QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            ++ +E F   +LL+NIT+H L P+H VLT +EK +LL +Y +++ Q
Sbjct: 123 PKYILEQFLEQELLINITEHELVPEHVVLTPEEKSELLTRYKLKDHQ 169


>gi|242247587|ref|NP_001156054.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1-like
           [Acyrthosiphon pisum]
 gi|239793387|dbj|BAH72818.1| ACYPI000388 [Acyrthosiphon pisum]
          Length = 210

 Score = 85.1 bits (209), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 49/165 (29%), Positives = 96/165 (58%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           +S + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ESYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPGRSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  +T+T  I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTY-CQRMQEETITRAIIVVQQGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F  ++LL+NIT+H L P+H VLT  EK++LL +Y ++E Q
Sbjct: 125 YILEQFLESELLINITEHELVPEHIVLTPDEKQELLCRYKLKENQ 169


>gi|330040362|ref|XP_003239875.1| RNA polymerase I, II and III 24.3 kDa subunit [Cryptomonas
           paramecium]
 gi|327206800|gb|AEA38977.1| RNA polymerase I, II and III 24.3 kDa subunit [Cryptomonas
           paramecium]
          Length = 216

 Score = 85.1 bits (209), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 58/175 (33%), Positives = 99/175 (56%), Gaps = 12/175 (6%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALS--EINLSVQDFRAIYGQDPDVDRLRISI 89
           +D  + +    +  RRTVL++LKDR Y V  S  ++N+S  DF   Y ++  V R ++ I
Sbjct: 1   MDKENNEVFNLFRIRRTVLQLLKDRNYLVFNSKDDLNMSRIDFEFKYVKNYKVVREKMEI 60

Query: 90  SH--QSDPSKRILVVFC----GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
                +   K+ILVVF        ++ V +IR    ++  +D L+ L+++L  ++TS A 
Sbjct: 61  KRPLWNSLDKKILVVFIEKEKSGTMIGVKLIRKYCERM-KQDQLSNLVIVLHAKLTSHAK 119

Query: 144 KAVGLFQF---KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +A+        K+E F  ++L++NIT H L PKH++L+ +E + L K+Y I+E Q
Sbjct: 120 QAIDTINSSGDKIEYFNESELIINITHHTLVPKHEILSLEESKCLFKRYYIKETQ 174


>gi|307106700|gb|EFN54945.1| hypothetical protein CHLNCDRAFT_134695 [Chlorella variabilis]
          Length = 190

 Score = 85.1 bits (209), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 87/152 (57%), Gaps = 9/152 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+T LEML DRGY +   E + +   F   YG  PD+ R  ++     DP+++I V F  
Sbjct: 5   RKTCLEMLADRGYLITEEERDATRDQFTDKYG--PDIRREDLT----DDPTEQIFVFFPE 58

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V V  I+ +  ++ N + +   +++ Q  +T  A + +     ++ +E+FQ  +LLV
Sbjct: 59  EAKVGVKTIKLLAERMRN-EGVQRAVMVTQANMTPFAKQCLSEMAPKYYIELFQEAELLV 117

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NITKH L P+H++LT +EK+ LL +Y +++ Q
Sbjct: 118 NITKHTLVPQHRILTREEKQTLLDRYKVKDTQ 149


>gi|346469147|gb|AEO34418.1| hypothetical protein [Amblyomma maculatum]
          Length = 210

 Score = 84.7 bits (208), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 47/163 (28%), Positives = 94/163 (57%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ ++  F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLCHDRGYLVTQDELDQTLDQFKQQFGDKPSERRPARNDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  + +T  I+++Q  +T  A +A+G    +
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKTIKTY-CQRMQEENITRAIIVVQTGMTPSAKQALGDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H VLT +EK +LL +Y ++E
Sbjct: 125 YILEHFLESELLINITEHELVPEHVVLTPEEKAELLARYKLKE 167


>gi|410949981|ref|XP_003981695.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Felis catus]
          Length = 212

 Score = 84.7 bits (208), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|354545760|emb|CCE42488.1| hypothetical protein CPAR2_201310 [Candida parapsilosis]
          Length = 214

 Score = 84.3 bits (207), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 57/175 (32%), Positives = 92/175 (52%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R   R + + +TV EM+KDRGY ++  E++++++ FRA         + ++ +  
Sbjct: 1   MDDNDRAISRLFRTYKTVKEMVKDRGYYISQEELDMTLEQFRAKVCNTMGEPQRKL-MCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q+ P+   L          V FC    V +  +R+    I  ++   G I I QN IT  
Sbjct: 60  QATPTAEQLDKFPDMGSLWVEFCDEASVGIKTMRNFCIHISEKNFSVG-IFIYQNGITPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +   Q   +E FQ  DL+VNIT H L PKH  L+  EK++LL++Y ++E Q
Sbjct: 119 ANKLIPTVQPATIETFQENDLIVNITHHELVPKHIKLSRDEKKELLERYRLKESQ 173


>gi|321475403|gb|EFX86366.1| hypothetical protein DAPPUDRAFT_308488 [Daphnia pulex]
          Length = 210

 Score = 84.3 bits (207), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 97/165 (58%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ R +  R+T++++  DRGY V   E++ +++ F+  +G  P   +     L + ++H 
Sbjct: 6   ETYRMWRVRKTIMQLCHDRGYLVTQDELDQTLEQFKIQFGDKPSERKPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  + +T  I+++Q+ +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKTIKTY-CQRMQEENITRAIIVVQSGMTPSAKQSLTDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F  ++LL+NIT+H L P+H VLT +EK++LL +Y ++E Q
Sbjct: 125 YILEYFTESELLINITEHELVPEHVVLTPEEKQELLCRYKLKENQ 169


>gi|255941598|ref|XP_002561568.1| Pc16g12690 [Penicillium chrysogenum Wisconsin 54-1255]
 gi|211586191|emb|CAP93939.1| Pc16g12690 [Penicillium chrysogenum Wisconsin 54-1255]
          Length = 234

 Score = 84.3 bits (207), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 62/187 (33%), Positives = 95/187 (50%), Gaps = 30/187 (16%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRI---- 87
             R+  R + + RTV E+L DRGY V+ +E+ L ++DFRA Y      PD  +++I    
Sbjct: 11  AEREMTRLWRTFRTVYELLADRGYEVSDNELLLPLEDFRAKYSDPLGYPDRTKMKIQARP 70

Query: 88  ----SISHQSDPSKR----------ILVVFC----GPGIVKVNVIRSIISQIVNRDTLTG 129
                + + + PSK           I V FC    G G  +V       + +V+ +    
Sbjct: 71  TETMKMKYTALPSKANPNPQPDCGTIYVDFCPDSSGVGTKQVRAF----NHLVDENNFHT 126

Query: 130 LILILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
            I I Q  I+  A + +     ++ E FQ  DLLVNIT+H L PKH +L+ +EK KLL++
Sbjct: 127 GIFITQTPISPSAVRLLSGVPGRICEHFQEQDLLVNITRHELVPKHVLLSPEEKAKLLER 186

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 187 YRLKESQ 193


>gi|339233930|ref|XP_003382082.1| retinol dehydrogenase 12 [Trichinella spiralis]
 gi|316979012|gb|EFV61880.1| retinol dehydrogenase 12 [Trichinella spiralis]
          Length = 508

 Score = 84.3 bits (207), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/166 (28%), Positives = 92/166 (55%), Gaps = 8/166 (4%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISH 91
           R+  R +  R+   +M +DRG+ V   E++ + +DF   YG  P   +     L   +SH
Sbjct: 6   REIFRLWKIRQNAFQMCRDRGFLVTSYELDQNFEDFVRQYGDRPSEGKPARSDLSFLVSH 65

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-- 149
           + D ++ + V F     V +  I+++  ++   + ++  I+I+Q  +T+ A  +V     
Sbjct: 66  EEDAAENLFVYFADERKVGIKTIKNVCLRL-QSENMSRAIMIVQEPMTAIARHSVADLSP 124

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++K+E F   +L+VNI +H L P+H +++ +EK++LL +Y I+E Q
Sbjct: 125 KYKLEQFLEAELMVNIIRHELVPRHVIMSSKEKDELLDRYKIKEHQ 170


>gi|197098756|ref|NP_001126823.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Pongo
           abelii]
 gi|75054736|sp|Q5R587.1|RPAB1_PONAB RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=DNA-directed RNA polymerase II
           subunit E; AltName: Full=RPB5 homolog
 gi|55732763|emb|CAH93079.1| hypothetical protein [Pongo abelii]
          Length = 210

 Score = 84.3 bits (207), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++FRA +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFRAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|307214976|gb|EFN89821.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Harpegnathos saltator]
          Length = 210

 Score = 84.3 bits (207), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 94/165 (56%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+  YG  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLCHDRGYLVTQDELDQTIEQFKEHYGDKPSEKRPARSELIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQLFVFFPDEPKIGIKTIKTY-CQRMQEEKIHRAIIVVQQGMTPSAKQSLTDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 125 YILEQFLESELLINITEHELVPEHIVLTPDEKEELLTRYKLKENQ 169


>gi|388583908|gb|EIM24209.1| RPB5 subunit of DNA-directed RNA polymerase [Wallemia sebi CBS
           633.66]
          Length = 207

 Score = 84.3 bits (207), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 84/153 (54%), Gaps = 5/153 (3%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR--LRISISHQSDPSKRILVVFC 104
           RT  EM++DRG+AV+  EI +   +F+  Y  +  +DR  L    S + +P  +I V F 
Sbjct: 15  RTAHEMVQDRGFAVSQQEIEIPYAEFKETYAGNGIIDRASLHFFASLEDNPDDQIFVFFA 74

Query: 105 GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEMFQITDLL 162
               + +  +R  ++ +  R    G ILI   ++T  A K +      +K++ F  ++L 
Sbjct: 75  DEPSIGIKTMRKFLTVLEERKIGRG-ILIYPEKLTPAANKVIAEMAADYKLQAFTESELQ 133

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           VNIT H L P+H+VLT +EK+ LL+KY ++  Q
Sbjct: 134 VNITHHQLVPQHEVLTAEEKKLLLQKYRLKPTQ 166


>gi|67624263|ref|XP_668414.1| DNA-directed RNA polymerase 2 [Cryptosporidium hominis TU502]
 gi|54659611|gb|EAL38180.1| DNA-directed RNA polymerase 2 [Cryptosporidium hominis]
 gi|323509171|dbj|BAJ77478.1| cgd2_980 [Cryptosporidium parvum]
 gi|323509997|dbj|BAJ77891.1| cgd2_980 [Cryptosporidium parvum]
          Length = 205

 Score = 84.3 bits (207), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 57/159 (35%), Positives = 88/159 (55%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R++ +RRT+ EML+DRGY V+  +       F+  +     +  R+ +  SH+ D +KRI
Sbjct: 7   RFFRARRTLCEMLEDRGYIVSSQDKEEDFSTFKERFESHQRLRSRMLMVASHRQDQTKRI 66

Query: 100 LVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMF 156
           +  F        V  IR I+ ++ +   +   ILI QN +T+ A  A+     +  +E F
Sbjct: 67  ICYFADESKKTGVKPIRDIVEKM-DEHAIQRAILISQNVLTAHAKVAILDAAPKHYIESF 125

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              +LLVNITKH L PKH +L+D EK +LL +Y I+E Q
Sbjct: 126 LENELLVNITKHELVPKHILLSDDEKLQLLDRYKIKETQ 164


>gi|50426767|ref|XP_461981.1| DEHA2G09988p [Debaryomyces hansenii CBS767]
 gi|54036338|sp|Q6BIJ0.1|RPAB1_DEBHA RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1
 gi|49657651|emb|CAG90451.1| DEHA2G09988p [Debaryomyces hansenii CBS767]
          Length = 214

 Score = 84.3 bits (207), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 57/175 (32%), Positives = 93/175 (53%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +++  R   R + S +TV EM++DRGY +   EI++S+ +FR+      +V + ++ +  
Sbjct: 1   MEDTDRTISRLWRSFKTVKEMVRDRGYYITQEEIDMSLAEFRSRICDSMNVPQRKL-MCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q++P+   L          V FC    V +  +R+    I  ++  TG I I Q+ IT  
Sbjct: 60  QANPTAESLEKFPDLGSLWVEFCDEASVGIKTMRNFCIHISEKNFSTG-IFIYQSSITPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +       +E FQ  DL+VNIT H L PKH  L   EK++LL++Y ++E Q
Sbjct: 119 ANKLIPTVSPASIETFQEGDLVVNITHHDLVPKHIKLARDEKKELLERYRLKESQ 173


>gi|357164319|ref|XP_003580017.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Brachypodium distachyon]
          Length = 205

 Score = 84.0 bits (206), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 55/162 (33%), Positives = 89/162 (54%), Gaps = 13/162 (8%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRTV+EML+DRGY V  ++I LS+++F   YG     + L I+   + +P+++I 
Sbjct: 9   RLFRIRRTVMEMLRDRGYLVVDADIELSMREFIDRYGDPVRREDLVINRVKKDNPNEQIY 68

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG--LFQ-----FKV 153
           V F       V  +R    ++   +   G+I      +  QA  A    + Q     F +
Sbjct: 69  VFFPSEAKPGVKTVRGYADKMKQENVTNGII------VAEQALSAFARNVLQDNSKSFFL 122

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E+FQ  +LLVNI  H L P+H +LT ++K+ LL+KY+++E Q
Sbjct: 123 EVFQEGELLVNIKNHELVPEHVLLTHEQKKTLLEKYTVKETQ 164


>gi|442755873|gb|JAA70096.1| Putative rna polymerase 25-kda subunit common to polymerases i ii
           and iii [Ixodes ricinus]
          Length = 210

 Score = 84.0 bits (206), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 94/172 (54%), Gaps = 8/172 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +   F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLCHDRGYLVTQDELDQTQDQFKQQFGDKPSERRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  + +T  I+++Q  +T  A +A+G    +
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKTIKTY-CQRMQEENITRAIIVVQQGMTPSAKQALGDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQQHNRHLC 202
           + +E F  ++LL+NIT+H L P+H VLT +EK +LL +Y ++E        C
Sbjct: 125 YILEHFLESELLINITEHELVPEHVVLTPEEKAELLARYKLKENHLMKIQAC 176


>gi|402589264|gb|EJW83196.1| DNA-directed RNA polymerase I [Wuchereria bancrofti]
          Length = 191

 Score = 84.0 bits (206), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 87/151 (57%), Gaps = 8/151 (5%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYG-----QDPDVDRLRISISHQSDPSKRILVVFCGP 106
           M  DRGY V   E++ ++++F+  +G     + P  + L + ++H  DP+ ++ V F   
Sbjct: 1   MCHDRGYLVTQEELDQTLENFKETFGDKPSERHPSRNELTVLVAHNDDPTDQMFVFFPED 60

Query: 107 GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVN 164
             + +  I++I  Q+     +T  I+++Q  +T  A +A+     ++ +E F   +L+VN
Sbjct: 61  SKIGIKTIKAICQQM-QEQAITRAIIVVQTGMTPSAKQAIADMAPKYTLEQFLEAELMVN 119

Query: 165 ITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           IT+H L P+H V+T++EK +LL +Y +++ Q
Sbjct: 120 ITEHELVPEHVVMTNEEKNELLGRYKLKDTQ 150


>gi|412988339|emb|CCO17675.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Bathycoccus prasinos]
          Length = 205

 Score = 83.6 bits (205), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 54/153 (35%), Positives = 87/153 (56%), Gaps = 5/153 (3%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+TV +ML  RGY V+  E+      F   +G +   + L I +  + DPS+ I V F  
Sbjct: 14  RKTVSKMLASRGYLVSQKELERDKDSFLEEFG-EVSREHLTIMVPKRDDPSENIFVFFPE 72

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ---FKVEMFQITDLL 162
              V V +I+    ++   + +  +I+I ++ +T  A +++   Q   F +E FQ T+LL
Sbjct: 73  EEKVGVKMIKDYAKRMREENVMRAIIVI-RSSLTPFAKQSLLEVQQQKFIIETFQETELL 131

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           VNIT H+L PKH +LTD+EK+ LL++Y + E Q
Sbjct: 132 VNITDHILVPKHVLLTDEEKKTLLERYKVRETQ 164


>gi|66358302|ref|XP_626329.1| DNA-directed RNA polymerase 2 [Cryptosporidium parvum Iowa II]
 gi|46228002|gb|EAK88922.1| putative DNA-directed RNA polymerase 2 [Cryptosporidium parvum Iowa
           II]
          Length = 214

 Score = 83.6 bits (205), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 57/159 (35%), Positives = 88/159 (55%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R++ +RRT+ EML+DRGY V+  +       F+  +     +  R+ +  SH+ D +KRI
Sbjct: 16  RFFRARRTLCEMLEDRGYIVSSQDKEEDFSTFKERFESHQRLRSRMLMVASHRQDQTKRI 75

Query: 100 LVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMF 156
           +  F        V  IR I+ ++ +   +   ILI QN +T+ A  A+     +  +E F
Sbjct: 76  ICYFADESKKTGVKPIRDIVEKM-DEHAIQRAILISQNVLTAHAKVAILDAAPKHYIESF 134

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              +LLVNITKH L PKH +L+D EK +LL +Y I+E Q
Sbjct: 135 LENELLVNITKHELVPKHILLSDDEKLQLLDRYKIKETQ 173


>gi|452822190|gb|EME29212.1| DNA-directed RNA polymerase II subunit E [Galdieria sulphuraria]
          Length = 212

 Score = 83.6 bits (205), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 54/155 (34%), Positives = 89/155 (57%), Gaps = 6/155 (3%)

Query: 46  RRTVLEMLKDRGYAV--ALSEINLSVQDFRAIYGQ-DPDVDRLRISISHQSDPSKRILVV 102
           R+T+LEML+DRGY V    S++ ++ ++F +   Q +   + L +   HQ DPS +I V 
Sbjct: 18  RKTILEMLRDRGYVVLETSSDLEMTREEFGSRLQQANYSRESLTLLKQHQHDPSDQIYVF 77

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN--QITSQATKAVGLFQFKVEMFQITD 160
           F     V V  +R    ++        +++++++      Q  + V   QFKVE+F   +
Sbjct: 78  FPAEERVSVKTLRDYFVRMDQERVYKAILVVIKSLSPFAKQGIQKVA-SQFKVEVFLEME 136

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LLVNIT H L PKH+VL+ + K++LLK+Y ++E Q
Sbjct: 137 LLVNITHHELVPKHEVLSTEGKKQLLKRYHLKESQ 171


>gi|326499964|dbj|BAJ90817.1| predicted protein [Hordeum vulgare subsp. vulgare]
          Length = 132

 Score = 83.6 bits (205), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 47/96 (48%), Positives = 68/96 (70%), Gaps = 2/96 (2%)

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG-LFQFKVEMFQIT 159
           ++FC P  V++  I+ I  QI   + L+ LILIL  +I  +A ++V   F FKV++FQ+ 
Sbjct: 30  ILFCPPEPVRIANIQEIHDQI-EGENLSRLILILLGKIMPRAKESVKEKFTFKVDIFQVN 88

Query: 160 DLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +LLVNI+KH LKPKH+VLT +EK KLLK Y++E+ Q
Sbjct: 89  ELLVNISKHDLKPKHEVLTAEEKAKLLKLYNVEDSQ 124


>gi|410342181|gb|JAA40037.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Pan
           troglodytes]
 gi|410342183|gb|JAA40038.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Pan
           troglodytes]
 gi|410342185|gb|JAA40039.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Pan
           troglodytes]
          Length = 217

 Score = 83.6 bits (205), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|50550027|ref|XP_502486.1| YALI0D06457p [Yarrowia lipolytica]
 gi|54036340|sp|Q6CA26.1|RPAB1_YARLI RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1
 gi|49648354|emb|CAG80674.1| YALI0D06457p [Yarrowia lipolytica CLIB122]
          Length = 212

 Score = 83.2 bits (204), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 86/172 (50%), Gaps = 13/172 (7%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSD 94
            S D+ + +   RT  E++KDRGY +   E+NLS   F +    DP    ++  +   + 
Sbjct: 2   SSDDAQKLWKVYRTAKELVKDRGYTITDKEVNLSFDQFVSEMC-DPMGKPIKKKMCFMAS 60

Query: 95  PSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           PS            I V FC    V V  +R+    I      TG IL+ +N +T  A +
Sbjct: 61  PSPEAIEKFPEMGNIWVEFCEEASVTVKTMRNFCIHISENKFATG-ILVYENNMTPSANR 119

Query: 145 AV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +  +    ++ FQ TDLLVNITKHVL P H  L+  EK+ LL++Y ++E Q
Sbjct: 120 LIPSVAPATIDTFQETDLLVNITKHVLVPTHIKLSGAEKKFLLERYRLKESQ 171


>gi|126275976|ref|XP_001386931.1| DNA-directed RNA polymerases II 24 kDa polypeptide (RNA polymerase
           II subunit 5) [Scheffersomyces stipitis CBS 6054]
 gi|126212800|gb|EAZ62908.1| DNA-directed RNA polymerases II 24 kDa polypeptide (RNA polymerase
           II subunit 5) [Scheffersomyces stipitis CBS 6054]
          Length = 213

 Score = 83.2 bits (204), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 56/166 (33%), Positives = 87/166 (52%), Gaps = 13/166 (7%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R + S +TV EM++DRGY +   E+++S+ +FRA         + ++ +  Q++P+   L
Sbjct: 9   RLFRSFKTVKEMVRDRGYYITQEEVDMSLDEFRAKICDSMGRPQRKL-MCFQANPTAESL 67

Query: 101 ----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ 150
                     V FC    V +  +R+    I  ++  TG I I QN IT  A K +    
Sbjct: 68  DKFPDLGSLWVEFCDEASVGIKTMRNFCIHISEKNFSTG-IFIYQNSITPSANKLIPTVS 126

Query: 151 -FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              +E FQ  DL+VNIT H L PKH  L+  EK++LL +Y ++E Q
Sbjct: 127 PASIETFQEGDLVVNITHHELVPKHIKLSRDEKKELLDRYRLKESQ 172


>gi|254570507|ref|XP_002492363.1| RNA polymerase subunit ABC27, common to RNA polymerases I, II, and
           III [Komagataella pastoris GS115]
 gi|238032161|emb|CAY70112.1| RNA polymerase subunit ABC27, common to RNA polymerases I, II, and
           III [Komagataella pastoris GS115]
 gi|328353624|emb|CCA40022.1| DNA-directed RNA polymerase II subunit E [Komagataella pastoris CBS
           7435]
          Length = 214

 Score = 83.2 bits (204), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 60/175 (34%), Positives = 94/175 (53%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +++ +R   R + S RTV EM  DRGY ++  E++ S+++FR+    D   +  R  +S 
Sbjct: 1   MEDNNRIISRLWRSFRTVKEMAADRGYFISQEEMDQSLEEFRSKIC-DSMGNPQRKLMSF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
            ++P+   L          V FC    V +  +R+   +I  ++  TG I I QN IT  
Sbjct: 60  LANPTPEALEKYSDLGTLWVEFCDEPSVGIKTMRNFCLRIQEKNFSTG-IFIYQNNITPS 118

Query: 142 ATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +      + E FQ +DL+VNIT H L PKH  L+D EK +LL++Y ++E Q
Sbjct: 119 ANKMIPTVSPAIIETFQESDLVVNITHHELVPKHIRLSDGEKSQLLQRYKLKESQ 173


>gi|408398400|gb|EKJ77531.1| hypothetical protein FPSE_02281 [Fusarium pseudograminearum CS3096]
          Length = 234

 Score = 83.2 bits (204), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 61/187 (32%), Positives = 97/187 (51%), Gaps = 26/187 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  S++ +R + + RTV EM+ DR Y +A  E+ +S+  FR  Y  +PD    R  +S  
Sbjct: 9   DAKSKEVVRLWRAWRTVHEMVADREYELAEEEVKISLDRFRDEYC-NPDGSINRNKLSFS 67

Query: 93  SDPSKRILVVF--------------CGPGIVK--------VNVIRSIISQIVNRDTLTGL 130
           + PS  ++  F              CGP  ++        VN IR+  S +++ +  TG 
Sbjct: 68  ARPSTAMMRKFTPPATAANPDPVADCGPIWIEFLADKTFGVNQIRAFASYVISNNYKTG- 126

Query: 131 ILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           I+I    ++  A +++   +   K+E F   DLLVNIT H L PKH +L+ +EK  LLK+
Sbjct: 127 IMITHVPLSPAARRSLASVESLAKIECFLEDDLLVNITHHELVPKHVLLSREEKIALLKR 186

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 187 YRLKETQ 193


>gi|355702921|gb|EHH29412.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Macaca
           mulatta]
          Length = 210

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVSELLARYKLRENQ 169


>gi|162606200|ref|XP_001713615.1| RNA polymerase I, II and III 24.3 kDa subunit [Guillardia theta]
 gi|13794535|gb|AAK39910.1|AF165818_118 RNA polymerase I, II and III 24.3 kDa subunit [Guillardia theta]
          Length = 214

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 56/158 (35%), Positives = 89/158 (56%), Gaps = 12/158 (7%)

Query: 46  RRTVLEMLKDRGYAVALS--EINLSVQDFRAIYGQDPDVDR--LRISISHQSDPSKRILV 101
           RRTVL+M++DRGY V  S  ++N+S   F   Y ++  + R  L I      +P  RIL+
Sbjct: 14  RRTVLQMIRDRGYVVFDSKDDLNISRSSFEEFYMKNHAICRKSLEIKRPRWDNPENRILI 73

Query: 102 VFCGPGIVKVNV----IRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK---VE 154
           VF      K+N+    IR    +I N +  + +++IL  ++T  A +AV         +E
Sbjct: 74  VFVEGEKDKMNIGVKSIRLFCERIKN-EGFSRVLMILNGKLTPHAKQAVSSINSNNDLIE 132

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
            F   +L+VNIT H+L PKH++L+  E + LL++YSI+
Sbjct: 133 YFSENELIVNITHHMLVPKHEILSKNESKSLLERYSIK 170


>gi|355712729|gb|AES04446.1| polymerase II polypeptide E, 25kDa [Mustela putorius furo]
          Length = 209

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|345786834|ref|XP_854641.2| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 1 [Canis lupus familiaris]
          Length = 210

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|124249077|ref|NP_079830.2| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Mus
           musculus]
 gi|157819761|ref|NP_001103084.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Rattus
           norvegicus]
 gi|54036414|sp|Q80UW8.1|RPAB1_MOUSE RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=DNA-directed RNA polymerase II
           subunit E; AltName: Full=RPB5 homolog
 gi|182676546|sp|B0BNE2.1|RPAB1_RAT RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=DNA-directed RNA polymerase II
           subunit E; AltName: Full=RPB5 homolog
 gi|28374319|gb|AAH45521.1| Polymerase (RNA) II (DNA directed) polypeptide E [Mus musculus]
 gi|74194812|dbj|BAE25998.1| unnamed protein product [Mus musculus]
 gi|74198334|dbj|BAE43245.1| unnamed protein product [Mus musculus]
 gi|74205025|dbj|BAE20985.1| unnamed protein product [Mus musculus]
 gi|74208142|dbj|BAE26292.1| unnamed protein product [Mus musculus]
 gi|148699661|gb|EDL31608.1| mCG13422, isoform CRA_a [Mus musculus]
 gi|149034612|gb|EDL89349.1| rCG29511, isoform CRA_e [Rattus norvegicus]
 gi|149034613|gb|EDL89350.1| rCG29511, isoform CRA_e [Rattus norvegicus]
 gi|149034614|gb|EDL89351.1| rCG29511, isoform CRA_e [Rattus norvegicus]
 gi|165971683|gb|AAI58788.1| Polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Rattus
           norvegicus]
          Length = 210

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRESQ 169


>gi|417408698|gb|JAA50889.1| Putative dna-directed rna polymerases i ii and iii subunit
           rpabc1-like isoform 2, partial [Desmodus rotundus]
          Length = 212

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 4   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 63

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 64  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 122

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 123 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 171


>gi|198471708|ref|XP_002133816.1| GA22581 [Drosophila pseudoobscura pseudoobscura]
 gi|198146041|gb|EDY72443.1| GA22581 [Drosophila pseudoobscura pseudoobscura]
          Length = 320

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 89/157 (56%), Gaps = 8/157 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-----QDPDVDRLRISISHQSDPSKRIL 100
           R+T+ EM  DRGY V  +E++ +V+ F  ++G     Q P    L + +SH  DP  R+L
Sbjct: 14  RKTLFEMSHDRGYLVTSAELDQTVEQFTELFGDKPSEQSPMRSDLTMLLSHADDPKNRML 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEMFQI 158
           V F     V V  I++   ++   + +   IL++++ +T  A +++      + +E F  
Sbjct: 74  VFFPEEPKVAVKTIKAYAHRM-EGEGIHRAILVVRDCLTPPAKQSIMAMAPLYIMEQFLE 132

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++L +N+TKH L P+H VL++ EK++L + Y ++E Q
Sbjct: 133 SELTINVTKHELVPQHVVLSEVEKKQLFRCYRLKESQ 169


>gi|1060912|dbj|BAA07406.1| RPB5 [Homo sapiens]
          Length = 210

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLEQELLINITEHELVPEHVVMTKEEVSELLARYKLRENQ 169


>gi|385301817|gb|EIF45980.1| dna-directed rna polymerases ii 24 kda polypeptide [Dekkera
           bruxellensis AWRI1499]
          Length = 194

 Score = 83.2 bits (204), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 88/155 (56%), Gaps = 13/155 (8%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL----------V 101
           M+KDRGY +   EI+L +  FR  +     V + ++ +S Q+ P++  L          V
Sbjct: 1   MVKDRGYYIPQEEIDLPLDQFREKFCDSMGVPQRKL-MSFQATPTQDALEKYGDLGPLWV 59

Query: 102 VFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-FKVEMFQITD 160
            FC    V +  +++  + I +++  TG I I Q  +T  ATKA+ + +   +E+FQ ++
Sbjct: 60  EFCDEPSVGIQTMKNFCAHIADKNFSTG-IFIYQQNMTPSATKAIAVAEPATIEIFQESE 118

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++VNIT H L PKH  L+++EK  LLK+Y ++E Q
Sbjct: 119 IVVNITHHELVPKHIRLSNEEKIDLLKRYRLKESQ 153


>gi|441656609|ref|XP_004093285.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerases I, II,
           and III subunit RPABC1 [Nomascus leucogenys]
          Length = 210

 Score = 82.8 bits (203), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQXGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEMTELLARYKLRENQ 169


>gi|14589951|ref|NP_002686.2| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Homo
           sapiens]
 gi|149761124|ref|XP_001496313.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Equus caballus]
 gi|301776310|ref|XP_002923555.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 1 [Ailuropoda melanoleuca]
 gi|301776312|ref|XP_002923556.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 2 [Ailuropoda melanoleuca]
 gi|335282254|ref|XP_003354010.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 1 [Sus scrofa]
 gi|335282256|ref|XP_003354011.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 2 [Sus scrofa]
 gi|348550374|ref|XP_003461007.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cavia porcellus]
 gi|395831291|ref|XP_003788737.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Otolemur garnettii]
 gi|402903526|ref|XP_003914616.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Papio anubis]
 gi|403308121|ref|XP_003944520.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 1 [Saimiri boliviensis boliviensis]
 gi|403308123|ref|XP_003944521.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 2 [Saimiri boliviensis boliviensis]
 gi|403308125|ref|XP_003944522.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 3 [Saimiri boliviensis boliviensis]
 gi|403308127|ref|XP_003944523.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 4 [Saimiri boliviensis boliviensis]
 gi|426229485|ref|XP_004008821.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 1 [Ovis aries]
 gi|426229487|ref|XP_004008822.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 2 [Ovis aries]
 gi|426386425|ref|XP_004059685.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 1 [Gorilla gorilla gorilla]
 gi|426386427|ref|XP_004059686.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 2 [Gorilla gorilla gorilla]
 gi|426386429|ref|XP_004059687.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 3 [Gorilla gorilla gorilla]
 gi|426386431|ref|XP_004059688.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 isoform 4 [Gorilla gorilla gorilla]
 gi|678549|gb|AAA62401.1| RNA polymerase II 23kD subunit [Homo sapiens]
 gi|13325244|gb|AAH04441.1| Polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Homo
           sapiens]
 gi|119589954|gb|EAW69548.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa, isoform
           CRA_b [Homo sapiens]
 gi|119589955|gb|EAW69549.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa, isoform
           CRA_b [Homo sapiens]
 gi|189069173|dbj|BAG35511.1| unnamed protein product [Homo sapiens]
 gi|208967082|dbj|BAG73555.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [synthetic
           construct]
 gi|296485369|tpg|DAA27484.1| TPA: DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Bos taurus]
 gi|312152670|gb|ADQ32847.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [synthetic
           construct]
 gi|355755269|gb|EHH59016.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Macaca
           fascicularis]
 gi|387542622|gb|AFJ71938.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Macaca
           mulatta]
 gi|410264992|gb|JAA20462.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Pan
           troglodytes]
 gi|410264994|gb|JAA20463.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Pan
           troglodytes]
 gi|410299730|gb|JAA28465.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Pan
           troglodytes]
 gi|410299732|gb|JAA28466.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Pan
           troglodytes]
 gi|440910422|gb|ELR60220.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Bos
           grunniens mutus]
          Length = 210

 Score = 82.8 bits (203), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|448525471|ref|XP_003869121.1| Rpb5 protein [Candida orthopsilosis Co 90-125]
 gi|380353474|emb|CCG22984.1| Rpb5 protein [Candida orthopsilosis]
          Length = 214

 Score = 82.8 bits (203), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 91/175 (52%), Gaps = 13/175 (7%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH 91
           +D+  R   R + + +TV EM+KDRGY ++  E+ ++++ FR+         + ++ +  
Sbjct: 1   MDDNDRAISRLFRTYKTVKEMVKDRGYYISQEELEMTLEQFRSKVCNSMGEPQRKL-MCF 59

Query: 92  QSDPSKRIL----------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
           Q+ P+   L          V FC    V +  +R+    I  ++   G I I QN IT  
Sbjct: 60  QATPNAEQLEKFPDMGSLWVEFCDEASVGIKTMRNFCIHISEKNFSVG-IFIYQNGITPS 118

Query: 142 ATKAVGLFQ-FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A K +   Q   +E FQ  DL+VNIT H L PKH  L+  EK++LL++Y ++E Q
Sbjct: 119 ANKLIPTVQPATIETFQENDLIVNITHHELVPKHIKLSRDEKKELLERYRLKESQ 173


>gi|326430122|gb|EGD75692.1| polymerase II polypeptide E [Salpingoeca sp. ATCC 50818]
          Length = 201

 Score = 82.8 bits (203), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 47/151 (31%), Positives = 87/151 (57%), Gaps = 6/151 (3%)

Query: 48  TVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPG 107
           T +++  DRGY+V  +E+  S  +F   +G DP    L    +H+ D   RI + +    
Sbjct: 12  TTVQLCSDRGYSVPHTEV--SKTEFEQRFGSDPRPSELDSVFAHKKDEQNRIAIFWADDL 69

Query: 108 IVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV---GLFQFKVEMFQITDLLVN 164
            + ++ ++  + ++  +    G+I + Q ++T  A+KAV         V++F IT+L+VN
Sbjct: 70  KIGISKVKEYLDKLTQQGINAGII-VAQAKLTPSASKAVRDAASAGITVQVFDITELIVN 128

Query: 165 ITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           IT+H L P+H VL+ +EK+ LL++Y ++E+Q
Sbjct: 129 ITRHELVPQHVVLSKEEKQALLQRYKLQEQQ 159


>gi|339250892|ref|XP_003374431.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Trichinella spiralis]
 gi|316969258|gb|EFV53386.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Trichinella spiralis]
          Length = 211

 Score = 82.8 bits (203), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 46/166 (27%), Positives = 92/166 (55%), Gaps = 8/166 (4%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISH 91
           R+  R +  R    +M +DRG+ V  +E++ + +DF   YG  P   +     L   +SH
Sbjct: 6   REIFRLWKIRHNAFQMCRDRGFLVTSNELDQNFEDFVRQYGDRPSEGKPARSDLSFLVSH 65

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-- 149
           + D ++ + V F     V +  I+++  ++   + ++  I+I+Q  +T+ A  +V     
Sbjct: 66  EEDAAENLFVYFADEKKVGIKTIKNVCLRL-QSENMSRAIMIVQEPMTAIARHSVADLSP 124

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++++E F   +L+VNI +H L P+H +++ +EK++LL +Y I+E Q
Sbjct: 125 KYRLEQFLEAELMVNIIRHELVPRHVIMSSKEKDELLDRYKIKEHQ 170


>gi|46255774|gb|AAH34144.1| Polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Homo
           sapiens]
          Length = 210

 Score = 82.8 bits (203), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|307108804|gb|EFN57043.1| hypothetical protein CHLNCDRAFT_48698 [Chlorella variabilis]
          Length = 203

 Score = 82.8 bits (203), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 90/157 (57%), Gaps = 8/157 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRIL 100
           RRT LEML+DRGY +   ++ +S + F   +  +PD + +R     I  S   DP+ +  
Sbjct: 7   RRTCLEMLRDRGYQIDKEDVEMSGRKFVEKFATEPDPENVRRDAITILASKADDPTHQAF 66

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     + V  I+++  ++ + + +   IL+LQ+++T  A + +     +F +E+F  
Sbjct: 67  VFFFEDPKLGVKAIKAVAVRMRD-ERVPRSILVLQDKLTPFAKQCIQEMSAKFAIEVFAE 125

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +L VNIT+H + P+HQVL+  +K  LL++Y +++ Q
Sbjct: 126 GELRVNITRHSMVPQHQVLSRLDKAALLERYKVKDTQ 162


>gi|66543279|ref|XP_623541.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Apis mellifera]
          Length = 179

 Score = 82.8 bits (203), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 90/168 (53%), Gaps = 6/168 (3%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + 
Sbjct: 2   DDEAETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     + +  I++   ++        +I++ Q    S     V +
Sbjct: 62  VAHNDDPTDQLFVFFPDEPKIGIKTIKTYCQRMQEEKIHRAIIVVQQGMTPSAKQSLVDM 121

Query: 149 F-QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             ++ +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 122 APKYILEQFLESELLINITEHELVPEHIVLTPDEKEELLTRYKLKENQ 169


>gi|350537103|ref|NP_001232745.1| putative DNA directed RNA polymerase II polypeptide E [Taeniopygia
           guttata]
 gi|118103219|ref|XP_418224.2| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Gallus gallus]
 gi|126323555|ref|XP_001365263.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Monodelphis domestica]
 gi|395513329|ref|XP_003760879.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Sarcophilus harrisii]
 gi|197127122|gb|ACH43620.1| putative DNA directed RNA polymerase II polypeptide E [Taeniopygia
           guttata]
 gi|387018228|gb|AFJ51232.1| putative DNA directed RNA polymerase II polypeptide E [Crotalus
           adamanteus]
          Length = 210

 Score = 82.4 bits (202), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 89/168 (52%), Gaps = 6/168 (3%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+    ++   +    LI++ Q    S     V +
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIKMYCQRMQEENITRALIVVQQGMTPSAKQSLVDM 121

Query: 149 F-QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 122 APKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|367046000|ref|XP_003653380.1| hypothetical protein THITE_2170468 [Thielavia terrestris NRRL 8126]
 gi|347000642|gb|AEO67044.1| hypothetical protein THITE_2170468 [Thielavia terrestris NRRL 8126]
          Length = 234

 Score = 82.4 bits (202), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 58/184 (31%), Positives = 96/184 (52%), Gaps = 25/184 (13%)

Query: 36  SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS---- 88
           +++  R + + RT+ EM++DRGY +A  E+ +S+  FRA Y  D   P+  +++ S    
Sbjct: 11  AKEVTRLWRAWRTIHEMVQDRGYELAEEEVKISLDRFRAEYTNDDGSPNRAKMQFSARPS 70

Query: 89  -----------ISHQSDPSKR---ILVVFC-GPGIVKVNVIRSIISQIVNRDTLTGLILI 133
                       +   DP+     I V FC   G + ++V++  +      +   G IL+
Sbjct: 71  EAMIKKFTPPPTAANPDPAPECGTIWVEFCPDKGSIGISVMKKFVEHCAQNNFRAG-ILV 129

Query: 134 LQNQITSQATKAVGLF-QFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
               +++QA K + +  QF  +E F   DLLVNIT H L PKH +L+ +EK  LLK+Y +
Sbjct: 130 TAVALSAQARKVMTVTSQFTLIECFLEEDLLVNITHHELVPKHVLLSREEKAALLKRYRL 189

Query: 192 EEKQ 195
           +E Q
Sbjct: 190 KETQ 193


>gi|145230680|ref|XP_001389604.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Aspergillus niger CBS 513.88]
 gi|134055723|emb|CAK44096.1| unnamed protein product [Aspergillus niger]
 gi|350638607|gb|EHA26963.1| hypothetical protein ASPNIDRAFT_205564 [Aspergillus niger ATCC
           1015]
 gi|358370671|dbj|GAA87281.1| RNA polymerase subunit [Aspergillus kawachii IFO 4308]
          Length = 235

 Score = 82.4 bits (202), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 61/197 (30%), Positives = 97/197 (49%), Gaps = 31/197 (15%)

Query: 25  ESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PD 81
           E   +G VD   R+  R + + RTV EML DRGY V   E+ + + +F+  Y      PD
Sbjct: 3   EDYSAGSVD-ADREMTRLWRTWRTVFEMLLDRGYEVTEDEVQMPLHEFKQKYSDPLGYPD 61

Query: 82  VDRLRIS-------------ISHQSDPSKR-----ILVVFC----GPGIVKVNVIRSIIS 119
            ++++IS             +  +S+P+ +     I V FC    G G  +V       +
Sbjct: 62  RNKMKISARPTEAMQAKYTPLPSKSNPNPQPDCGTIYVEFCPDSTGVGTKQVRTF----N 117

Query: 120 QIVNRDTLTGLILILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLT 178
             V+ +     + I Q  I+  A + +     ++ E FQ  DLLVNIT+H L PKH +L+
Sbjct: 118 HFVDENNFHTGVFITQTPISPSAVRLLSSMPGRICEHFQEQDLLVNITRHELVPKHVLLS 177

Query: 179 DQEKEKLLKKYSIEEKQ 195
             EK +LL++Y ++E Q
Sbjct: 178 PDEKARLLERYRLKESQ 194


>gi|114674426|ref|XP_512960.2| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Pan troglodytes]
          Length = 230

 Score = 82.4 bits (202), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 91/158 (57%), Gaps = 8/158 (5%)

Query: 45  SRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRI 99
           SR+T++++  DRGY V   E++ ++++F+A +G  P   R R     + ++H  DP+ ++
Sbjct: 33  SRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQM 92

Query: 100 LVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQ 157
            V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++     ++ +E F 
Sbjct: 93  FVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFL 151

Query: 158 ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 152 QQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 189


>gi|294950415|ref|XP_002786618.1| DNA-directed RNA polymerases II 24 kDa polypeptide, putative
           [Perkinsus marinus ATCC 50983]
 gi|239900910|gb|EER18414.1| DNA-directed RNA polymerases II 24 kDa polypeptide, putative
           [Perkinsus marinus ATCC 50983]
          Length = 213

 Score = 82.4 bits (202), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 59/174 (33%), Positives = 100/174 (57%), Gaps = 11/174 (6%)

Query: 29  SGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG--QDPDVDR-- 84
           SG +D+ +   +R +  R+T+ E+L+DRGY VA   +N + + F   +   Q+    R  
Sbjct: 3   SGPIDDTT---IRLWRVRKTIFELLQDRGYVVAQKYLNETKESFAQQWNEIQERKGGRHD 59

Query: 85  LRISISHQSDPSKRILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
           L I +S Q DPS +++V F      V V  IR++  ++     L+  IL++Q  +T+ A 
Sbjct: 60  LIILVSKQDDPSDQLIVFFPDENKRVGVKPIRTLALKM-EEQRLSRAILVVQQPLTAFAK 118

Query: 144 KAV--GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            A+     Q ++E+F  ++L+VNIT H L P+H+ LT +EK  LL++Y ++E Q
Sbjct: 119 TAIQEASPQMEIEVFNESELVVNITHHELVPEHKPLTPEEKRLLLERYKVKENQ 172


>gi|48124579|ref|XP_396561.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Apis mellifera]
 gi|340724888|ref|XP_003400810.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Bombus terrestris]
 gi|380012055|ref|XP_003690105.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Apis florea]
          Length = 210

 Score = 82.4 bits (202), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 89/164 (54%), Gaps = 6/164 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QF 151
            DP+ ++ V F     + +  I++   ++        +I++ Q    S     V +  ++
Sbjct: 66  DDPTDQLFVFFPDEPKIGIKTIKTYCQRMQEEKIHRAIIVVQQGMTPSAKQSLVDMAPKY 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 126 ILEQFLESELLINITEHELVPEHIVLTPDEKEELLTRYKLKENQ 169


>gi|224001668|ref|XP_002290506.1| RPB5,-like protein to RNA polymerase i [Thalassiosira pseudonana
           CCMP1335]
 gi|220973928|gb|EED92258.1| RPB5,-like protein to RNA polymerase i [Thalassiosira pseudonana
           CCMP1335]
          Length = 226

 Score = 82.0 bits (201), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 58/181 (32%), Positives = 94/181 (51%), Gaps = 8/181 (4%)

Query: 22  EPTESCLSGFVDNGSRDSL-----RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY 76
           +PTE   +      S  SL     R +   +TV  ML  RGY V+     ++  DF   +
Sbjct: 6   QPTEPPTANNTPQTSSSSLTPEASRLFRVYKTVSAMLSKRGYMVSREMREMTPFDFTQRF 65

Query: 77  GQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN 136
           G+ P  + L I +    D + ++ V F     V V  I+ I++  +  + ++  IL+L+ 
Sbjct: 66  GEYPSREGLTILVEKADDETNQLFVFFPEDEKVGVKPIK-ILTDRMKDENVSNAILVLRG 124

Query: 137 QITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEK 194
            IT  A +AV      F++E F+  +LLV+IT+H L P+H VL+  EK++LLK+Y + E 
Sbjct: 125 DITPFAKQAVLEMSDSFRLEHFKEAELLVDITEHTLVPEHLVLSQNEKQELLKRYRLRET 184

Query: 195 Q 195
           Q
Sbjct: 185 Q 185


>gi|317574789|ref|NP_001187413.1| DNA-directed RNA polymerases i II and III subunit rpabc1 [Ictalurus
           punctatus]
 gi|308322947|gb|ADO28611.1| DNA-directed RNA polymerases i II and III subunit rpabc1 [Ictalurus
           punctatus]
          Length = 210

 Score = 82.0 bits (201), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 96/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R + +R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKTRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKESQ 169


>gi|350422012|ref|XP_003493028.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Bombus impatiens]
          Length = 210

 Score = 82.0 bits (201), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 89/164 (54%), Gaps = 6/164 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QF 151
            DP+ ++ V F     + +  I++   ++        +I++ Q    S     V +  ++
Sbjct: 66  DDPTDQLFVFFPDEPKIGIKTIKTYCQRMQEEKIHRAIIVVQQGMTPSAKQSLVDMAPKY 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 126 ILEQFLESELLINITEHELVPEHIVLTPDEKEELLTRYKLKENQ 169


>gi|383865249|ref|XP_003708087.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Megachile rotundata]
          Length = 210

 Score = 82.0 bits (201), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 89/164 (54%), Gaps = 6/164 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QF 151
            DP+ ++ V F     + +  I++   ++        +I++ Q    S     V +  ++
Sbjct: 66  DDPTDQLFVFFPDEPKIGIKTIKTYCQRMQEEKIHRAIIVVQQGMTPSAKQSLVDMAPKY 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 126 ILEQFLESELLINITEHELVPEHIVLTPDEKEELLGRYKLKENQ 169


>gi|156548548|ref|XP_001604962.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Nasonia vitripennis]
          Length = 210

 Score = 82.0 bits (201), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 95/165 (57%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  + +   I+++Q+ +T  A +++     +
Sbjct: 66  DDPTDQLFVFFPDEPKIGIKTIKTY-CQRMQEEKIHRAIIVVQSGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 125 YILEQFLESELLINITEHELVPEHIVLTPDEKEELLTRYKLKENQ 169


>gi|149287100|gb|ABR23449.1| 25-kDa subunit RNA polymerase [Ornithodoros parkeri]
          Length = 210

 Score = 82.0 bits (201), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/163 (28%), Positives = 93/163 (57%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ ++  F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLCHDRGYLVTQDELDQTLDQFKQQFGDKPSERRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  + +T  I+++Q  +T  A +A+     +
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKTIKTY-CQRMQEENITRAIIVVQQGMTPSAKQALTDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H VLT +EK +LL +Y ++E
Sbjct: 125 YILEYFLESELLINITEHELVPEHVVLTPEEKAELLARYKLKE 167


>gi|57525846|ref|NP_001003564.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Danio
           rerio]
 gi|50417194|gb|AAH77151.1| Polymerase (RNA) II (DNA directed) polypeptide E [Danio rerio]
          Length = 210

 Score = 82.0 bits (201), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +FR+ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFRSQFGDKPSEGRPRRNDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKESQ 169


>gi|85105978|ref|XP_962076.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Neurospora
           crassa OR74A]
 gi|28923670|gb|EAA32840.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Neurospora
           crassa OR74A]
          Length = 234

 Score = 81.6 bits (200), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 58/188 (30%), Positives = 99/188 (52%), Gaps = 29/188 (15%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQ 92
           + S++  R + + RTV EM++DRGY +A  E+ +S++ F+A Y  +D   +R ++  S  
Sbjct: 9   SASKEVSRLWRAWRTVHEMVQDRGYELAEDEVKISLERFKAEYTNEDGTPNRAKLQFS-- 66

Query: 93  SDPSKRILVVFCGP-----------------------GIVKVNVIRSIISQIVNRDTLTG 129
           + PS+ ++  F  P                       G + V+V++  ++   +     G
Sbjct: 67  ARPSEAMIKKFTAPPTPSNPNPVPECGTIWVEFCTEKGSIGVSVMKKFVTHCSDNKFKAG 126

Query: 130 LILILQNQITSQATKAVGLF-QF-KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            I I    +++QA K + +  Q+ +VE F   DLLVNIT H L PKH +L+ +EK  LLK
Sbjct: 127 -IFITAVPLSAQARKVMSVTSQYTQVECFLEEDLLVNITHHELVPKHVLLSKEEKAALLK 185

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 186 RYRLKETQ 193


>gi|226371984|gb|ACO51617.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Rana
           catesbeiana]
          Length = 210

 Score = 81.3 bits (199), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 93/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T  E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKDEVTELLARYKLRESQ 169


>gi|348504738|ref|XP_003439918.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Oreochromis niloticus]
          Length = 210

 Score = 81.3 bits (199), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 96/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F++ +G  P   R     L + 
Sbjct: 2   DDDEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKESQ 169


>gi|432855568|ref|XP_004068251.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 1 [Oryzias latipes]
          Length = 210

 Score = 81.3 bits (199), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 96/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F++ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKESQ 169


>gi|302423138|ref|XP_003009399.1| DNA-directed RNA polymerases I [Verticillium albo-atrum VaMs.102]
 gi|261352545|gb|EEY14973.1| DNA-directed RNA polymerases I [Verticillium albo-atrum VaMs.102]
 gi|346970556|gb|EGY14008.1| DNA-directed RNA polymerases I [Verticillium dahliae VdLs.17]
          Length = 231

 Score = 81.3 bits (199), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 63/189 (33%), Positives = 94/189 (49%), Gaps = 29/189 (15%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISH 91
           D  S++ +R + + RTV EM  DRGY +A SEI +S+  FR  Y   D  V+R +++ S 
Sbjct: 5   DGQSKEVVRAWRAWRTVHEMCADRGYELAESEIQISLDRFRHEYLAADGSVNRSKLTFS- 63

Query: 92  QSDPSKRILVVF--------------CGP---------GIVKVNVIRSIISQIVNRDTLT 128
            + PS  +L                 CGP         G + V  +R  +  ++      
Sbjct: 64  -ARPSSDMLSRHTPAPSAANPNPDPDCGPIYIEFIAEQGSLGVQHLRRFVQHVLEGHFKA 122

Query: 129 GLILILQNQITSQATKAV-GLFQF-KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLL 186
           G I++  + +TS   K +  L  F ++E F   DLLVNIT H L PKH +L+  EK  LL
Sbjct: 123 G-IMVTSSPLTSAGRKQLLSLESFARIECFLEEDLLVNITHHELVPKHILLSTDEKAALL 181

Query: 187 KKYSIEEKQ 195
           K+Y ++E Q
Sbjct: 182 KRYRLKETQ 190


>gi|119495104|ref|XP_001264345.1| RNA polymerase subunit [Neosartorya fischeri NRRL 181]
 gi|119412507|gb|EAW22448.1| RNA polymerase subunit [Neosartorya fischeri NRRL 181]
          Length = 234

 Score = 81.3 bits (199), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 58/185 (31%), Positives = 88/185 (47%), Gaps = 24/185 (12%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISIS 90
              R+  R + + RTV EML DRGY V   EI + + +FR  Y      PD  +++IS  
Sbjct: 10  EADREMTRLWRTWRTVFEMLADRGYEVTEEEIQIPLDEFRQKYADPVGFPDRTKMKISAR 69

Query: 91  HQS---------------DPSK---RILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLI 131
             +               DP      I V FC     V    +R+  +  V+ +     +
Sbjct: 70  PTAAMQAKYTPLPTPANPDPQPDCGTIYVEFCADSTGVGTKQVRAF-NHFVDENNFHTGV 128

Query: 132 LILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
            I Q  I+  A + +     ++ E FQ  DLLVNIT+H L PKH +L+ +EK+ LL++Y 
Sbjct: 129 FITQTPISPSAVRLLSGIPGRICEHFQEQDLLVNITRHELVPKHVLLSPEEKKNLLQRYR 188

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 189 LKESQ 193


>gi|219112619|ref|XP_002178061.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
 gi|217410946|gb|EEC50875.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
          Length = 228

 Score = 80.9 bits (198), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 51/160 (31%), Positives = 89/160 (55%), Gaps = 3/160 (1%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           ++ R +   RT+  ML  RGY V  +   ++   F+  +G+ P  + L I +    D + 
Sbjct: 29  EAARLFRVYRTIANMLDKRGYMVPKTLREITPSAFKERFGEYPSRENLTILVEKADDDTN 88

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEM 155
           ++ + F     V V  I+ + +  +  ++++  I+IL+  IT  A +AV      F++E 
Sbjct: 89  QLFIFFPEDEKVGVKPIK-VYTDRMRAESVSNAIIILRVDITPFAKQAVQEMSDSFRIEH 147

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F+ ++LLV+ITKH L P HQVLT  EK +LLK+Y +++ Q
Sbjct: 148 FKESELLVDITKHQLVPVHQVLTPNEKNELLKRYRLKDSQ 187


>gi|119589953|gb|EAW69547.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa, isoform
           CRA_a [Homo sapiens]
          Length = 211

 Score = 80.9 bits (198), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 93/164 (56%), Gaps = 8/164 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +YS
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYS 164


>gi|298712690|emb|CBJ48715.1| conserved unknown protein [Ectocarpus siliculosus]
          Length = 212

 Score = 80.9 bits (198), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 49/159 (30%), Positives = 89/159 (55%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           + Y  R+T ++ML+ RGY V    ++++ + F   YG +P+   L + +    DP  +I 
Sbjct: 14  KIYRIRQTCMKMLEKRGYNVLQEHVSMTSEAFLQQYGPEPNRHDLTLLVEKVDDPMDQIF 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF----QFKVEMF 156
           V F     V V  IRS   +++  +    +I+I +  IT  A  A+       + +VE F
Sbjct: 74  VFFPDDEKVGVKPIRSYSEKMLEEEVKRAIIVI-KGGITPFARSAIQELCAQREVQVEDF 132

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +  +L+++IT+H L P+HQVL+ ++K +LLK+Y +++ Q
Sbjct: 133 KDAELMLDITEHTLVPEHQVLSSEQKAELLKRYKLKDTQ 171


>gi|91087261|ref|XP_975533.1| PREDICTED: similar to AGAP010064-PA [Tribolium castaneum]
 gi|270010583|gb|EFA07031.1| hypothetical protein TcasGA2_TC010003 [Tribolium castaneum]
          Length = 210

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 44/162 (27%), Positives = 90/162 (55%), Gaps = 6/162 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+   G  P   R     L I ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQCGDKPSEKRPSRNDLTILVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QF 151
            DP+ ++ V F     + +  I++   ++ + +    +I++ Q    S     V +  ++
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKAIKTYCQRMQDENIHRAIIVVQQGMTPSAKQSLVDMAPKY 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
            +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 126 ILEQFLESELLINITEHELVPEHVVMTPEEKQELLTRYKLKE 167


>gi|116242767|sp|P19388.4|RPAB1_HUMAN RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=DNA-directed RNA polymerase II 23
           kDa polypeptide; AltName: Full=DNA-directed RNA
           polymerase II subunit E; AltName: Full=RPB5 homolog;
           AltName: Full=XAP4
 gi|2896797|gb|AAC03238.1| RPB5_Human [Homo sapiens]
 gi|311349818|gb|ADP92094.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349820|gb|ADP92095.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349822|gb|ADP92096.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349824|gb|ADP92097.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349826|gb|ADP92098.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349828|gb|ADP92099.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349830|gb|ADP92100.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349832|gb|ADP92101.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349834|gb|ADP92102.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349836|gb|ADP92103.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349838|gb|ADP92104.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349840|gb|ADP92105.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349842|gb|ADP92106.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349844|gb|ADP92107.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349846|gb|ADP92108.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349848|gb|ADP92109.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349850|gb|ADP92110.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349852|gb|ADP92111.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349854|gb|ADP92112.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349856|gb|ADP92113.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349858|gb|ADP92114.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349860|gb|ADP92115.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349862|gb|ADP92116.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349864|gb|ADP92117.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349866|gb|ADP92118.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349868|gb|ADP92119.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349870|gb|ADP92120.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349872|gb|ADP92121.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349874|gb|ADP92122.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349876|gb|ADP92123.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349878|gb|ADP92124.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349880|gb|ADP92125.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349882|gb|ADP92126.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349884|gb|ADP92127.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349886|gb|ADP92128.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349888|gb|ADP92129.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349890|gb|ADP92130.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349892|gb|ADP92131.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349894|gb|ADP92132.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
 gi|311349896|gb|ADP92133.1| DNA-directed RNA polymerase subunit RPABC1 [Homo sapiens]
          Length = 210

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 94/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A  G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|71029810|ref|XP_764548.1| DNA-directed RNA polymerase II [Theileria parva strain Muguga]
 gi|68351502|gb|EAN32265.1| DNA-directed RNA polymerase II, putative [Theileria parva]
          Length = 205

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 58/159 (36%), Positives = 86/159 (54%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRT  EML+DRGY + + E   +  +F+A Y     V    + ++ Q   S+  L
Sbjct: 7   RLFRCRRTCCEMLEDRGYFIPVQEKLETFAEFKARYEMHEKVRSKMLLVASQRTASENKL 66

Query: 101 VVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK--VEMF 156
           +V+      K  V  IR +  ++ + D +   IL+ QN +T  A  A+     K  +E F
Sbjct: 67  LVYFADEKKKTGVKPIRELTERMEDHD-IHRAILVTQNVLTPFAKDAIMEAYPKNIIENF 125

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             T+LLVNITKH L PKH  LT +EK+ LL+KY ++E Q
Sbjct: 126 METELLVNITKHELVPKHIPLTMEEKQNLLQKYKVKESQ 164


>gi|121701167|ref|XP_001268848.1| RNA polymerase subunit [Aspergillus clavatus NRRL 1]
 gi|119396991|gb|EAW07422.1| RNA polymerase subunit [Aspergillus clavatus NRRL 1]
          Length = 234

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 59/188 (31%), Positives = 89/188 (47%), Gaps = 30/188 (15%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISIS 90
              R+  R + + RTV EML DRGY V   EI + +++FR  Y      PD  +++IS  
Sbjct: 10  EADREMTRLWRTWRTVFEMLADRGYEVTEEEIQIPLEEFRHKYSDAVGYPDRTKMKISAR 69

Query: 91  HQS---------------DPSK---RILVVFC----GPGIVKVNVIRSIISQIVNRDTLT 128
             +               DP      I V FC    G G  +V       +  V+ +   
Sbjct: 70  PTAAMQAKYTPLPTPANPDPQPDCGTIYVEFCADSSGVGTKQVRAF----NHFVDENNFH 125

Query: 129 GLILILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
             + I Q  I+  A + +     ++ E FQ  DLLVNIT+H L PKH +L+ +EK+ LL+
Sbjct: 126 TGVFITQTPISPSAVRLLSGIPGRICEHFQEQDLLVNITRHELVPKHVLLSPEEKKNLLQ 185

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 186 RYRLKESQ 193


>gi|332022832|gb|EGI63105.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Acromyrmex echinatior]
          Length = 210

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 89/164 (54%), Gaps = 6/164 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLELFKEQFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QF 151
            DP+ ++ V F     + +  I++   ++        +I++ Q    S     V +  ++
Sbjct: 66  DDPTDQLFVFFPDEPKIGIKTIKTYCQRMQEEKIHRAIIVVQQGMTPSAKQSLVDMAPKY 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 126 ILEQFLESELLINITEHELVPEHIVLTPDEKEELLTRYKLKENQ 169


>gi|391342990|ref|XP_003745798.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Metaseiulus occidentalis]
          Length = 210

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 94/164 (57%), Gaps = 10/164 (6%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR------LRISISH 91
           ++ + +  R+T++++  DRGY V   E++  ++ F+  +G  P  D+      L + +SH
Sbjct: 6   ETYKLWRIRKTIMQLCHDRGYLVTQEELDQDLEGFKEQFGDKPS-DKHPARGDLVVLVSH 64

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-- 149
             DP+ ++ V F     + +  I++   Q +  + ++  I+++Q  +T  A +A+G    
Sbjct: 65  NDDPTDQMFVFFPDEAKIGIKTIKTY-CQRMQEENISRAIIVVQAGMTPSARQALGDMAP 123

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           ++ +E F  ++LL+NI +H L P+H VLT +EK +LL +Y ++E
Sbjct: 124 KYILEHFLESELLINIIEHELVPEHVVLTPEEKTELLSRYKLKE 167


>gi|62858213|ref|NP_001016473.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Xenopus
           (Silurana) tropicalis]
 gi|148225220|ref|NP_001083516.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Xenopus
           laevis]
 gi|38051843|gb|AAH60467.1| MGC68604 protein [Xenopus laevis]
 gi|89272916|emb|CAJ82278.1| polymerase (RNA) II (DNA directed) polypeptide E [Xenopus
           (Silurana) tropicalis]
 gi|163916440|gb|AAI57232.1| polymerase (RNA) II (DNA directed) polypeptide E [Xenopus
           (Silurana) tropicalis]
          Length = 210

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 87/168 (51%), Gaps = 6/168 (3%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+    ++   +    LI++ Q    S     V +
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIKMYCQRMQEENITRALIVVQQGMTPSAKQSLVDM 121

Query: 149 F-QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             ++ +E F   +LL+NIT+H L P+H V+T  E  +LL +Y + E Q
Sbjct: 122 APKYILEQFLQQELLINITEHELVPEHVVMTKDEVTELLARYKLRESQ 169


>gi|294944697|ref|XP_002784385.1| DNA-directed RNA polymerases II 24 kDa polypeptide, putative
           [Perkinsus marinus ATCC 50983]
 gi|239897419|gb|EER16181.1| DNA-directed RNA polymerases II 24 kDa polypeptide, putative
           [Perkinsus marinus ATCC 50983]
          Length = 213

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 59/174 (33%), Positives = 100/174 (57%), Gaps = 11/174 (6%)

Query: 29  SGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG--QDPDVDR-- 84
           SG +D+ +   +R +  R+T+ E+L+DRGY VA   +N + + F   +   Q+    R  
Sbjct: 3   SGPIDDVT---IRLWRVRKTIFELLQDRGYLVAQKYLNETKESFAQQWNEIQERKGGRHD 59

Query: 85  LRISISHQSDPSKRILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
           L I +S Q DPS +++V F      V V  IR++  ++     L+  IL++Q  +T+ A 
Sbjct: 60  LIILVSKQDDPSDQLIVFFPDENKRVGVKPIRTLALKM-EEQRLSRAILVVQQPLTAFAK 118

Query: 144 KAV--GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            A+     Q ++E+F  ++L+VNIT H L P+H+ LT +EK  LL++Y ++E Q
Sbjct: 119 TAIQEASPQMEIEVFNESELVVNITHHELVPEHKPLTAEEKRLLLERYKVKENQ 172


>gi|308321620|gb|ADO27961.1| DNA-directed RNA polymerases I, II and III subunit rpabc1
           [Ictalurus furcatus]
          Length = 210

 Score = 80.5 bits (197), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 96/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKA-VG 147
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A ++ V 
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRIQEENITRAIIVVQMGMTPSAKQSPVD 120

Query: 148 LF-QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +  ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKESQ 169


>gi|326934422|ref|XP_003213289.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Meleagris gallopavo]
          Length = 209

 Score = 80.5 bits (197), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 89/168 (52%), Gaps = 7/168 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+  +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKGQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F  P  V +  I+    ++   +    LI++ Q    S     V +
Sbjct: 62  VAHNDDPTDQMFVSFPEPK-VGIKTIKMYCQRMQEENITRALIVVQQGMTPSAKQSLVDM 120

Query: 149 F-QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 APKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 168


>gi|225706160|gb|ACO08926.1| DNA-directed RNA polymerase II 23 kDa polypeptide [Osmerus mordax]
          Length = 210

 Score = 80.5 bits (197), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEELSELLTRYKLKESQ 169


>gi|410921186|ref|XP_003974064.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Takifugu rubripes]
 gi|47216655|emb|CAG04853.1| unnamed protein product [Tetraodon nigroviridis]
          Length = 210

 Score = 80.5 bits (197), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKESQ 169


>gi|407928431|gb|EKG21288.1| RNA polymerase subunit H/Rpb5 [Macrophomina phaseolina MS6]
          Length = 227

 Score = 80.5 bits (197), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 58/179 (32%), Positives = 91/179 (50%), Gaps = 19/179 (10%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD-VDRLRISIS-HQ 92
             R++ R + + RT  EM+ DRGY ++ SE  +++ +FRA +G     VDR +++ S + 
Sbjct: 9   AEREASRLWRAWRTAHEMIADRGYIMSESEYKITLDEFRAKFGDSSGYVDRKQLAFSANP 68

Query: 93  SDPSKR---------------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQ 137
           SD  K+               I V F G   + V  +R+     +N    +  I I    
Sbjct: 69  SDEMKQKHFNPRKPKESEVGNIWVEFNGDQNIGVKQLRNF-GHTLNEHNFSSGIFITAVP 127

Query: 138 ITSQATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +T  A K +  L    +E+F   DLLVNIT+H L PKH +L+ +EK  LL +Y ++E Q
Sbjct: 128 VTGAAQKIIPSLHPLIMEIFMEQDLLVNITQHELVPKHVLLSAEEKAALLARYRLKESQ 186


>gi|90083116|dbj|BAE90640.1| unnamed protein product [Macaca fascicularis]
          Length = 210

 Score = 80.5 bits (197), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 94/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  + L +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTEPLARYKLRENQ 169


>gi|387915534|gb|AFK11376.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Callorhinchus milii]
          Length = 210

 Score = 80.5 bits (197), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 94/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRIS----- 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++FR  +G  P     R S     
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFRNQFGDKPSEGHPRRSDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKESQ 169


>gi|154276568|ref|XP_001539129.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Ajellomyces
           capsulatus NAm1]
 gi|150414202|gb|EDN09567.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Ajellomyces
           capsulatus NAm1]
          Length = 236

 Score = 80.5 bits (197), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 63/188 (33%), Positives = 93/188 (49%), Gaps = 30/188 (15%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS-- 88
           +  R+  R + + RTV EML DRGY V   EI +S+ +FR  Y      PD ++++IS  
Sbjct: 12  DADREMTRLWRTWRTVFEMLADRGYEVTEEEIKISLDEFRTRYSDALGFPDRNKMKISAR 71

Query: 89  -----------ISHQSDPSK-----RILVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLI 131
                      +   S P+       I V FC     V    IR+    I  ++  TG I
Sbjct: 72  PSQTMMDKYTPLPTASKPNPVPECGTIYVEFCADMQSVGTKQIRAFNHFIDEQNYHTG-I 130

Query: 132 LILQNQITSQATKAV----GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            + Q  I+  A + +    G F    E FQ  +LLVNIT H L PKH +L+ +EK++LL+
Sbjct: 131 FVSQTPISPSAMRVLNSIPGRF---CEHFQEQELLVNITHHELVPKHVLLSAEEKKRLLQ 187

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 188 RYRLKESQ 195


>gi|336471719|gb|EGO59880.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Neurospora
           tetrasperma FGSC 2508]
 gi|350292835|gb|EGZ74030.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Neurospora
           tetrasperma FGSC 2509]
          Length = 234

 Score = 80.5 bits (197), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 57/188 (30%), Positives = 99/188 (52%), Gaps = 29/188 (15%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQ 92
           + S++  R + + RTV EM++DRGY ++  E+ +S++ F+A Y  +D   +R ++  S  
Sbjct: 9   SASKEVSRLWRAWRTVHEMVQDRGYELSEDEVKISLERFKAEYTNEDGTPNRAKLQFS-- 66

Query: 93  SDPSKRILVVFCGP-----------------------GIVKVNVIRSIISQIVNRDTLTG 129
           + PS+ ++  F  P                       G + V+V++  ++   +     G
Sbjct: 67  ARPSEAMIKKFTAPPTPSNPNPVPECGTIWVEFCTEKGSIGVSVMKKFVTHCSDNKFKAG 126

Query: 130 LILILQNQITSQATKAVGLF-QF-KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            I I    +++QA K + +  Q+ +VE F   DLLVNIT H L PKH +L+ +EK  LLK
Sbjct: 127 -IFITAVPLSAQARKVMSVTSQYTQVECFLEEDLLVNITHHELVPKHVLLSKEEKAALLK 185

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 186 RYRLKETQ 193


>gi|326480400|gb|EGE04410.1| DNA-directed RNA polymerase I [Trichophyton equinum CBS 127.97]
          Length = 276

 Score = 80.5 bits (197), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 61/186 (32%), Positives = 91/186 (48%), Gaps = 24/186 (12%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI 89
           D   R+  R + + RTV E+L DRGY V   E+ +S+ DF+  Y      PD +++RIS 
Sbjct: 11  DEADREMTRLWRTWRTVFELLLDRGYEVTEEEVKISLSDFKQRYSDALGFPDRNKMRISA 70

Query: 90  SHQS----------DPSK--------RILVVFCGPG-IVKVNVIRSIISQIVNRDTLTGL 130
                          PSK         I V FC     V    IR+  +Q +++      
Sbjct: 71  RPSQAMMERYTPLPTPSKPNTVPECGTIHVEFCSETQSVGTKHIRAF-NQFIDQQNYHAG 129

Query: 131 ILILQNQITSQATKAVGLFQFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           I I Q+ I+  A + +     +  E F   +LLVNIT H L PKH +L+ +EK+KLL++Y
Sbjct: 130 IFITQSPISPSAIRLLTAIPGRFCEHFLEQELLVNITHHELVPKHILLSAEEKKKLLQRY 189

Query: 190 SIEEKQ 195
            ++E Q
Sbjct: 190 RLKESQ 195


>gi|67516941|ref|XP_658356.1| hypothetical protein AN0752.2 [Aspergillus nidulans FGSC A4]
 gi|40746238|gb|EAA65394.1| hypothetical protein AN0752.2 [Aspergillus nidulans FGSC A4]
 gi|259488970|tpe|CBF88854.1| TPA: RNA polymerase subunit (AFU_orthologue; AFUA_1G14110)
           [Aspergillus nidulans FGSC A4]
          Length = 235

 Score = 80.1 bits (196), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 58/190 (30%), Positives = 92/190 (48%), Gaps = 30/190 (15%)

Query: 32  VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS 88
            D+  R+++R + + RTV EML+DRGY V   E+ + + +F+  Y  +   P  ++L+I 
Sbjct: 9   ADDAERETIRVWRTWRTVFEMLQDRGYEVTEEEVKIDLDEFKRKYVGEKGYPSREKLKIQ 68

Query: 89  ISHQS----------DPSKR--------ILVVFC----GPGIVKVNVIRSIISQIVNRDT 126
                           PS R        I + FC    G G  +V       +  V+   
Sbjct: 69  ARPTEAMKAKYTPLPTPSNRDPQPDCGTIYIEFCPDDSGIGTKQVRTF----NHTVDEGN 124

Query: 127 LTGLILILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKL 185
               I I +  I+  A + +     ++ E FQ  DLLVNIT+H L PKH +L+ +EK KL
Sbjct: 125 FHTGIFITKTPISPSAVRLLSGIPGRICEHFQEQDLLVNITRHELVPKHVLLSPEEKSKL 184

Query: 186 LKKYSIEEKQ 195
           L++Y ++E Q
Sbjct: 185 LQRYRLKESQ 194


>gi|340377807|ref|XP_003387420.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Amphimedon queenslandica]
          Length = 210

 Score = 80.1 bits (196), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 92/164 (56%), Gaps = 8/164 (4%)

Query: 39  SLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD-----VDRLRISISHQS 93
           + R +  R+TV++M  DR Y V   E++ ++  F+  +G+ P+      + L I ++H  
Sbjct: 7   TYRLWRIRKTVMQMCHDRRYLVTQDELDQTLDQFKEQFGERPNDGHPSRNDLSILVAHND 66

Query: 94  DPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QF 151
           DP+ ++ V F     V +  I+    ++   + ++  I+++Q  +T  A +A+     ++
Sbjct: 67  DPTDQMFVFFPEDPKVGIKTIKQYCGRM-QEENISRAIIVVQQGMTPSAKQALVDMAPKY 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F   +L++NIT+H L P+H V+T +EK +LL +Y ++E Q
Sbjct: 126 ILEQFMEAELMINITEHELVPEHIVMTTEEKRELLARYKLKEHQ 169


>gi|440302517|gb|ELP94824.1| DNA-directed RNA polymerase I, II, and III subunit RPABC1, putative
           [Entamoeba invadens IP1]
          Length = 217

 Score = 80.1 bits (196), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 58/170 (34%), Positives = 95/170 (55%), Gaps = 7/170 (4%)

Query: 32  VDNGSRDSL-RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD-VDRLRISI 89
           ++N   D+L R Y   +TVL+MLKDRGY     +   ++ +FR   G   D VDR +++I
Sbjct: 8   LENSLMDTLTRVYHVWKTVLDMLKDRGYVTNDLDHQTTLDEFRERVGVGADGVDRGKLTI 67

Query: 90  S--HQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG 147
               +      I+V+F     +K  V RS   ++  ++     I++ + Q++S   + V 
Sbjct: 68  KAVREGSADDGIIVLFAKDDKMKTEVFRSYAEEVQGQECKRA-IVVYRGQLSSVIVQFVN 126

Query: 148 LFQFKV--EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             + KV  E+    +L+VN+TKHVL P+H  LTD+EK+ +LKKY ++E Q
Sbjct: 127 SSEQKVKWELLLEDELIVNVTKHVLVPEHIKLTDEEKQAVLKKYQVKESQ 176


>gi|322797006|gb|EFZ19320.1| hypothetical protein SINV_02648 [Solenopsis invicta]
          Length = 211

 Score = 80.1 bits (196), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 88/164 (53%), Gaps = 6/164 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++  ++ F+  +G  P   +     L + ++H 
Sbjct: 7   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQDLEQFKEQFGDKPSEKKPARSDLIVLVAHN 66

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QF 151
            DP+ ++ V F     + +  I++   ++        +I++ Q    S     V +  ++
Sbjct: 67  DDPTDQLFVFFPDEPKIGIKTIKTYCQRMQEEKIHRAIIVVQQGMTPSAKQSLVDMAPKY 126

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F  ++LL+NIT+H L P+H VLT  EKE+LL +Y ++E Q
Sbjct: 127 ILEQFLESELLINITEHELVPEHIVLTPDEKEELLTRYKLKENQ 170


>gi|323449166|gb|EGB05056.1| hypothetical protein AURANDRAFT_31430 [Aureococcus anophagefferens]
          Length = 204

 Score = 80.1 bits (196), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 86/152 (56%), Gaps = 3/152 (1%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           RRT+L+MLK R Y V ++++ +S + F+  +G+ P    L I   H++D   ++ +    
Sbjct: 13  RRTLLKMLKKRNYVVDVAQLEMSSEAFQEQFGEQPKRTDLTILAEHETDAEDQVFIFLPD 72

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V V  I+    +++   +++  IL+++  IT  A  A+      + +E F+  +LLV
Sbjct: 73  EEKVGVKTIKQY-CEMMKEASVSHAILVVKAGITPFAKTALQEMASMYLIEHFRDNELLV 131

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +IT+H L P HQ L+ ++K  LLK+Y ++E Q
Sbjct: 132 DITEHKLVPAHQPLSPEDKAALLKRYKLKESQ 163


>gi|221057466|ref|XP_002261241.1| DNA-directed RNA polymerase 2 [Plasmodium knowlesi strain H]
 gi|194247246|emb|CAQ40646.1| DNA-directed RNA polymerase 2, putative [Plasmodium knowlesi strain
           H]
          Length = 205

 Score = 80.1 bits (196), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 54/157 (34%), Positives = 86/157 (54%), Gaps = 5/157 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R+Y  R+T  EML+DRGY +   E   +   F+  + ++  +  R+ I  SH++D S +I
Sbjct: 7   RFYKCRKTCCEMLEDRGYVITPREKLENFATFKEQFEENEKLRSRMTIITSHKNDESNKI 66

Query: 100 LVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMF 156
           +V F        V  +R +  ++ +  ++   IL+ QN +T  A  A+     +  +E F
Sbjct: 67  IVYFADETKKTGVKPLRELTEKM-DEKSIQRAILVTQNTLTPFARDAIKEAAPRHIIENF 125

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
             T+LLVNITKH L P+H  LT  EK  LL++Y I+E
Sbjct: 126 LDTELLVNITKHELVPRHIPLTSDEKRNLLQRYKIKE 162


>gi|242017042|ref|XP_002429002.1| DNA-directed RNA polymerase II 23 kDa polypeptide, putative
           [Pediculus humanus corporis]
 gi|212513848|gb|EEB16264.1| DNA-directed RNA polymerase II 23 kDa polypeptide, putative
           [Pediculus humanus corporis]
          Length = 210

 Score = 79.7 bits (195), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 44/165 (26%), Positives = 95/165 (57%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-----DRLRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P         L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEQFGDKPSEKIPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++   Q +  + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPDDPKIGIKTIKTY-CQRMQEENIHRAIIVVQQGMTPSAKQSLSDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL++Y ++E Q
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTPEEKQELLQRYKLKENQ 169


>gi|302503318|ref|XP_003013619.1| hypothetical protein ARB_00066 [Arthroderma benhamiae CBS 112371]
 gi|302665750|ref|XP_003024482.1| hypothetical protein TRV_01312 [Trichophyton verrucosum HKI 0517]
 gi|327294261|ref|XP_003231826.1| DNA-directed RNA polymerase II [Trichophyton rubrum CBS 118892]
 gi|291177184|gb|EFE32979.1| hypothetical protein ARB_00066 [Arthroderma benhamiae CBS 112371]
 gi|291188539|gb|EFE43871.1| hypothetical protein TRV_01312 [Trichophyton verrucosum HKI 0517]
 gi|326465771|gb|EGD91224.1| DNA-directed RNA polymerase II [Trichophyton rubrum CBS 118892]
          Length = 236

 Score = 79.7 bits (195), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 61/186 (32%), Positives = 91/186 (48%), Gaps = 24/186 (12%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI 89
           D   R+  R + + RTV E+L DRGY V   E+ +S+ DF+  Y      PD +++RIS 
Sbjct: 11  DEADREMTRLWRTWRTVFELLLDRGYEVTEEEVKISLSDFKQRYSDALGFPDRNKMRISA 70

Query: 90  SHQS----------DPSK--------RILVVFCGPG-IVKVNVIRSIISQIVNRDTLTGL 130
                          PSK         I V FC     V    IR+  +Q +++      
Sbjct: 71  RPSQAMMERYTPLPTPSKPNTVPECGTIHVEFCSETQSVGTKHIRAF-NQFIDQQNYHAG 129

Query: 131 ILILQNQITSQATKAVGLFQFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           I I Q+ I+  A + +     +  E F   +LLVNIT H L PKH +L+ +EK+KLL++Y
Sbjct: 130 IFITQSPISPSAIRLLTAIPGRFCEHFLEQELLVNITHHELVPKHILLSAEEKKKLLQRY 189

Query: 190 SIEEKQ 195
            ++E Q
Sbjct: 190 RLKESQ 195


>gi|46136465|ref|XP_389924.1| hypothetical protein FG09748.1 [Gibberella zeae PH-1]
          Length = 253

 Score = 79.7 bits (195), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 60/191 (31%), Positives = 99/191 (51%), Gaps = 30/191 (15%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD----VDRLRIS 88
           D  S++ +R + + RTV EM+ DR Y +A  E+ +S+  FR  Y  +PD    ++  R  
Sbjct: 9   DAKSKEVVRLWRAWRTVHEMVADREYELAEEEVKISLDRFRDEYC-NPDGSININYSRNK 67

Query: 89  ISHQSDPSKRILVVF--------------CGPGIVK--------VNVIRSIISQIVNRDT 126
           +S  + PS  ++  F              CGP  ++        V+ IR+  S +++ + 
Sbjct: 68  LSFSARPSTAMMRKFTPPATAANPDPVADCGPIWIEFLADKTFGVSQIRAFASYVISNNY 127

Query: 127 LTGLILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEK 184
            TG I+I    ++  A +++   +   K+E F   DLLVNIT H L PKH +L+ +EK  
Sbjct: 128 KTG-IMITHVPLSPAARRSLASVESLAKIECFLEDDLLVNITHHELVPKHVLLSREEKIA 186

Query: 185 LLKKYSIEEKQ 195
           LLK+Y ++E Q
Sbjct: 187 LLKRYRLKETQ 197


>gi|402084014|gb|EJT79032.1| DNA-directed RNA polymerase I [Gaeumannomyces graminis var. tritici
           R3-111a-1]
          Length = 233

 Score = 79.7 bits (195), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 59/186 (31%), Positives = 94/186 (50%), Gaps = 27/186 (14%)

Query: 36  SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISI--- 89
           +R++ R + + RT  EML+DRGY ++  E+N+S+  F   Y     + D  +L+ S    
Sbjct: 8   TREARRLWRAWRTAHEMLQDRGYELSQEEVNISLDRFLQQYTDGAGNVDASKLKFSAHPS 67

Query: 90  -----SHQSDPSKR----------ILVVFCGPGIVK---VNVIRSIISQIVNRDTLTGLI 131
                 H   P+++          + V F G    K   +  IRS I   V  +  TG I
Sbjct: 68  EAMIKKHTPPPTEQRPDPVPECGTVWVEFMGDASDKSLGIQAIRSFIQYTVEHNFHTG-I 126

Query: 132 LILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           +I ++ I+S + K +G       +E F + D+LVNIT H L PKH +L+  EK  LL++Y
Sbjct: 127 MITKSPISSGSRKLIGASANYATIEAFMLDDMLVNITHHELVPKHVLLSKIEKAALLERY 186

Query: 190 SIEEKQ 195
            ++E Q
Sbjct: 187 RLKETQ 192


>gi|389584405|dbj|GAB67137.1| DNA-directed RNA polymerase II 23 kDa polypeptide [Plasmodium
           cynomolgi strain B]
          Length = 205

 Score = 79.7 bits (195), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 56/158 (35%), Positives = 88/158 (55%), Gaps = 7/158 (4%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R+Y  R+T  EML+DRGY +   E   +   F+  + ++  +  R+ I  SH++D + +I
Sbjct: 7   RFYKCRKTCCEMLEDRGYIITPREKLENFATFKEQFEENEKLRSRMTIITSHKNDANNKI 66

Query: 100 LVVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEM 155
           +V F    I K  V  +R +  ++ +  ++   IL+ QN +T  A  A+     +  +E 
Sbjct: 67  IVYF-ADEIKKTGVKPLRELTEKM-DEKSIQRAILVTQNTLTPFARDAIKEAAPRHIIEN 124

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           F  T+LLVNITKH L PKH  LT  EK  LL++Y I+E
Sbjct: 125 FLDTELLVNITKHELVPKHIPLTSDEKRNLLQRYKIKE 162


>gi|160331077|ref|XP_001712246.1| rpabc5 [Hemiselmis andersenii]
 gi|159765693|gb|ABW97921.1| rpabc5 [Hemiselmis andersenii]
          Length = 216

 Score = 79.7 bits (195), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 56/170 (32%), Positives = 93/170 (54%), Gaps = 12/170 (7%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSE--INLSVQDFRAIYGQDPDVDR--LRISISHQ 92
           ++ L  +  RRT+L+ML+DR Y V  ++  + +S   F   + ++  V R  L I+ S  
Sbjct: 6   KEILNLFKIRRTILQMLRDRSYVVFENQDDLEMSRSSFEQKFVKNFQVIRSELEINRSKW 65

Query: 93  SDPSKRILVVFCG----PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
            + + RILVVF         + V  IR    +I  +D     I++L  ++TS A +A+  
Sbjct: 66  LEENMRILVVFIEGEKEKSAIGVKSIRGFCERI-KQDGFQNSIIVLHGKLTSHAKQAINS 124

Query: 149 FQF---KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
                 K+E F  ++L+VNIT+H L PKH++++++E   L K+YSI E Q
Sbjct: 125 INSLDDKIEYFSESELIVNITEHNLVPKHEIISEEEARCLFKRYSIRENQ 174


>gi|289740815|gb|ADD19155.1| RNA polymerase 25-kDa subunit [Glossina morsitans morsitans]
          Length = 210

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 96/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKEMFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKTIKTYCTRM-QEENIHRAIVVVQAGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTPEEKQELLARYKLKE 167


>gi|396500613|ref|XP_003845762.1| hypothetical protein LEMA_P010700.1 [Leptosphaeria maculans JN3]
 gi|312222343|emb|CBY02283.1| hypothetical protein LEMA_P010700.1 [Leptosphaeria maculans JN3]
          Length = 412

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 57/190 (30%), Positives = 97/190 (51%), Gaps = 27/190 (14%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDRLRISIS- 90
           D  S   +R +   RT  EM++DRGY V   +  +S+ +F + +G +D + DR R++ S 
Sbjct: 4   DKASPSIIRLWRVWRTAKEMMRDRGYMVLEEDTTMSLAEFTSKFGREDGEPDRSRLNFSC 63

Query: 91  ---------HQSDPSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLI 131
                    +   P+K+          I V F     V +  +R  +  ++N +  +G++
Sbjct: 64  LPSEEMLAKYTPAPTKKDPNPVPQIGSIWVEFNSDENVGLKQLRDYMGHLLNGNFYSGVM 123

Query: 132 LILQN------QITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKL 185
           + +Q       ++   AT      +  VE+F   DLLVNITKH L PKH +L+ +EK++L
Sbjct: 124 ITVQAMTGMAIRLLRGATSMSDGPKGGVEVFVEQDLLVNITKHELVPKHVLLSAEEKQQL 183

Query: 186 LKKYSIEEKQ 195
           LK+Y ++E Q
Sbjct: 184 LKRYRLKETQ 193


>gi|84000159|ref|NP_001033182.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Bos
           taurus]
 gi|109893821|sp|Q2T9T3.1|RPAB1_BOVIN RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           RPABC1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=DNA-directed RNA polymerase II
           subunit E; AltName: Full=RPB5 homolog
 gi|83405854|gb|AAI11281.1| Polymerase (RNA) II (DNA directed) polypeptide E, 25kDa [Bos
           taurus]
          Length = 210

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 94/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V    ++ ++++F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDGLDQTLEEFKAQFGGKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQ 169


>gi|326475256|gb|EGD99265.1| DNA-directed RNA polymerase II [Trichophyton tonsurans CBS 112818]
          Length = 228

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 61/186 (32%), Positives = 91/186 (48%), Gaps = 24/186 (12%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI 89
           D   R+  R + + RTV E+L DRGY V   E+ +S+ DF+  Y      PD +++RIS 
Sbjct: 11  DEADREMTRLWRTWRTVFELLLDRGYEVTEEEVKISLSDFKQRYSDALGFPDRNKMRISA 70

Query: 90  SHQS----------DPSK--------RILVVFCGPG-IVKVNVIRSIISQIVNRDTLTGL 130
                          PSK         I V FC     V    IR+  +Q +++      
Sbjct: 71  RPSQAMMERYTPLPTPSKPNTVPECGTIHVEFCSETQSVGTKHIRAF-NQFIDQQNYHAG 129

Query: 131 ILILQNQITSQATKAVGLFQFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           I I Q+ I+  A + +     +  E F   +LLVNIT H L PKH +L+ +EK+KLL++Y
Sbjct: 130 IFITQSPISPSAIRLLTAIPGRFCEHFLEQELLVNITHHELVPKHILLSAEEKKKLLQRY 189

Query: 190 SIEEKQ 195
            ++E Q
Sbjct: 190 RLKESQ 195


>gi|194752750|ref|XP_001958682.1| GF12445 [Drosophila ananassae]
 gi|190619980|gb|EDV35504.1| GF12445 [Drosophila ananassae]
          Length = 210

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 96/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKEMFGDKPSEKRPSRSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTYCTRM-QEENIHRAIVVVQGGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTAEEKQELLSRYKLKE 167


>gi|399218319|emb|CCF75206.1| unnamed protein product [Babesia microti strain RI]
          Length = 212

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 55/166 (33%), Positives = 91/166 (54%), Gaps = 10/166 (6%)

Query: 40  LRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ-DPDVDRLRISISHQSDPSKR 98
           +R +  RRT  EML+DRGY + + E    + +F++ Y   D    ++ +  S ++DP+ +
Sbjct: 6   VRLFRCRRTCCEMLEDRGYFIPIQEKLEILSEFKSRYEMYDKIRSKMLLVASMRNDPNDK 65

Query: 99  ILVVFC----GPGIVKVNVIRSIISQIVNRDTLTGL---ILILQNQITSQATKAVGLFQF 151
           I+V F       G+  +  +   + ++  R    G+   IL+ QN +T  A +A+     
Sbjct: 66  IIVYFADETKKTGVKPIRELVPSLRRLTERMEDHGIHRAILVTQNVLTPFAKEAISEAAP 125

Query: 152 K--VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +  +E F  T+LLVNITKH L PKH  LT +EK  LL++Y ++E Q
Sbjct: 126 RNIIENFMETELLVNITKHELVPKHVPLTAEEKRNLLQRYKVKESQ 171


>gi|378727418|gb|EHY53877.1| DNA-directed RNA polymerase II subunit E [Exophiala dermatitidis
           NIH/UT8656]
          Length = 238

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 59/188 (31%), Positives = 97/188 (51%), Gaps = 28/188 (14%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD---VDRLRISIS 90
            G ++  R + + RTVLEML DRGYA+A  E+ ++  DF+  +G DP    V+R  + + 
Sbjct: 12  EGEKELTRLWRTWRTVLEMLVDRGYAIAQDELAITRDDFQRKFG-DPSTGHVERRLMKLQ 70

Query: 91  H---------------QSDPSKR-----ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGL 130
                           +S+P+ +     I V F     + +  +R+  +Q ++ +  T  
Sbjct: 71  AVPTEEMIKRDTPRPTKSNPNPQTTAGTIWVEFSPETTIGIKHLRAF-AQHLDANKFTTG 129

Query: 131 ILILQNQITSQATKAVGLFQ---FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
           I I  + +T+ A +A           E FQ +DLLVNIT+H L PKH +L+ +EK+ LL 
Sbjct: 130 IFITISPVTAAALRAFEPLAERGITAEWFQESDLLVNITRHELVPKHVLLSAEEKKVLLD 189

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 190 RYRLKETQ 197


>gi|302894285|ref|XP_003046023.1| predicted protein [Nectria haematococca mpVI 77-13-4]
 gi|256726950|gb|EEU40310.1| predicted protein [Nectria haematococca mpVI 77-13-4]
          Length = 234

 Score = 79.3 bits (194), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 60/187 (32%), Positives = 93/187 (49%), Gaps = 26/187 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  S++ +R + + RTV EM+ DR Y +A  E+ +S+  FR  Y  +PD    R  +   
Sbjct: 9   DARSKEVVRLWRAWRTVHEMVADREYELAEEEVKISLDRFRDEYC-NPDGSINRAKLQFS 67

Query: 93  SDPSKRILVVF--------------CGPGIVK--------VNVIRSIISQIVNRDTLTGL 130
           + PS+ +L  F              CGP  V+        V+ IR   + ++     TG 
Sbjct: 68  ARPSESMLRKFTPPATADKPDPVPDCGPIWVEFLADKTFGVSQIRQFATYVITNHYKTG- 126

Query: 131 ILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           I++    ++  A K++   +   K+E F   DLLVNIT H L PKH +L+  EK  LLK+
Sbjct: 127 IMVTHVPLSPAARKSLASVESLAKIECFLEDDLLVNITHHELVPKHVLLSRDEKTALLKR 186

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 187 YRLKETQ 193


>gi|119186603|ref|XP_001243908.1| hypothetical protein CIMG_03349 [Coccidioides immitis RS]
 gi|303317654|ref|XP_003068829.1| DNA-directed RNA polymerase subunit, putative [Coccidioides
           posadasii C735 delta SOWgp]
 gi|240108510|gb|EER26684.1| DNA-directed RNA polymerase subunit, putative [Coccidioides
           posadasii C735 delta SOWgp]
 gi|320038831|gb|EFW20766.1| DNA-directed RNA polymerase 1 [Coccidioides posadasii str.
           Silveira]
 gi|392870629|gb|EAS32444.2| DNA-directed RNA polymerase II polypeptide [Coccidioides immitis
           RS]
          Length = 236

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 60/185 (32%), Positives = 93/185 (50%), Gaps = 24/185 (12%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI- 89
              R+  R + + RTV EML DRGY V   E+N+ + +FR  Y      PD +++RIS  
Sbjct: 12  EADREMTRLWRTWRTVFEMLLDRGYEVTEEEVNVPLAEFRTKYSDALGFPDRNKMRISAR 71

Query: 90  ---------SHQSDPSK--------RILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLI 131
                    +  + P+K         I V FC     V    +R+    +  ++  TG I
Sbjct: 72  PSQTMIEKYTPLASPAKPNPVPECGTIYVEFCADAQGVGTKQVRAFNHFVDEQNYHTG-I 130

Query: 132 LILQNQITSQATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
            I Q+ I+  A + + G+     E F   +LLVNIT H L PKH +L+ +EK++LL++Y 
Sbjct: 131 FITQSPISPSAIRLLTGIPGRFCEHFLEQELLVNITHHELVPKHVLLSAEEKKRLLQRYR 190

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 191 LKESQ 195


>gi|315056263|ref|XP_003177506.1| DNA-directed RNA polymerase I [Arthroderma gypseum CBS 118893]
 gi|311339352|gb|EFQ98554.1| DNA-directed RNA polymerase I [Arthroderma gypseum CBS 118893]
          Length = 236

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 61/186 (32%), Positives = 91/186 (48%), Gaps = 24/186 (12%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI 89
           D   R+  R + + RTV E+L DRGY V   E+ +S+ DF+  Y      PD +++RIS 
Sbjct: 11  DEADREMTRLWRTWRTVFELLLDRGYEVTEEEVKISLGDFKQRYSDALGFPDRNKMRISA 70

Query: 90  SHQS----------DPSK--------RILVVFCGPG-IVKVNVIRSIISQIVNRDTLTGL 130
                          PSK         I V FC     V    IR+  +Q +++      
Sbjct: 71  RPSQAMMERYTPLPTPSKPNTVPECGTIHVEFCSETQSVGTKHIRAF-NQFIDQQNYHAG 129

Query: 131 ILILQNQITSQATKAVGLFQFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           I I Q+ I+  A + +     +  E F   +LLVNIT H L PKH +L+ +EK+KLL++Y
Sbjct: 130 IFITQSPISPSAIRLLTAIPGRFCEHFLEQELLVNITHHELVPKHILLSAEEKKKLLQRY 189

Query: 190 SIEEKQ 195
            ++E Q
Sbjct: 190 RLKESQ 195


>gi|260788314|ref|XP_002589195.1| hypothetical protein BRAFLDRAFT_278645 [Branchiostoma floridae]
 gi|229274370|gb|EEN45206.1| hypothetical protein BRAFLDRAFT_278645 [Branchiostoma floridae]
          Length = 210

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +  +++ + +  R+T++++  DRGY V   E++  +  F+  +G  P   +     L + 
Sbjct: 2   DDEQETYKLWRIRKTIMQLCHDRGYLVTQDELDQRLDQFKDQFGDKPSEGKPARKDLVVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     + +  I+ +  Q +  + ++  I+++Q  +T  A +A+  
Sbjct: 62  VAHNDDPTDQMFVFFADEPKIGIKTIK-MYCQRMQEENISRAIIVVQMGMTPSAKQALVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F  ++LL+NIT+H L P+H V+T +EK +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLESELLINITEHQLVPEHVVMTPEEKAELLARYRLKEHQ 169


>gi|195426896|ref|XP_002061524.1| GK20665 [Drosophila willistoni]
 gi|194157609|gb|EDW72510.1| GK20665 [Drosophila willistoni]
          Length = 210

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 96/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKEMFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTYCTRM-QEENIHRAIVVVQGGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHDLVPEHVVMTAEEKQELLSRYKLKE 167


>gi|300175741|emb|CBK21284.2| unnamed protein product [Blastocystis hominis]
          Length = 206

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 88/151 (58%), Gaps = 3/151 (1%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVV 102
           +++R+  ++M+  RGY + +++       F + +G +PD + L +     S+ +   L++
Sbjct: 12  FIARKNAIKMMTKRGYVLRMTDDMTKYDAFLSRFGNEPDYESLSVIGKRLSNKNDGCLLI 71

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEMFQITD 160
           F     +    IR II Q+  ++ ++  I++++N+I S A  A   F+  F +++F+ + 
Sbjct: 72  FNDSPSLGAPAIREIIEQL-EKENISSAIIVVKNRIPSTAKHACKKFEPIFHLDLFKESS 130

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
           LLV+IT+H L P H  L++QE ++LL++ SI
Sbjct: 131 LLVDITEHFLVPPHIALSEQETKELLERLSI 161


>gi|261200923|ref|XP_002626862.1| DNA-directed RNA polymerase II polypeptide [Ajellomyces
           dermatitidis SLH14081]
 gi|239593934|gb|EEQ76515.1| DNA-directed RNA polymerase II polypeptide [Ajellomyces
           dermatitidis SLH14081]
 gi|239607191|gb|EEQ84178.1| DNA-directed RNA polymerase II polypeptide [Ajellomyces
           dermatitidis ER-3]
 gi|327351148|gb|EGE80005.1| DNA-directed RNA polymerase II polypeptide [Ajellomyces
           dermatitidis ATCC 18188]
          Length = 236

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 63/189 (33%), Positives = 91/189 (48%), Gaps = 32/189 (16%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISIS 90
           +  R+  R + + RTV EML DRGY V   EI + + +FR  Y      PD ++++IS  
Sbjct: 12  DADREMTRLWRTWRTVFEMLADRGYEVTEEEIKIPLDEFRTRYSDALGFPDRNKMKISAR 71

Query: 91  HQSDPSKR------------------ILVVFCGPGIVKVNV--IRSIISQIVNRDTLTGL 130
                  R                  I V FC P I  V    +R+    I  ++  TG 
Sbjct: 72  PSQAMMDRYTPLPTTLKPNPVPECGTIYVEFC-PDIHSVGTKQVRAFNHFIDEQNYHTG- 129

Query: 131 ILILQNQITSQATKAV----GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLL 186
           I I Q  I+  A + +    G F    E FQ  +LLVNIT H L PKH +L+ +EK++LL
Sbjct: 130 IFISQTPISPSAIRVLNSIPGRF---CEHFQEQELLVNITHHELVPKHVLLSAEEKKRLL 186

Query: 187 KKYSIEEKQ 195
           ++Y ++E Q
Sbjct: 187 QRYRLKESQ 195


>gi|196010385|ref|XP_002115057.1| expressed hypothetical protein [Trichoplax adhaerens]
 gi|190582440|gb|EDV22513.1| expressed hypothetical protein [Trichoplax adhaerens]
          Length = 210

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 95/165 (57%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRA-IYGQDPDVDRLR----ISISHQ 92
           ++ + +  R+TV++M  DRGY V+  E++ +   F    Y +  +  ++R    + + H 
Sbjct: 6   EAYKLWRIRKTVMQMCHDRGYMVSQEELDQTFDQFHEQFYSEMSESSQVRGLLSMLVHHI 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQ 150
            DP++++ V F     V +N I+    Q + R+ +   I+I+Q+ +T  A +++     +
Sbjct: 66  DDPTEQLFVFFPDEPKVGINTIKKY-CQRMQRENINRAIIIIQSGMTPTAKQSLIDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F  ++L++NIT+H L PKH V++ +EK +LL +Y ++E Q
Sbjct: 125 YTLESFMESELMINITEHHLVPKHIVMSPEEKAELLARYKLKEHQ 169


>gi|292611220|ref|XP_002661023.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Danio rerio]
          Length = 210

 Score = 79.0 bits (193), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 94/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+TV+++  DRGY V   E++ ++ +F+  +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTVMQLCHDRGYLVTQDELDQTLDEFKIQFGDRPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEELKVGIKTIK-MYCQRMQEENITRAVIVVQTGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEEVTELLARYKLKETQ 169


>gi|225560287|gb|EEH08569.1| RNA polymerase subunit [Ajellomyces capsulatus G186AR]
 gi|240279038|gb|EER42544.1| RNA polymerase subunit [Ajellomyces capsulatus H143]
 gi|325090297|gb|EGC43607.1| RNA polymerase subunit [Ajellomyces capsulatus H88]
          Length = 236

 Score = 79.0 bits (193), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 62/188 (32%), Positives = 92/188 (48%), Gaps = 30/188 (15%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS-- 88
           +  R+  R + + RTV EML DRGY V   EI + + +FR  Y      PD ++++IS  
Sbjct: 12  DADREMTRLWRTWRTVFEMLADRGYEVTEEEIKIPLDEFRTRYSDALGFPDRNKMKISAR 71

Query: 89  -----------ISHQSDPSK-----RILVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLI 131
                      +   S P+       I V FC     V    IR+    I  ++  TG I
Sbjct: 72  PSQTMMDKYTPLPTASKPNPVPECGTIYVEFCADMQSVGTKQIRAFNHFIDEQNYHTG-I 130

Query: 132 LILQNQITSQATKAV----GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            + Q  I+  A + +    G F    E FQ  +LLVNIT H L PKH +L+ +EK++LL+
Sbjct: 131 FVSQTPISPSAMRVLNSIPGRF---CEHFQEQELLVNITHHELVPKHVLLSAEEKKRLLQ 187

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 188 RYRLKESQ 195


>gi|124514006|ref|XP_001350359.1| DNA-directed RNA polymerase 2, putative [Plasmodium falciparum 3D7]
 gi|23615776|emb|CAD52768.1| DNA-directed RNA polymerase 2, putative [Plasmodium falciparum 3D7]
          Length = 205

 Score = 78.6 bits (192), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 56/161 (34%), Positives = 91/161 (56%), Gaps = 9/161 (5%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISIS--HQSDPSKR 98
           R+Y  R+T  EML+DRGY +   E   +   F+ ++ +D D  R ++ IS  H++D + R
Sbjct: 7   RFYKCRKTCCEMLEDRGYIMTPREKLENFSTFKEMF-EDNDRQRSKMGISTTHKNDSNNR 65

Query: 99  ILVVFCGPGIVKVNVIRSI--ISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVE 154
           I+V F     VK   ++ +  +++ +   ++   IL+ QN +T  A  A+     +  +E
Sbjct: 66  IIVYFADE--VKKTGVKPLRELTERMEEKSIQRAILVTQNILTPFARDAIKEAAPRHIIE 123

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            F  T+LLVNITKH L P+H  LT  EK+ LL++Y I E +
Sbjct: 124 NFLDTELLVNITKHELVPRHIPLTSDEKKNLLQRYKIMENK 164


>gi|156101473|ref|XP_001616430.1| DNA-directed RNA polymerase II 23 kDa polypeptide [Plasmodium vivax
           Sal-1]
 gi|148805304|gb|EDL46703.1| DNA-directed RNA polymerase II 23 kDa polypeptide, putative
           [Plasmodium vivax]
          Length = 205

 Score = 78.6 bits (192), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 89/160 (55%), Gaps = 7/160 (4%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R+Y  R+T  EML+DRGY +   E   +   F+  + ++  +  R+ I  SH++D + +I
Sbjct: 7   RFYKCRKTCCEMLEDRGYIITPREKLENFATFKEQFEENEKLRSRMTIITSHKNDANNKI 66

Query: 100 LVVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEM 155
           +V F    I K  V  +R +  ++ +  ++   IL+ QN +T  A  A+     +  +E 
Sbjct: 67  IVYF-ADEIKKTGVKPLRELTEKM-DEKSIQRAILVTQNTLTPFARDAIKEAAPRHIIEN 124

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F  T+LLVNITKH L P+H  LT  EK  LL++Y I+E +
Sbjct: 125 FLDTELLVNITKHELVPRHIPLTSDEKRNLLQRYKIKENK 164


>gi|19922004|ref|NP_610630.1| Rpb5, isoform A [Drosophila melanogaster]
 gi|442623281|ref|NP_001260878.1| Rpb5, isoform B [Drosophila melanogaster]
 gi|194884129|ref|XP_001976148.1| GG22706 [Drosophila erecta]
 gi|195333273|ref|XP_002033316.1| GM20482 [Drosophila sechellia]
 gi|195483584|ref|XP_002090346.1| GE13062 [Drosophila yakuba]
 gi|195551744|ref|XP_002076283.1| GD15257 [Drosophila simulans]
 gi|7303678|gb|AAF58728.1| Rpb5, isoform A [Drosophila melanogaster]
 gi|17945808|gb|AAL48951.1| RE34924p [Drosophila melanogaster]
 gi|190659335|gb|EDV56548.1| GG22706 [Drosophila erecta]
 gi|194125286|gb|EDW47329.1| GM20482 [Drosophila sechellia]
 gi|194176447|gb|EDW90058.1| GE13062 [Drosophila yakuba]
 gi|194201932|gb|EDX15508.1| GD15257 [Drosophila simulans]
 gi|220948406|gb|ACL86746.1| Rpb5-PA [synthetic construct]
 gi|220957602|gb|ACL91344.1| Rpb5-PA [synthetic construct]
 gi|440214282|gb|AGB93411.1| Rpb5, isoform B [Drosophila melanogaster]
          Length = 210

 Score = 78.6 bits (192), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 96/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKEMFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTYCTRM-QEENIHRAIVVVQGGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTVEEKQELLSRYKLKE 167


>gi|291240531|ref|XP_002740164.1| PREDICTED: DNA directed RNA polymerase II polypeptide E-like
           [Saccoglossus kowalevskii]
          Length = 210

 Score = 78.6 bits (192), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/165 (25%), Positives = 93/165 (56%), Gaps = 8/165 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ ++  F++ +G  P   R R     + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLCHDRGYLVTQEELDQTLDQFKSQFGDKPSEGRPRRNDLTVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ + F     + +  I++   Q +  + +T   +++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFIFFPEEPKIGIKTIKTY-CQKMQEENITRATIVVQAGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +E F   +LL+N+T+H L P+H V+T +EK +LL +Y ++E Q
Sbjct: 125 YILEQFLEAELLINLTEHELVPEHVVMTPEEKAELLARYRLKEHQ 169


>gi|429329987|gb|AFZ81746.1| DNA-directed RNA polymerase, putative [Babesia equi]
          Length = 205

 Score = 78.6 bits (192), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 88/162 (54%), Gaps = 11/162 (6%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR---ISISHQSDPSK 97
           R +  RRT  EML+DRGY +   E   +  +F+A Y      DR R   + ++ Q   S+
Sbjct: 7   RLFRCRRTCCEMLEDRGYFIPSQEKLETFAEFKARY---ESYDRTRSKMLLVASQKTASE 63

Query: 98  RILVVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK--V 153
             ++VF      K  V  IR +  ++ + D +   IL+ QN +TS A  A+     +  +
Sbjct: 64  NKVLVFFADETKKTGVKPIRELTERMEDHD-IHRAILVTQNVLTSFAKDAIMEASPRNII 122

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F  T+LLVNIT+H L PKH  LT +EK+ LL++Y ++E Q
Sbjct: 123 ENFMETELLVNITRHELVPKHVPLTMEEKQNLLQRYKVKENQ 164


>gi|443703356|gb|ELU00950.1| hypothetical protein CAPTEDRAFT_226435 [Capitella teleta]
          Length = 210

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 46/157 (29%), Positives = 88/157 (56%), Gaps = 8/157 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQSDPSKRIL 100
           R+TV+++  DRGY V   E++ ++  F+  +G  P   R     L + ++H  DP  ++ 
Sbjct: 14  RKTVMQLCHDRGYLVTQDELDQTIDQFKDQFGDKPSERRPARSDLIVLVAHNDDPIDQMF 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     V +  I++   Q +  + ++  I+++Q  +T  A +++     ++ +E F  
Sbjct: 74  VFFPDEPKVGIKTIKTY-CQRMQEENISRAIIVVQAGMTPSAKQSLVDMAPKYILEQFLE 132

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LL+NIT+H L P+H +LT +EK +LL +Y ++E Q
Sbjct: 133 AELLINITEHTLVPEHVLLTPEEKAELLTRYKLKESQ 169


>gi|31235339|ref|XP_319221.1| AGAP010064-PA [Anopheles gambiae str. PEST]
 gi|157128329|ref|XP_001661404.1| DNA-directed RNA polymerase II [Aedes aegypti]
 gi|170059825|ref|XP_001865530.1| DNA-directed RNA polymerase II 23 kDa polypeptide [Culex
           quinquefasciatus]
 gi|30174740|gb|EAA43596.1| AGAP010064-PA [Anopheles gambiae str. PEST]
 gi|108872649|gb|EAT36874.1| AAEL011087-PA [Aedes aegypti]
 gi|167878475|gb|EDS41858.1| DNA-directed RNA polymerase II 23 kDa polypeptide [Culex
           quinquefasciatus]
          Length = 210

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 95/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLSHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKTIKTYCTRM-QEENIHRAIVVVQAGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTPEEKQELLARYKLKE 167


>gi|289740817|gb|ADD19156.1| RNA polymerase 25-kDa subunit [Glossina morsitans morsitans]
          Length = 210

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 95/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKEMFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPDEPKIGIKTIKTYCTRM-QEENIHRAIVVVQAGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLTNITEHELVPEHVVMTPEEKQELLARYKLKE 167


>gi|229366774|gb|ACQ58367.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Anoplopoma fimbria]
          Length = 210

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 95/169 (56%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V++ +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMSKEEVVELLARYKLKESQ 169


>gi|451853318|gb|EMD66612.1| hypothetical protein COCSADRAFT_35119 [Cochliobolus sativus ND90Pr]
          Length = 234

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 56/183 (30%), Positives = 95/183 (51%), Gaps = 27/183 (14%)

Query: 40  LRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDRLRISISHQSD---- 94
           +R +   RT  EM+ DRGY V   ++ +S+++F   Y  +D + DR R++ S Q      
Sbjct: 11  IRLWRVWRTTKEMMNDRGYMVVEDDMTMSLEEFSRRYAREDGEPDRSRLNFSCQPSEEML 70

Query: 95  ------PSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN-- 136
                 P+K+          I V F     V +  +R  ++ +VN    +G+++ ++   
Sbjct: 71  AKYTDAPTKKNPNPTPSIGTIWVEFNADENVGMKQLREYMAHLVNGSFHSGIMVTVKAMT 130

Query: 137 ----QITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
               ++   AT      +  VE+F   DLLVNITKH L PKH +L+DQEK++LL++Y ++
Sbjct: 131 GMAIRLLRGATSITDGPKGGVEVFVEQDLLVNITKHELVPKHVLLSDQEKQQLLQRYRLK 190

Query: 193 EKQ 195
           + Q
Sbjct: 191 QTQ 193


>gi|336267790|ref|XP_003348660.1| hypothetical protein SMAC_01684 [Sordaria macrospora k-hell]
 gi|380093918|emb|CCC08134.1| unnamed protein product [Sordaria macrospora k-hell]
          Length = 234

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 57/190 (30%), Positives = 98/190 (51%), Gaps = 33/190 (17%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISIS 90
           + S++  R + + RTV EM++DRGY +A  E+ +S++ F+  Y  +   P+  +L+ S  
Sbjct: 9   SASKEVSRLWRAWRTVHEMVQDRGYELAEDEVKISLERFKLEYTNEDGTPNRGKLQFS-- 66

Query: 91  HQSDPSKRILVVFCGP-----------------------GIVKVNVIRSIISQIVNRDTL 127
             + PS+ ++  F  P                       G + V+V++  ++   +    
Sbjct: 67  --ARPSEAMIKKFTAPPTPSNPNPAPECGTIWVEFCTEKGSIGVSVMKKFVTHCSDNKFK 124

Query: 128 TGLILILQNQITSQATKAVGLF-QF-KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKL 185
            G I I    +++QA K + +  Q+ +VE F   DLLVNIT H L PKH +L+ +EK  L
Sbjct: 125 AG-IFITAVPLSAQARKVMSVTSQYTQVECFLEEDLLVNITHHELVPKHVLLSKEEKAAL 183

Query: 186 LKKYSIEEKQ 195
           LK+Y ++E Q
Sbjct: 184 LKRYRLKETQ 193


>gi|452004738|gb|EMD97194.1| hypothetical protein COCHEDRAFT_1163800 [Cochliobolus
           heterostrophus C5]
          Length = 234

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 57/183 (31%), Positives = 96/183 (52%), Gaps = 27/183 (14%)

Query: 40  LRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS-------I 89
           +R +   RT  EM+ DRGY V   ++ +S+++F   Y ++   PD  RL  S       I
Sbjct: 11  IRLWRVWRTTKEMMNDRGYMVVEDDMTMSLEEFSRRYAREDGEPDRSRLNFSCQPSEEMI 70

Query: 90  SHQSD-PSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN-- 136
           +  +D P+K+          I V F     V +  +R  ++ +VN    +G+++ ++   
Sbjct: 71  AKYTDAPTKKNPNPTPNIGTIWVEFNADENVGMKQLREYMAHLVNGSFHSGIMVTVKAMT 130

Query: 137 ----QITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
               ++   AT      +  VE+F   DLLVNITKH L PKH +L+DQEK++LL++Y ++
Sbjct: 131 GMAIRLLRGATSITDGPKGGVEVFVEQDLLVNITKHELVPKHVLLSDQEKQQLLQRYRLK 190

Query: 193 EKQ 195
           + Q
Sbjct: 191 QTQ 193


>gi|195164101|ref|XP_002022887.1| GL16482 [Drosophila persimilis]
 gi|198471627|ref|XP_002133786.1| GA22602 [Drosophila pseudoobscura pseudoobscura]
 gi|194104949|gb|EDW26992.1| GL16482 [Drosophila persimilis]
 gi|198146002|gb|EDY72413.1| GA22602 [Drosophila pseudoobscura pseudoobscura]
          Length = 210

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 96/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKDMFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTYCTRM-QEENIHRAIVVVQGGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTVEEKQELLSRYKLKE 167


>gi|322706717|gb|EFY98297.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Metarhizium
           anisopliae ARSEF 23]
          Length = 232

 Score = 78.2 bits (191), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 60/187 (32%), Positives = 92/187 (49%), Gaps = 26/187 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  S++ +R + + RTV EM+ DR Y +A  E+N+S+  FR  Y  +PD    R  +   
Sbjct: 7   DAKSKEVVRLWRAWRTVHEMVADREYELAEEEVNISLDRFRDEYC-NPDGSVNRSKLQFS 65

Query: 93  SDPSKRIL--------------VVFCGPGIVK--------VNVIRSIISQIVNRDTLTGL 130
           + PS  +L              V  CGP  V+        V  IR      ++ +  TG 
Sbjct: 66  ARPSDAMLKKNTPPATESNPDPVPDCGPVWVEFLTDKQFGVGQIRQFAKYTISNNYKTG- 124

Query: 131 ILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           I++    ++  A K++   +   K+E F   DLLVNIT H L P+H +L+  EK  LLK+
Sbjct: 125 IMVTHVPLSPAARKSLASVENLAKIECFLEDDLLVNITHHELVPRHVLLSRDEKSALLKR 184

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 185 YRLKETQ 191


>gi|209732756|gb|ACI67247.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Salmo
           salar]
 gi|303659190|gb|ADM15954.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Salmo
           salar]
          Length = 210

 Score = 78.2 bits (191), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 94/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T   +++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRACIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEELSELLLRYKLKESQ 169


>gi|403332978|gb|EJY65550.1| DNA-directed RNA polymerase, subunit H, RpoH/RPB5 [Oxytricha
           trifallax]
          Length = 215

 Score = 78.2 bits (191), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 52/169 (30%), Positives = 96/169 (56%), Gaps = 20/169 (11%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS------ 96
           Y  R+TVL+MLKDRGY V+  ++  ++++F+A +    D   L ++   Q DP+      
Sbjct: 10  YRVRKTVLQMLKDRGYIVSDKKLKQTIEEFKATFNNTRDSLNLIVTKRQQVDPNDPNSQV 69

Query: 97  -------KRILVVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILIL-QNQITSQATKAV 146
                  ++++V F  P + K+N+  ++ I  +++  +    +++I    QI+ +     
Sbjct: 70  AQNSEEQQKLIVFF--PDVEKLNMAALKQIAIKMLEVNCFNAIVIIKGATQISRRELDE- 126

Query: 147 GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            L   ++E F   +LLVNIT+H L P+H+VL+D+ K +LLKKY +++ Q
Sbjct: 127 -LKPCEIECFLQQELLVNITEHELVPRHEVLSDKAKHELLKKYRVKDSQ 174


>gi|397485347|ref|XP_003813812.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Pan paniscus]
          Length = 256

 Score = 78.2 bits (191), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 86/153 (56%), Gaps = 8/153 (5%)

Query: 50  LEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRILVVFC 104
           L++  DRGY V   E++ ++++F+A +G  P   R R     + ++H  DP+ ++ V F 
Sbjct: 64  LQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFP 123

Query: 105 GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLL 162
               V +  I+ +  Q +  + +T  ++++Q  +T  A +++     ++ +E F   +LL
Sbjct: 124 EEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELL 182

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 183 INITEHELVPEHVVMTKEEVTELLARYKLRENQ 215


>gi|312383157|gb|EFR28348.1| hypothetical protein AND_03878 [Anopheles darlingi]
          Length = 210

 Score = 78.2 bits (191), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 95/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLSHDRGYLVTQDELDQTLEQFKEQFGDKPSEKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTYCTRM-QEENIHRAIVVVQAGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T +EK++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTPEEKQELLARYKLKE 167


>gi|209733016|gb|ACI67377.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Salmo
           salar]
 gi|225715082|gb|ACO13387.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Esox
           lucius]
          Length = 210

 Score = 77.8 bits (190), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 94/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDDEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T   +++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRACIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEELSELLLRYKLKESQ 169


>gi|357609342|gb|EHJ66401.1| hypothetical protein KGM_04074 [Danaus plexippus]
          Length = 210

 Score = 77.8 bits (190), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 93/163 (57%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ ++  F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLDQFKEQFGDKPSDKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPDEAKIGIKTIKTYCTRM-QEENIHRAIVVVQAGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H VLT  EK++LL +Y ++E
Sbjct: 125 YILEHFLESELLINITEHELVPEHIVLTPDEKQELLARYKLKE 167


>gi|406866728|gb|EKD19767.1| RNA polymerase subunit [Marssonina brunnea f. sp. 'multigermtubi'
           MB_m1]
          Length = 231

 Score = 77.8 bits (190), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 54/181 (29%), Positives = 91/181 (50%), Gaps = 20/181 (11%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDRLRISISH 91
           + G R++ R + + RTV EM+ DRGY ++  E+ +S  DF++ Y   D  ++R  +  S 
Sbjct: 12  EAGDREAARLWRAWRTVHEMVADRGYELSEEEVKISFADFKSTYTLADGSINRKGMQFSA 71

Query: 92  QSDPSKRILVVFCGP------GIVKVNVIRSI---------ISQIVNRDTLTGLILILQN 136
           +  PS +++  +  P      G V V  +             +Q  + ++    IL+   
Sbjct: 72  R--PSDKMMKQYALPDGTSDIGTVWVEFLNETNVGIKQMRTFAQYCSANSFATGILVTAV 129

Query: 137 QITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEK 194
            IT  A K +     + ++E F   DLLVNIT H L PKH  L+  EK+ LL++Y +++ 
Sbjct: 130 TITPAALKIIPAVASETRIECFMDADLLVNITHHELVPKHITLSRDEKKALLERYRLKDT 189

Query: 195 Q 195
           Q
Sbjct: 190 Q 190


>gi|195119282|ref|XP_002004160.1| GI19761 [Drosophila mojavensis]
 gi|195401380|ref|XP_002059291.1| GJ18195 [Drosophila virilis]
 gi|193909228|gb|EDW08095.1| GI19761 [Drosophila mojavensis]
 gi|194142297|gb|EDW58703.1| GJ18195 [Drosophila virilis]
          Length = 210

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 41/163 (25%), Positives = 96/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKEMFGDKPSDKRPSRSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTYCTRM-QEENIHRAIVVVQGGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T ++K++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTAEDKQELLSRYKLKE 167


>gi|148699662|gb|EDL31609.1| mCG13422, isoform CRA_b [Mus musculus]
          Length = 165

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 43/162 (26%), Positives = 91/162 (56%), Gaps = 8/162 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 5   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 64

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 65  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 123

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +
Sbjct: 124 MAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLAR 165


>gi|195026900|ref|XP_001986362.1| GH20567 [Drosophila grimshawi]
 gi|193902362|gb|EDW01229.1| GH20567 [Drosophila grimshawi]
          Length = 210

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 41/163 (25%), Positives = 96/163 (58%), Gaps = 8/163 (4%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+T++++  DRGY V   E++ +++ F+ ++G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTIMQLSHDRGYLVTQDELDQTLEQFKEMFGDKPSDKRPARSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + +  I++  +++   + +   I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEEPKIGIKTIKTYCTRM-QEENIHRAIVVVQGGMTPSAKQSLVDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
           + +E F  ++LL+NIT+H L P+H V+T ++K++LL +Y ++E
Sbjct: 125 YILEQFLESELLINITEHELVPEHVVMTAEDKQELLSRYKLKE 167


>gi|20071300|gb|AAH26842.1| Polr2e protein [Mus musculus]
          Length = 162

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 43/162 (26%), Positives = 91/162 (56%), Gaps = 8/162 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +
Sbjct: 121 MAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLAR 162


>gi|340959991|gb|EGS21172.1| RNA polymerases I, II, and III-like protein [Chaetomium
           thermophilum var. thermophilum DSM 1495]
          Length = 547

 Score = 77.4 bits (189), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 58/185 (31%), Positives = 97/185 (52%), Gaps = 29/185 (15%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQSDP 95
           ++  R + + RTV EM++DRGY +A  E+ +S++ F+A Y  +D   +R ++  S +  P
Sbjct: 12  KEVTRLWRAWRTVHEMVQDRGYELADEEVKISLERFKAEYTNEDGSPNRAKMQFSAR--P 69

Query: 96  SKRILVVF--------------CGPGIVK---------VNVIRSIISQIVNRDTLTGLIL 132
           S+ ++  F              CG   V+         ++V++  +      +   G IL
Sbjct: 70  SEAMIKKFTPPPTPQNPDPQPECGTIWVEFCPEKTSIGISVMKKFVEHCAQNNFKAG-IL 128

Query: 133 ILQNQITSQATKAVGLF-QFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           +    ++SQA K + +  QF  +E F   DLLVNIT H L PKH +L+ +EK  LLK+Y 
Sbjct: 129 VTAVALSSQARKVMTVTSQFTLIECFLEEDLLVNITHHELVPKHILLSREEKAALLKRYR 188

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 189 LKETQ 193


>gi|332373332|gb|AEE61807.1| unknown [Dendroctonus ponderosae]
          Length = 210

 Score = 77.0 bits (188), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 41/162 (25%), Positives = 89/162 (54%), Gaps = 6/162 (3%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQ 92
           ++ + +  R+TV+++  DRGY V   E++ +++ F+  +G  P   R     L + ++H 
Sbjct: 6   ETYKLWRIRKTVMQLCHDRGYLVTQDELDQTLEQFKEHFGDKPSEKRPSRSDLIVLVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QF 151
            DP+ ++ V F     + +  I++   ++ + +    +I++      S     V +  ++
Sbjct: 66  DDPTDQMFVFFPDEPKIGIRTIKTYCQRMQDENIHRAIIVVQAGMTPSAKQSLVDMAPKY 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
            +E F  ++LL+NIT+H L P+H V+  +EK++LL +Y ++E
Sbjct: 126 ILEQFLESELLINITEHELVPEHVVMNPEEKQELLARYKLKE 167


>gi|225717382|gb|ACO14537.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Esox
           lucius]
          Length = 210

 Score = 76.6 bits (187), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 93/169 (55%), Gaps = 8/169 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
            +H  DP+ ++ V F     V +  I+ +  Q +  + +T   +++Q  +T  A +++  
Sbjct: 62  AAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRACIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y ++E Q
Sbjct: 121 MAPKYILEQFLQQELLINITEHELVPEHIVMTKEELSELLLRYKLKESQ 169


>gi|358393858|gb|EHK43259.1| hypothetical protein TRIATDRAFT_301149 [Trichoderma atroviride IMI
           206040]
          Length = 233

 Score = 76.6 bits (187), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 59/187 (31%), Positives = 94/187 (50%), Gaps = 26/187 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  S++ +R + + RTV EM+ DR Y +A  E+++S++ FR  Y   PD    R  +   
Sbjct: 8   DAKSKEVVRLWRAWRTVHEMVADREYELAEDEVSISLERFRDEYCH-PDGSVNRAKLQFS 66

Query: 93  SDPSKRIL--------------VVFCGPGIVK--------VNVIRSIISQIVNRDTLTGL 130
           + PS  +L              V  CGP  V+        V+ IR+     +  +  TG 
Sbjct: 67  ARPSDSMLRKNTPPATASNPDPVPDCGPIWVEFLTDKQFGVSQIRNFAKYTITNNYKTG- 125

Query: 131 ILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           I++    ++  A K++   +   K+E F   DLLVNIT H L P+H +L+ +EK  LLK+
Sbjct: 126 IMVTPVALSPAARKSLASVENLAKIECFLEDDLLVNITHHELVPRHVLLSREEKIALLKR 185

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 186 YRLKETQ 192


>gi|344243380|gb|EGV99483.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Cricetulus griseus]
          Length = 218

 Score = 76.6 bits (187), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 47/177 (26%), Positives = 95/177 (53%), Gaps = 16/177 (9%)

Query: 34  NGSRDSLRYYLSRRTV--------LEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR- 84
           +   ++ R +  R+T+        L++  DRGY V   E++ ++++F+A +G  P   R 
Sbjct: 2   DDEEETYRLWKIRKTIMQASDSLSLQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRP 61

Query: 85  ----LRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITS 140
               L + ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T 
Sbjct: 62  RRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTP 120

Query: 141 QATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            A +++     ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 121 SAKQSLVDMAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRESQ 177


>gi|226289047|gb|EEH44559.1| DNA-directed RNA polymerases I [Paracoccidioides brasiliensis Pb18]
          Length = 236

 Score = 76.6 bits (187), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 61/188 (32%), Positives = 92/188 (48%), Gaps = 30/188 (15%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS-- 88
              R+  + + + RTV EML DRGY V   EI + +++FR  Y      PD ++++IS  
Sbjct: 12  EADREMTKLWRTWRTVFEMLADRGYEVTEEEIKIPLEEFRTRYSDALGFPDRNKMKISAR 71

Query: 89  -----------ISHQSDPSK-----RILVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLI 131
                      +   S P+       I V FC     V    +R+    I  ++  TG I
Sbjct: 72  PSQAMMEKYTPLPTVSKPNPVPECGTIYVEFCADIQSVGTKQVRAFNHFIDEQNYHTG-I 130

Query: 132 LILQNQITSQATKAV----GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            I Q  I+  A + +    G F    E FQ  +LLVNIT H L PKH +L+ +EK++LL+
Sbjct: 131 FISQTPISPSAMRVLNSIPGRF---CEHFQEQELLVNITHHELVPKHILLSAEEKKRLLQ 187

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 188 RYRLKESQ 195


>gi|452981679|gb|EME81439.1| hypothetical protein MYCFIDRAFT_70882 [Pseudocercospora fijiensis
           CIRAD86]
          Length = 227

 Score = 76.3 bits (186), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 53/186 (28%), Positives = 91/186 (48%), Gaps = 25/186 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  SR+  R +   RT  +M  DRGY +   E N+S+++FR  Y  +      R+ ++  
Sbjct: 3   DENSRELSRLWRVLRTTKQMCSDRGYELTDEECNISLEEFRQQYADESGAPS-RVKMAFT 61

Query: 93  SDPSKRIL----------------------VVFCGPGIVKVNVIRSIISQIVNRDTLTGL 130
           + PS  ++                      V F     + +  ++   S + +++  TG 
Sbjct: 62  ARPSDAMIKKYTPIQRPGQDEKPPEIGTIHVEFSNDASIGIKQLKQFASNLADKNYYTG- 120

Query: 131 ILILQNQITSQATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           I + Q Q TS A K +  +    +E+F+  DLLVNI++H L PKH +L+ +EK  LL++Y
Sbjct: 121 IYVSQVQPTSAALKIIPSVHPLIMEIFKEDDLLVNISRHELVPKHILLSQEEKRGLLERY 180

Query: 190 SIEEKQ 195
            ++E Q
Sbjct: 181 RLKETQ 186


>gi|198457753|ref|XP_002138441.1| GA24393 [Drosophila pseudoobscura pseudoobscura]
 gi|198136092|gb|EDY68999.1| GA24393 [Drosophila pseudoobscura pseudoobscura]
          Length = 210

 Score = 76.3 bits (186), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 92/167 (55%), Gaps = 8/167 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVD-----RLRIS 88
           N   +  + +  R+TVL+M  DRGY V   E++ ++Q F+ I+G  P  +      + + 
Sbjct: 2   NDEEELYKMWRIRKTVLQMCHDRGYLVTQEELDQTLQGFQEIFGDRPSENCPSRADITLL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+    ++   +++   I+++QN IT  A +A+  
Sbjct: 62  VAHNDDPTDQMFVFFPQEPKVGIKDIKRYCLRM-QEESIYRAIIVVQNSITPSARQALVE 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
              ++ +E F   +L+ NIT++   P+H V+T  EK++LL +Y ++E
Sbjct: 121 MAPKYVLEQFLEAELMFNITENENVPEHVVMTPDEKQELLSRYKLKE 167


>gi|345562747|gb|EGX45783.1| hypothetical protein AOL_s00140g99 [Arthrobotrys oligospora ATCC
           24927]
          Length = 225

 Score = 76.3 bits (186), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 88/184 (47%), Gaps = 23/184 (12%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  +R+  R Y + RT  EM+ DRGY +   E+N+S+ DF+  Y  D D    R  ++  
Sbjct: 3   DADAREVSRLYRAWRTAHEMIADRGYDLTEEELNISLDDFKVKYC-DSDGRPQRKKMTFS 61

Query: 93  SDPSKR--------------------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLIL 132
           + PS+                     I + F     + +  +R     IV  +  TG + 
Sbjct: 62  AKPSQSMIDRNTDTQTGQLIPNSCGTIWIEFSPEPSIGIKQMRVFAHTIVEHNFHTG-VF 120

Query: 133 ILQNQITSQATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
           I    +TS A K +      V E F   DLLVNIT+H L P+H +++ ++K KLL++Y +
Sbjct: 121 ITMAPLTSSAAKIIPTVAPSVIECFLEQDLLVNITRHELVPQHVLMSREDKRKLLERYRL 180

Query: 192 EEKQ 195
           +E Q
Sbjct: 181 KETQ 184


>gi|281341350|gb|EFB16934.1| hypothetical protein PANDA_012732 [Ailuropoda melanoleuca]
          Length = 193

 Score = 75.9 bits (185), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 86/153 (56%), Gaps = 8/153 (5%)

Query: 50  LEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRILVVFC 104
           L++  DRGY V   E++ ++++F+A +G  P   R R     + ++H  DP+ ++ V F 
Sbjct: 1   LQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFP 60

Query: 105 GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLL 162
               V +  I+ +  Q +  + +T  ++++Q  +T  A +++     ++ +E F   +LL
Sbjct: 61  EEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELL 119

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 120 INITEHELVPEHVVMTKEEVTELLARYKLRENQ 152


>gi|367022836|ref|XP_003660703.1| hypothetical protein MYCTH_2314258 [Myceliophthora thermophila ATCC
           42464]
 gi|347007970|gb|AEO55458.1| hypothetical protein MYCTH_2314258 [Myceliophthora thermophila ATCC
           42464]
          Length = 234

 Score = 75.9 bits (185), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 59/184 (32%), Positives = 97/184 (52%), Gaps = 27/184 (14%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQSDP 95
           ++  R + + RTV EM++DRGY +A  E+ +S+  FRA Y  +D   +R ++  S  + P
Sbjct: 12  KEVTRLWRAWRTVHEMVQDRGYELAEDEVKISLDRFRAEYTNEDGSPNRAKMQFS--ARP 69

Query: 96  SKRILVVF--------------CGPGIV-----KVNVIRSIISQIV---NRDTLTGLILI 133
           S+ ++  F              CG   V     K ++  S++ + V   + +     IL+
Sbjct: 70  SEAMIKKFTPPPTPSNPDPAPECGTIWVEFCPEKTSIGISVMKKFVEHCSANNFKAGILV 129

Query: 134 LQNQITSQATKAVGLF-QFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
               +++QA K + +  QF  +E F   DLLVNIT H L PKH +L+ +EK  LLK+Y +
Sbjct: 130 TAVALSAQARKVMTVTSQFTLIECFLEEDLLVNITHHELVPKHVLLSREEKAALLKRYRL 189

Query: 192 EEKQ 195
           +E Q
Sbjct: 190 KETQ 193


>gi|296822412|ref|XP_002850281.1| DNA-directed RNA polymerase II polypeptide [Arthroderma otae CBS
           113480]
 gi|238837835|gb|EEQ27497.1| DNA-directed RNA polymerase II polypeptide [Arthroderma otae CBS
           113480]
          Length = 236

 Score = 75.9 bits (185), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 59/185 (31%), Positives = 91/185 (49%), Gaps = 24/185 (12%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS-- 88
              R+  R + + RTV E+L DRGY V   E+ +S+ +FR  Y      PD +++RIS  
Sbjct: 12  EADREMARLWRTWRTVFELLLDRGYEVTEEEVKISLGEFRRRYSDALGFPDRNKMRISAR 71

Query: 89  -----------ISHQSDPSKR-----ILVVFCGPG-IVKVNVIRSIISQIVNRDTLTGLI 131
                      +   S P+       I V FC     V    IR+  +Q +++      I
Sbjct: 72  PSQAMMEKYTPLPTTSKPNTAPECGTIHVEFCSETQSVGTKHIRAF-NQFIDQQNYHAGI 130

Query: 132 LILQNQITSQATKAVGLFQFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
            I Q+ I+  A + +     +  E F   +LLVNIT H L PKH +L+ +EK+KLL++Y 
Sbjct: 131 FITQSPISPSAIRLLTAIPGRFCEHFLEQELLVNITHHELVPKHILLSAEEKKKLLQRYR 190

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 191 LKESQ 195


>gi|195150967|ref|XP_002016421.1| GL10501 [Drosophila persimilis]
 gi|194110268|gb|EDW32311.1| GL10501 [Drosophila persimilis]
          Length = 210

 Score = 75.9 bits (185), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 91/167 (54%), Gaps = 8/167 (4%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVD-----RLRIS 88
           N   +  + +  R+TVL+M  DRGY V   E++ ++Q F+ I+G  P  +      + + 
Sbjct: 2   NDEEELYKMWRIRKTVLQMCHDRGYLVTQEELDQTLQGFQEIFGDRPSENCPSRADITLL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+    ++   +++   I+++QN IT  A +A+  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKDIKRYCLRM-QEESIYRAIIVVQNSITPSARQALVE 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
              ++ +E F   +L+ NIT++   P+H V+T  EK++LL +Y + E
Sbjct: 121 MAPKYVLEQFLEAELMFNITENENVPEHVVMTPDEKQELLSRYKLRE 167


>gi|296424747|ref|XP_002841908.1| hypothetical protein [Tuber melanosporum Mel28]
 gi|295638159|emb|CAZ86099.1| unnamed protein product [Tuber melanosporum]
          Length = 220

 Score = 75.9 bits (185), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 97/177 (54%), Gaps = 20/177 (11%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+S R + + RTV EM KDRGY ++  EI +++++FR  Y  D +   +R +++ +++PS
Sbjct: 5   RESSRLWRAWRTVHEMAKDRGYEISEEEITITLEEFRHQYC-DGEGRPIRKNLTFKANPS 63

Query: 97  KRIL-----------------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQIT 139
             ++                 V F     + +  +R+    I + +  TG I I  +  T
Sbjct: 64  PSMIKQHAPAPNQPATVGTLWVEFSAESNIGIKHMRAFAHTINSENFHTG-IFICSSHPT 122

Query: 140 SQATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             A K V  +    +E+F  +DLLVNITKH L P+H +L+ +EK+KLL++Y ++E Q
Sbjct: 123 PAAMKIVPTVLPSVIEVFLESDLLVNITKHELVPRHILLSREEKKKLLERYRLKESQ 179


>gi|258563314|ref|XP_002582402.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Uncinocarpus
           reesii 1704]
 gi|237907909|gb|EEP82310.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Uncinocarpus
           reesii 1704]
          Length = 239

 Score = 75.9 bits (185), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 59/188 (31%), Positives = 91/188 (48%), Gaps = 27/188 (14%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD------PDVDRLRI 87
             +R+  R + + +TV EML DRGY V   E+ +S+ DFR+ Y         P  +++RI
Sbjct: 12  EANREMTRLWRTWKTVFEMLLDRGYEVTEEEVKISLNDFRSKYADTLGFPDAPSRNKMRI 71

Query: 88  SISHQS----------DPSK--------RILVVFCGPGI-VKVNVIRSIISQIVNRDTLT 128
           S                P+K         I V FC     V    +R+    +  ++  T
Sbjct: 72  SARPSQAMIEKYTPLPSPAKPNPVAECGTIYVEFCADAQGVGTKQVRAFNHFVDEQNYHT 131

Query: 129 GLILILQNQITSQATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
           G I I Q+ I+  A + + G+     E F   +LLVNIT H L PKH +L+ +EK++LL 
Sbjct: 132 G-IFITQSPISPSAVRLLTGIPGRFCEHFLEQELLVNITHHELVPKHLLLSAEEKKRLLH 190

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 191 RYRLKESQ 198


>gi|300120101|emb|CBK19655.2| DNA-directed RNA polymerase II [Blastocystis hominis]
          Length = 215

 Score = 75.9 bits (185), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 54/165 (32%), Positives = 91/165 (55%), Gaps = 8/165 (4%)

Query: 39  SLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ---DPDVDRLRISISHQSDP 95
           + + +  R+TV +ML  RGYA++  + ++++  F   Y     +PD+ +L I      D 
Sbjct: 9   TTKLFRVRKTVFKMLSKRGYAISDKDQSMTLDTFVKDYCDAETNPDLLKLTIISRKTEDE 68

Query: 96  SKRILVVFCGPGIVKVN--VIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK- 152
             R++V F      K+N     S I ++ + + +  +IL+   ++TS+A K       K 
Sbjct: 69  DDRVVVFFIRSVDKKINGKDFESKIEKVSSEENVKRIILVFGGELTSEAKKKANSASKKN 128

Query: 153 --VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             VE FQ  +L+V+IT+H L P+HQ+L  QEK  LLK+Y +EE+Q
Sbjct: 129 LIVESFQEDELVVDITEHELVPEHQLLKPQEKADLLKQYGLEERQ 173


>gi|15242916|ref|NP_200606.1| RNA polymerase II fifth largest subunit, C [Arabidopsis thaliana]
 gi|9758367|dbj|BAB08868.1| RNA polymerase I, II and III 24.3 kDa subunit-like protein
           [Arabidopsis thaliana]
 gi|332009598|gb|AED96981.1| RNA polymerase II fifth largest subunit, C [Arabidopsis thaliana]
          Length = 210

 Score = 75.5 bits (184), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/160 (31%), Positives = 90/160 (56%), Gaps = 5/160 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ---DPDVDRLRISISHQSDPSK 97
           R +  RRTVL+ML+DRGY +  S++NL  ++F   + +     + + L +S +   +P+ 
Sbjct: 10  RIFKVRRTVLQMLRDRGYTIEESDLNLKREEFVQRFCKTMNKVNKEALFVSANKGPNPAD 69

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEM 155
           +I V +     V V VI+  ++  +  D +   I+++   IT+ A  AV        +E+
Sbjct: 70  KIYVFYPEGPKVGVPVIKKEVAIKMRDDKVHRGIVVVPMAITAPARMAVSELNKMLTIEV 129

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F+  +L+ NIT+H L  K+ VL DQ K+KLL  Y++++ Q
Sbjct: 130 FEEAELVTNITEHKLVNKYYVLDDQAKKKLLNTYTVQDTQ 169


>gi|354480932|ref|XP_003502657.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Cricetulus griseus]
          Length = 235

 Score = 75.5 bits (184), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 86/155 (55%), Gaps = 8/155 (5%)

Query: 48  TVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRILVV 102
            ++ +  DRGY V   E++ ++++F+A +G  P   R R     + ++H  DP+ ++ V 
Sbjct: 41  ALMGLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVF 100

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITD 160
           F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++     ++ +E F   +
Sbjct: 101 FPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYVLEQFLQQE 159

Query: 161 LLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LL+NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 160 LLINITEHELVPEHVVMTKEEVTELLARYKLRESQ 194


>gi|400596436|gb|EJP64210.1| RNA polymerase Rpb5 domain-containing protein [Beauveria bassiana
           ARSEF 2860]
          Length = 232

 Score = 75.5 bits (184), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 58/187 (31%), Positives = 93/187 (49%), Gaps = 26/187 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  S++ +R + + +TV EM+ DR Y +A  EIN+S+  FR+ +  +PD    R  +   
Sbjct: 7   DARSKEVVRLWRAWKTVHEMVADRDYELAQDEINISLDRFRSEFC-NPDGTVNRAKLQFS 65

Query: 93  SDPSKRIL--------------VVFCGPGIVK--------VNVIRSIISQIVNRDTLTGL 130
           + PS  +L              V  CGP  V+        V  IR      +  +  TG 
Sbjct: 66  ARPSDAMLRKHTPPATDANPDPVPDCGPIWVEFLADKQFGVAQIRQFAKYTITNNYKTG- 124

Query: 131 ILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           I++    ++  A K++   +   K+E F   DLLVNIT H L P+H +L+ +EK  LL++
Sbjct: 125 IMVTHVALSPAARKSLASVENLAKIECFLEDDLLVNITHHELVPRHVLLSREEKVALLRR 184

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 185 YRLKETQ 191


>gi|342884561|gb|EGU84768.1| hypothetical protein FOXB_04663 [Fusarium oxysporum Fo5176]
          Length = 236

 Score = 75.5 bits (184), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 58/189 (30%), Positives = 92/189 (48%), Gaps = 28/189 (14%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  S++ +R + + RT+ EM+ DR Y +A  E+ +S+  FR  Y  +PD    R  +   
Sbjct: 9   DARSKEVVRLWRAWRTIHEMVADREYELAEEEVKISLDRFRDEYC-NPDGSINRAKLQFS 67

Query: 93  SDPSKRILV----------------VFCGPGIVK--------VNVIRSIISQIVNRDTLT 128
           + PS+ ++                   CGP  V+        VN IR     ++  +  T
Sbjct: 68  ARPSENMIRKNTPPVTAANPNPNPGADCGPVWVEFLADKTFGVNQIRQFAKYVITNNYKT 127

Query: 129 GLILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLL 186
           G I++    ++  A K +   +   K+E F   DLLVNIT H L PKH +L+ +EK  LL
Sbjct: 128 G-IMVTHVPLSPAARKTLQSVESVAKIECFLEDDLLVNITHHELVPKHVLLSREEKLALL 186

Query: 187 KKYSIEEKQ 195
           K+Y ++E Q
Sbjct: 187 KRYRLKETQ 195


>gi|295671500|ref|XP_002796297.1| DNA-directed RNA polymerases I [Paracoccidioides sp. 'lutzii' Pb01]
 gi|226284430|gb|EEH39996.1| DNA-directed RNA polymerases I [Paracoccidioides sp. 'lutzii' Pb01]
          Length = 236

 Score = 75.5 bits (184), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 61/188 (32%), Positives = 91/188 (48%), Gaps = 30/188 (15%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRIS-- 88
              R+  + + + RTV EML DRGY V   EI + + +FR  Y      PD ++++IS  
Sbjct: 12  EADREMTKLWRTWRTVFEMLADRGYEVTEEEIKIPLDEFRTRYSDALGFPDRNKMKISAR 71

Query: 89  -----------ISHQSDPSK-----RILVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLI 131
                      +   S P+       I V FC     V    +R+    I  ++  TG I
Sbjct: 72  PSQAMMEKYTPLPTVSKPNPVPECGTIYVEFCADIQSVGTKQVRAFNHFIDEQNYHTG-I 130

Query: 132 LILQNQITSQATKAV----GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
            I Q  I+  A + +    G F    E FQ  +LLVNIT H L PKH +L+ +EK++LL+
Sbjct: 131 FISQTPISPSAMRVLNSIPGRF---CEHFQEQELLVNITHHELVPKHILLSAEEKKRLLQ 187

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 188 RYRLKESQ 195


>gi|84997627|ref|XP_953535.1| DNA-directed RNA polymerase, subunit (RPB5 homologue) [Theileria
           annulata strain Ankara]
 gi|65304531|emb|CAI76910.1| DNA-directed RNA polymerase, subunit (RPB5 homologue), putative
           [Theileria annulata]
          Length = 205

 Score = 75.1 bits (183), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 57/159 (35%), Positives = 85/159 (53%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ-DPDVDRLRISISHQSDPSKRI 99
           R +  RRT  EML+DRGY +   E   +  +F+A Y   D    ++ +  S ++    ++
Sbjct: 7   RLFRCRRTCCEMLEDRGYFIPSQEKLETFAEFKARYEMYDKVRSKMLLVASLRTAAENKL 66

Query: 100 LVVFCG-PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFK--VEMF 156
           LV F        V  IR +  ++ + D +   IL+ QN +T  A  A+     K  +E F
Sbjct: 67  LVYFADEKKKTGVKPIRELTERMEDHD-IHRAILVTQNVLTPFAKDAIMEAYPKNIIENF 125

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             T+LLVNITKH L PKH  LT +EK+ LL+KY ++E Q
Sbjct: 126 METELLVNITKHELVPKHIPLTMEEKQNLLQKYKVKESQ 164


>gi|330933135|ref|XP_003304060.1| hypothetical protein PTT_16482 [Pyrenophora teres f. teres 0-1]
 gi|311319571|gb|EFQ87830.1| hypothetical protein PTT_16482 [Pyrenophora teres f. teres 0-1]
          Length = 235

 Score = 75.1 bits (183), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 55/183 (30%), Positives = 94/183 (51%), Gaps = 27/183 (14%)

Query: 40  LRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDRLRISISHQSD---- 94
           +R +   +T  EM+ DRGY V   ++N+S+  F   Y  +D + DR R++ S Q      
Sbjct: 12  MRLWRVWKTTKEMMNDRGYMVLEEDMNMSLDQFSRKYAREDGEPDRSRLNFSCQPSEEML 71

Query: 95  ------PSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN-- 136
                 P+K+          I V F     V +  +R  ++ +VN    +G+++ ++   
Sbjct: 72  AKYTDAPTKKVPNPTPNIGTIWVEFNADENVGMKQLREYMAHLVNGSFHSGIMITVKPMT 131

Query: 137 ----QITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
               ++   AT      +  VE+F   DLLVNITKH L PKH +L+D+EK++LL++Y ++
Sbjct: 132 GMAIRLLRGATSLSDGPKGGVEVFIEQDLLVNITKHELVPKHVLLSDEEKQQLLQRYRLK 191

Query: 193 EKQ 195
           + Q
Sbjct: 192 QTQ 194


>gi|149034606|gb|EDL89343.1| rCG29511, isoform CRA_a [Rattus norvegicus]
 gi|149034607|gb|EDL89344.1| rCG29511, isoform CRA_a [Rattus norvegicus]
 gi|149034608|gb|EDL89345.1| rCG29511, isoform CRA_a [Rattus norvegicus]
          Length = 202

 Score = 75.1 bits (183), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 85/152 (55%), Gaps = 8/152 (5%)

Query: 51  EMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRILVVFCG 105
           ++  DRGY V   E++ ++++F+A +G  P   R R     + ++H  DP+ ++ V F  
Sbjct: 11  QLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPE 70

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLV 163
              V +  I+ +  Q +  + +T  ++++Q  +T  A +++     ++ +E F   +LL+
Sbjct: 71  EPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYVLEQFLQQELLI 129

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NIT+H L P+H V+T +E  +LL +Y + E Q
Sbjct: 130 NITEHELVPEHVVMTKEEVTELLARYKLRESQ 161


>gi|189192274|ref|XP_001932476.1| DNA-directed RNA polymerases I [Pyrenophora tritici-repentis
           Pt-1C-BFP]
 gi|187974082|gb|EDU41581.1| DNA-directed RNA polymerases I [Pyrenophora tritici-repentis
           Pt-1C-BFP]
          Length = 235

 Score = 75.1 bits (183), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 55/183 (30%), Positives = 94/183 (51%), Gaps = 27/183 (14%)

Query: 40  LRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDRLRISISHQSD---- 94
           +R +   +T  EM+ DRGY V   ++N+S+  F   Y  +D + DR R++ S Q      
Sbjct: 12  MRLWRVWKTTKEMMNDRGYMVLEEDMNMSLDQFARKYAREDGEPDRSRLNFSCQPSEEML 71

Query: 95  ------PSKR----------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN-- 136
                 P+K+          I V F     V +  +R  ++ +VN    +G+++ ++   
Sbjct: 72  AKYTDAPTKKVPNPLPNIGTIWVEFNADENVGMKQLREYMAHLVNGSFHSGIMITVKPMT 131

Query: 137 ----QITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
               ++   AT      +  VE+F   DLLVNITKH L PKH +L+D+EK++LL++Y ++
Sbjct: 132 GMAIRLLRGATSLSDGPKGGVEVFIEQDLLVNITKHELVPKHVLLSDEEKQQLLQRYRLK 191

Query: 193 EKQ 195
           + Q
Sbjct: 192 QTQ 194


>gi|358384639|gb|EHK22236.1| hypothetical protein TRIVIDRAFT_84202 [Trichoderma virens Gv29-8]
          Length = 233

 Score = 75.1 bits (183), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 59/187 (31%), Positives = 91/187 (48%), Gaps = 26/187 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQ 92
           D  S++ +R + + RTV EM+ DR Y +A  E+ +S+  FR  Y   PD    R  +   
Sbjct: 8   DAKSKEVVRLWRAWRTVHEMVADREYELAEDEVTISLDRFRDEYCH-PDGTVNRAKLQFS 66

Query: 93  SDPSKRIL--------------VVFCGPGIVK--------VNVIRSIISQIVNRDTLTGL 130
           + PS  +L              V  CGP  V+        V  IR      ++ +  TG 
Sbjct: 67  ARPSDSMLRKNTPPATASNPDPVPDCGPIWVEFLTDKQFGVGQIRQFAKYTISNNYKTG- 125

Query: 131 ILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           I++    ++  A K++   +   K+E F   DLLVNIT H L P+H +L+ +EK  LLK+
Sbjct: 126 IMVTHVPLSPAARKSLASVENLAKIECFLEDDLLVNITHHELVPRHVLLSREEKIALLKR 185

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 186 YRLKETQ 192


>gi|167379694|ref|XP_001735242.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Entamoeba dispar SAW760]
 gi|165902841|gb|EDR28561.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1,
           putative [Entamoeba dispar SAW760]
          Length = 204

 Score = 74.7 bits (182), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 91/157 (57%), Gaps = 5/157 (3%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQSDPSKRI 99
           Y + +TVLEML+DRGY  +  + N +++ F+  +   G+  D   L I +  ++D +  I
Sbjct: 8   YRAWKTVLEMLRDRGYITSEEDHNTTLEGFKERFYKGGEGVDHKELTIKVVKENDATDGI 67

Query: 100 LVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL-FQFKVEMFQI 158
           +V F     +K +V+   +++ V  + +   I++ + +++S   + +    + K E    
Sbjct: 68  IVFFAEGVSLKTDVLGKYLTE-VESEHVKRAIIVYRGKLSSPVKQMMEQPREVKWEALLE 126

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +L+VN+T HVL P+H +L+ +EK++LLKKY ++E Q
Sbjct: 127 DELIVNVTHHVLVPQHILLSPEEKQELLKKYQVKESQ 163


>gi|67469583|ref|XP_650770.1| RNA polymerase subunit Rpb5 [Entamoeba histolytica HM-1:IMSS]
 gi|56467420|gb|EAL45380.1| RNA polymerase subunit Rpb5, putative [Entamoeba histolytica
           HM-1:IMSS]
 gi|407044881|gb|EKE42883.1| RNA polymerase Rpb5, C-terminal domain containing protein
           [Entamoeba nuttalli P19]
 gi|449705666|gb|EMD45670.1| RNA polymerase subunit Rpb5, putative [Entamoeba histolytica KU27]
          Length = 204

 Score = 74.3 bits (181), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 46/157 (29%), Positives = 91/157 (57%), Gaps = 5/157 (3%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY---GQDPDVDRLRISISHQSDPSKRI 99
           Y + +TVLEML+DRGY  +  + N +++ F+  +   G+  D   L I +  ++D +  I
Sbjct: 8   YRAWKTVLEMLRDRGYITSEEDHNTTLEGFKERFYKGGEGVDHKELTIKVVKENDATDGI 67

Query: 100 LVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL-FQFKVEMFQI 158
           +V F     +K +V+   +++ V  + +   I++ + +++S   + +    + K E    
Sbjct: 68  IVFFAEGVSLKTDVLGKYLTE-VESEHVKRAIIVYRGKLSSPVKQMMEQPREVKWEALLE 126

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +L+VN+T H+L P+H +L+ +EK++LLKKY ++E Q
Sbjct: 127 DELIVNVTHHILVPQHILLSPEEKQELLKKYQVKESQ 163


>gi|156089419|ref|XP_001612116.1| RNA polymerase Rpb5, N-terminal domain containing protein [Babesia
           bovis]
 gi|154799370|gb|EDO08548.1| RNA polymerase Rpb5, N-terminal domain containing protein [Babesia
           bovis]
          Length = 205

 Score = 73.9 bits (180), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 86/162 (53%), Gaps = 11/162 (6%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR----ISISHQSDPS 96
           R +  RRT  EML+DRGY +   E   +  +F+A Y      DR+R    +  S ++D  
Sbjct: 7   RLFRCRRTCCEMLEDRGYFIPNQERLETFAEFKARYEL---YDRVRSKMLLVASLKTDKD 63

Query: 97  KRILVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKV 153
            ++LV F        V  IR +  ++ + D +   IL+ QN +T  A  A+     +  +
Sbjct: 64  AKLLVYFADETKKTGVKPIRELTEKMEDHD-IHRAILVTQNVLTPFAKDAILEAAPRNII 122

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F  T+LLVNITKH L PKH  LT  EK+ LL++Y ++E Q
Sbjct: 123 ENFLETELLVNITKHELVPKHIPLTADEKQTLLQRYKVKESQ 164


>gi|297796715|ref|XP_002866242.1| hypothetical protein ARALYDRAFT_495901 [Arabidopsis lyrata subsp.
           lyrata]
 gi|297312077|gb|EFH42501.1| hypothetical protein ARALYDRAFT_495901 [Arabidopsis lyrata subsp.
           lyrata]
          Length = 213

 Score = 73.2 bits (178), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 90/163 (55%), Gaps = 8/163 (4%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ------DPDVDRLRISISHQSD 94
           R +  RRTVL+ML+DRGY +  S++NL  ++F   + +        + + L ++ +   +
Sbjct: 10  RLFKVRRTVLQMLRDRGYTIEESDLNLKREEFVQRFCKPMNNMNKVNKEALFVAANKGPN 69

Query: 95  PSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FK 152
           P+ +I V +     V V VI+  ++  +  D +   I+++   IT  A  A+        
Sbjct: 70  PADKIYVFYPEGPKVGVPVIKKEVAIKMRDDKVPRGIVVVPMPITGPARMAISELNKILT 129

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +E+F+  +L+ NIT+H L  K+ VL DQ K++LLK Y++++ Q
Sbjct: 130 IEVFEEAELVTNITEHKLINKYYVLDDQAKKELLKTYTVQDTQ 172


>gi|340521475|gb|EGR51709.1| predicted protein [Trichoderma reesei QM6a]
          Length = 237

 Score = 73.2 bits (178), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 60/191 (31%), Positives = 92/191 (48%), Gaps = 30/191 (15%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD----VDRLRIS 88
           D  S++ +R + + RTV EM+ DR Y +A  E+N+S+  FR  Y   PD        R  
Sbjct: 8   DAKSKEVVRLWRAWRTVHEMVADREYELAEDEVNISLDRFRDEYCH-PDGTLTQKNSRAK 66

Query: 89  ISHQSDPSKRIL--------------VVFCGPGIVK--------VNVIRSIISQIVNRDT 126
           +   + PS  +L              V  CGP  V+        V  IR      ++ + 
Sbjct: 67  LQFSARPSDSMLRKNTPPATPSNPDPVPDCGPIWVEFLTDKQFGVGQIRQFAKYTISNNY 126

Query: 127 LTGLILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEK 184
            TG I++    ++  A K++   +   K+E F   DLLVNIT H L P+H +L+ +EK  
Sbjct: 127 KTG-IMVTHVPLSPAARKSLASVENLAKIECFLEDDLLVNITHHELVPRHVLLSREEKIA 185

Query: 185 LLKKYSIEEKQ 195
           LLK+Y ++E Q
Sbjct: 186 LLKRYRLKETQ 196


>gi|402467370|gb|EJW02677.1| hypothetical protein EDEG_02909 [Edhazardia aedis USNM 41457]
          Length = 200

 Score = 73.2 bits (178), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 89/154 (57%), Gaps = 4/154 (2%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD-PDVDRLRISISHQSDPSKRILV 101
           +L R TV+EML+DRGY    +  +LS+Q+F   Y     D   +++ + H S  +++++ 
Sbjct: 9   HLCRETVIEMLQDRGYISNRTTKSLSLQEFMHEYSNALQDRSTIKMLVLH-SKTNEQLVC 67

Query: 102 VFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDL 161
            F     V +  ++  I  I+++  +  ++L+ +  ++    K V  F+  VE+F+  +L
Sbjct: 68  HFFDEAKVGLKALKLTIEGILSQK-IENVVLVCKEGLSPAGAKFVAEFK-NVEVFKEKEL 125

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           L N+TKH+L PKH++L  +EK KLL+   I+E Q
Sbjct: 126 LFNVTKHMLVPKHRILEYEEKCKLLECRRIKESQ 159


>gi|398396120|ref|XP_003851518.1| hypothetical protein MYCGRDRAFT_43980, partial [Zymoseptoria
           tritici IPO323]
 gi|339471398|gb|EGP86494.1| hypothetical protein MYCGRDRAFT_43980 [Zymoseptoria tritici IPO323]
          Length = 218

 Score = 73.2 bits (178), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 50/172 (29%), Positives = 87/172 (50%), Gaps = 25/172 (14%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL------ 100
           RT  +M  DRGY +  +E N+S+++FR++Y  +  V + R  ++  + PS  ++      
Sbjct: 8   RTTKQMCADRGYELTEAECNISLEEFRSLYADESGVPQ-RTKMAFTARPSAAMIKKYTPF 66

Query: 101 ----------------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
                           V F     + +  I++    +  ++  TG I + Q   TS A K
Sbjct: 67  TRPNQPEKEAEIGNIHVEFSNESNIGIKHIKNFAQLLSEKNYYTG-IFVTQVAPTSAALK 125

Query: 145 AV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +  +    +E+F+  DLLVNI+KH L PKH +L+ +EK  LL++Y ++E Q
Sbjct: 126 IIPSVLPTVMEIFREEDLLVNISKHDLVPKHILLSQEEKRGLLERYRLKETQ 177


>gi|212533613|ref|XP_002146963.1| RNA polymerase subunit [Talaromyces marneffei ATCC 18224]
 gi|210072327|gb|EEA26416.1| RNA polymerase subunit [Talaromyces marneffei ATCC 18224]
          Length = 236

 Score = 72.8 bits (177), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 57/185 (30%), Positives = 88/185 (47%), Gaps = 37/185 (20%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI-------- 89
           R + + RTV EML+DRGY ++  E+ + +QDF   +      P  +R+ I+         
Sbjct: 18  RLWRTWRTVHEMLRDRGYEISEEELKIDLQDFTNKFSDSNGFPSRERMTIAAIPSEAMKA 77

Query: 90  ------SHQSDPSK-----RILVVFC----GPGIVKVNVIRSIISQIVNRDTLTGLILIL 134
                    +DP       +I V FC    G G  +V       + +V+       I I 
Sbjct: 78  KYTPLKKRPTDPDPVPDCGQIFVQFCEDTTGVGAKQVRQF----NHLVDEGNYHSGIFIT 133

Query: 135 QNQITSQATK----AVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           +  I+  A +    A+G      E FQ +DLLVNIT H L PKH +L+ +EK +LL++Y 
Sbjct: 134 RTAISPSAVRLLNSAIGHI---CEHFQESDLLVNITHHELVPKHVLLSAEEKARLLERYR 190

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 191 LKESQ 195


>gi|242778512|ref|XP_002479254.1| RNA polymerase subunit [Talaromyces stipitatus ATCC 10500]
 gi|218722873|gb|EED22291.1| RNA polymerase subunit [Talaromyces stipitatus ATCC 10500]
          Length = 236

 Score = 72.8 bits (177), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 59/185 (31%), Positives = 87/185 (47%), Gaps = 37/185 (20%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI-------- 89
           R + + RTV EML+DRGY ++  E+ +  QDF   +G +   P   ++ I+         
Sbjct: 18  RLWRTWRTVHEMLRDRGYEMSEEEVKIDYQDFANKFGGEHGYPSRAKMTIAAMPSEAMKA 77

Query: 90  ------SHQSDPSK-----RILVVFC----GPGIVKVNVIRSIISQIVNRDTLTGLILIL 134
                    SDP        I V FC    G G  +V       + +V+       I I 
Sbjct: 78  KYTPLKKRVSDPDPVPDCGPIYVQFCEDTTGVGAKQVRAF----NHLVDEGNYHSGIFIT 133

Query: 135 QNQITSQATK----AVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           +  I+  A +    AVG      E FQ +DLLVNIT H L PKH +L+ +EK +LL++Y 
Sbjct: 134 RTAISPSAMRLLSSAVGHI---CEHFQESDLLVNITHHELVPKHVLLSAEEKARLLERYR 190

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 191 LKESQ 195


>gi|403223518|dbj|BAM41648.1| DNA-directed RNA polymerase [Theileria orientalis strain Shintoku]
          Length = 205

 Score = 72.0 bits (175), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 54/159 (33%), Positives = 83/159 (52%), Gaps = 5/159 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +  RRT  EML+DRGY +   E   +  +F+A Y     +    + ++ Q   S   L
Sbjct: 7   RLFRCRRTCCEMLEDRGYFIPGKERLETFAEFKARYELYDKMRSKMLLVASQKTASDNKL 66

Query: 101 VVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMF 156
           +V+      K  V  IR +  ++ + D +   IL+ +N +T  A  A+     +  +E F
Sbjct: 67  LVYFADETRKTGVKPIRELTERMEDHD-IHRAILVTRNVLTPFAKDAIMEAYPRNIIENF 125

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             T+LLVNIT+H L PKH  LT  EK+ LL+KY ++E Q
Sbjct: 126 METELLVNITRHELVPKHIPLTMDEKQNLLQKYKVKESQ 164


>gi|320590726|gb|EFX03169.1| RNA polymerase subunit [Grosmannia clavigera kw1407]
          Length = 237

 Score = 72.0 bits (175), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 54/183 (29%), Positives = 89/183 (48%), Gaps = 26/183 (14%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDF-RAIYGQDPDVDRLRISISHQSDP 95
           R+  + + + RTV EM +DRGY +A  E+ +S  DF R     D   DR ++  S  + P
Sbjct: 16  RELRKLWRAWRTVHEMCQDRGYELAEDEVKISFDDFVRQFSLPDGTADRGKMQFS--ARP 73

Query: 96  SKRILVVF--------------CGPGIVKVNVIRSIISQIVNR-------DTLTGLILIL 134
           S+ ++  F              CG   V+    + I  + + R       ++    I++ 
Sbjct: 74  SESMIKKFTPPPTAARPDPPTECGTIWVEFMTEQQIGVKEIKRFLQHCSENSFRAGIMVT 133

Query: 135 QNQITSQATKAVG--LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
           Q  +++QA K +   +   ++E F   DLLVNIT H L P H +L+ +EK  LL +Y ++
Sbjct: 134 QGALSAQARKVINATMMYTQIECFMQDDLLVNITHHELVPTHVLLSKEEKTALLSRYRLK 193

Query: 193 EKQ 195
           E Q
Sbjct: 194 ETQ 196


>gi|389628590|ref|XP_003711948.1| DNA-directed RNA polymerase I [Magnaporthe oryzae 70-15]
 gi|351644280|gb|EHA52141.1| DNA-directed RNA polymerase I [Magnaporthe oryzae 70-15]
          Length = 230

 Score = 72.0 bits (175), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 62/188 (32%), Positives = 97/188 (51%), Gaps = 34/188 (18%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ-DPDVDRLRISISHQS 93
           G+R   R +   RT+ +ML DRGY ++  E N+S++ F A +   + +VD+ +++ S  +
Sbjct: 9   GARKLWRAW---RTIHQMLSDRGYELSEEECNISIERFLADFTDGNGNVDQSKLTFS--A 63

Query: 94  DPSKRILVVF--------------CGPGIV------KVNVIRSIISQIVNRDTLTGL--- 130
            PS  +L +               CG   V      K+ V R+   Q V     +G    
Sbjct: 64  RPSDAMLKLHARIPTPTDPDPAPDCGSIWVEFINEEKIGVGRT--KQFVEVLLQSGFRDG 121

Query: 131 ILILQNQITSQATKAV---GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
           IL+ Q  ++S A +A+   G    KVE F + DLLVNIT H L PKH +L+  EK+ LL+
Sbjct: 122 ILVTQGALSSGARRALSATGSGDNKVEAFMLEDLLVNITHHELVPKHVMLSRVEKKALLE 181

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 182 RYRLKETQ 189


>gi|440470981|gb|ELQ40020.1| DNA-directed RNA polymerases I [Magnaporthe oryzae Y34]
 gi|440484880|gb|ELQ64891.1| DNA-directed RNA polymerases I [Magnaporthe oryzae P131]
          Length = 259

 Score = 72.0 bits (175), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 62/188 (32%), Positives = 97/188 (51%), Gaps = 34/188 (18%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ-DPDVDRLRISISHQS 93
           G+R   R +   RT+ +ML DRGY ++  E N+S++ F A +   + +VD+ +++ S  +
Sbjct: 9   GARKLWRAW---RTIHQMLSDRGYELSEEECNISIERFLADFTDGNGNVDQSKLTFS--A 63

Query: 94  DPSKRILVVF--------------CGPGIV------KVNVIRSIISQIVNRDTLTGL--- 130
            PS  +L +               CG   V      K+ V R+   Q V     +G    
Sbjct: 64  RPSDAMLKLHARIPTPTDPDPAPDCGSIWVEFINEEKIGVGRT--KQFVEVLLQSGFRDG 121

Query: 131 ILILQNQITSQATKAV---GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
           IL+ Q  ++S A +A+   G    KVE F + DLLVNIT H L PKH +L+  EK+ LL+
Sbjct: 122 ILVTQGALSSGARRALSATGSGDNKVEAFMLEDLLVNITHHELVPKHVMLSRVEKKALLE 181

Query: 188 KYSIEEKQ 195
           +Y ++E Q
Sbjct: 182 RYRLKETQ 189


>gi|440634485|gb|ELR04404.1| hypothetical protein GMDG_01480 [Geomyces destructans 20631-21]
          Length = 236

 Score = 71.6 bits (174), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 53/186 (28%), Positives = 92/186 (49%), Gaps = 24/186 (12%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRI----- 87
           D   R+  R + + RTV +M+ DRGY +   E+++S+ +F+  +  D   DR ++     
Sbjct: 11  DIADREVARLWRAWRTVHQMVNDRGYELNEDELSISLAEFKHRFTNDGVPDRKKMIFTAR 70

Query: 88  ----SISHQSDPSKR------------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLI 131
                ++  S P+              I + F     V +  +RS  +Q++++      I
Sbjct: 71  PSVEMVARYSTPATAANPNPPKADVGTIYIEFLADTNVGIKQMRSF-AQVLSQGNFHTGI 129

Query: 132 LILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           L+    IT  A K V     + ++E F   DLLVNIT H L PKH +L+ +E+ KLL++Y
Sbjct: 130 LVTHVHITPAAMKIVPAVASETRIECFLEQDLLVNITHHELVPKHVLLSKEERSKLLQRY 189

Query: 190 SIEEKQ 195
            +++ Q
Sbjct: 190 RLKDTQ 195


>gi|281202322|gb|EFA76527.1| RNA polymerase II core subunit [Polysphondylium pallidum PN500]
          Length = 288

 Score = 71.2 bits (173), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 52/184 (28%), Positives = 91/184 (49%), Gaps = 32/184 (17%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R Y  ++T+L+ML DRGY +   +++ S  +FR  +    D++ +    + + D + +I 
Sbjct: 6   RLYQIQKTILQMLHDRGYMITPVQLDQSKDEFRRNFKSREDMNSIH---TKREDAADKIF 62

Query: 101 VVFCGPGIVKVNVIRSIISQIV---NRDTL----------------------TGLILILQ 135
           + F     V V  I+ +IS ++   N  ++                      T  I+++Q
Sbjct: 63  IFFPNDPKVGVKPIKEVISTLIKPTNHLSIYLSTHNQTNTYRYVKRMKEIGGTRAIIVVQ 122

Query: 136 NQITSQATKAVGLF----QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
             +T  A +A+  F    +  +E F   +LLVNIT H L PKH +L+ +EK +LL KY +
Sbjct: 123 QVMTPFAKQALAEFSQNREIVLENFNEAELLVNITHHQLVPKHILLSKEEKSELLAKYKM 182

Query: 192 EEKQ 195
           +E Q
Sbjct: 183 KETQ 186


>gi|330803783|ref|XP_003289882.1| RNA polymerase II core subunit [Dictyostelium purpureum]
 gi|325080041|gb|EGC33614.1| RNA polymerase II core subunit [Dictyostelium purpureum]
          Length = 196

 Score = 71.2 bits (173), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 62/164 (37%), Positives = 91/164 (55%), Gaps = 17/164 (10%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK 97
           D +R    R+TV++ML DRGY    S I+  V   R I  +D     L+I    + DP++
Sbjct: 3   DPVRLTQIRKTVIQMLSDRGYIT--SAIDAEVP--RDITNRD----ELKIYCVKKDDPTE 54

Query: 98  RILVVFCGPGIVKVNV--IRSIISQIVNRDTLTGLILILQNQITSQATKA-VGLFQFK-- 152
            + V F  P + KV V  I+  +  + +R T   +I++ QN IT  A +A V + Q K  
Sbjct: 55  SVYVFF--PEVPKVGVTHIKKYVELMKSRQTNRAIIVVQQN-ITPFAKQALVEISQDKKI 111

Query: 153 -VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F   +LLVNIT H L PKH +LT +EK +LL +Y ++E Q
Sbjct: 112 VLEQFNEAELLVNITHHQLVPKHILLTKEEKLELLTRYKMKESQ 155


>gi|310792261|gb|EFQ27788.1| RNA polymerase Rpb5 domain-containing protein [Glomerella
           graminicola M1.001]
          Length = 230

 Score = 70.9 bits (172), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 55/185 (29%), Positives = 90/185 (48%), Gaps = 28/185 (15%)

Query: 36  SRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQSD 94
           +++  R + + RT  EM  DRGY +A  E+ +S+  F+  Y   D  V+R ++  S  ++
Sbjct: 8   NKEVTRLWRAWRTAHEMAADRGYELAEDELTISLDRFKMEYTSADGSVNRNKLQFS--AN 65

Query: 95  PSKRILVVFCGPGIVK----------------------VNVIRSIISQIVNRDTLTGLIL 132
           PS  ++  F  P   +                      +  I+  I  +++    +G I+
Sbjct: 66  PSAEMIRKFTPPATPQNPNPAPECGTLWVEFLADTTFGIKEIKKFIHHLISNKYSSG-IM 124

Query: 133 ILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           I    ++  A K +   +   KVE F   DLLVNITKH L PKH +L+ +EK  LLK+Y 
Sbjct: 125 ITHVALSPAARKMLITIESFAKVECFLEEDLLVNITKHELVPKHILLSREEKIALLKRYR 184

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 185 LKETQ 189


>gi|260943051|ref|XP_002615824.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Clavispora
           lusitaniae ATCC 42720]
 gi|238851114|gb|EEQ40578.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Clavispora
           lusitaniae ATCC 42720]
          Length = 287

 Score = 70.5 bits (171), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 73/150 (48%), Gaps = 10/150 (6%)

Query: 55  DRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSK--------RILVVFCGP 106
           D GY +   EIN+++ +F+A      +  R  +    Q  P           + V FC  
Sbjct: 98  DIGYYITDEEINMTLDEFKAKICPMGEAQRKLMCFQAQPTPEAAEKFPEMGSLWVEFCDE 157

Query: 107 GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-FKVEMFQITDLLVNI 165
             V +  +R+    I  ++  TG I I Q  IT  A K +       +E+FQ +DL+VNI
Sbjct: 158 ASVGIKTMRNFCIHISEKNFSTG-IFIYQTSITPSANKLIPTVSPATIEVFQESDLVVNI 216

Query: 166 TKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           T H L PKH  L+  EK++LL +Y ++E Q
Sbjct: 217 THHELVPKHIRLSKPEKKELLDRYRLKESQ 246


>gi|399949804|gb|AFP65461.1| RNA polymerase I, II and III 24.3 kDa subunit [Chroomonas
           mesostigmatica CCMP1168]
          Length = 216

 Score = 70.1 bits (170), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 54/173 (31%), Positives = 93/173 (53%), Gaps = 14/173 (8%)

Query: 36  SRDS--LRYYLSRRTVLEMLKDRGYAVALSEINLSVQD--FRAIYGQDPDVDR--LRISI 89
           SRD      +  R+TV ++L+DRG+ V  ++ +L +    F   + ++  + R  L I  
Sbjct: 3   SRDKEIFNVFRVRKTVFQILRDRGFIVLDNQEDLDMPRTVFERKFVKNYQIVREELEIIR 62

Query: 90  SHQSDPSKRILVVFC----GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKA 145
                 + +ILV F     G   + V  IR    +I  +D     IL+L  ++TS A +A
Sbjct: 63  PKWQMENHKILVAFVQGEKGKLTIGVKSIREYCERI-KQDNYESSILVLHGRLTSHAKQA 121

Query: 146 VGLFQF---KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +        ++E F  ++L++NIT+H L PKH++++ +EK+ LLK+YSI+E Q
Sbjct: 122 ISSINSVSDRIEYFSESELIINITEHCLVPKHEIISLEEKKSLLKRYSIKENQ 174


>gi|440494631|gb|ELQ76996.1| RNA polymerase, 25-kDa subunit (common to polymerases I, II and
           III) [Trachipleistophora hominis]
          Length = 197

 Score = 69.7 bits (169), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 50/157 (31%), Positives = 86/157 (54%), Gaps = 12/157 (7%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP----DVDRLRISISHQSDPSKR 98
           YL R+TVLEML DRGY+V   ++N    D+     + P    D   LRI +  Q D  + 
Sbjct: 8   YLVRKTVLEMLSDRGYSVKEYQVN----DYDDFVNKYPNCVKDTTNLRIIV--QKD-KEM 60

Query: 99  ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQI 158
           + V F     + +  ++ I+ + + +  +  LIL+L+  I+  A K        + +F+ 
Sbjct: 61  LFVFFSDEEKMSLKSVK-ILVENMEKQNIKNLILVLREGISPAANKFALECPMNITIFKE 119

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +LL N+TKH L  KH++++ +EKE+L+ +  I+E+Q
Sbjct: 120 KELLFNVTKHSLVFKHRIISVEEKERLMDEKKIKEEQ 156


>gi|378756615|gb|EHY66639.1| hypothetical protein NERG_00279 [Nematocida sp. 1 ERTm2]
          Length = 208

 Score = 69.7 bits (169), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 85/160 (53%), Gaps = 6/160 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV---DRLRISISHQSDPSK 97
           + +L ++T+ +M+K RGY V+  ++ + +  F+  Y    +      L +   H S P K
Sbjct: 9   KLWLCQKTIFQMMKCRGYTVSEVDMEMDLNAFKTSYPALINTGSKHSLSMLFQHTSMPEK 68

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEM 155
           ++ V F      K   I+   S +  ++   G+I + +  + + + KA+   +  + +E+
Sbjct: 69  QLFVFFPDNAYFKAKDIKLYTSTLGKQNIHNGII-VCKETLKAHSLKALDESRKDYDLEL 127

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F I +LL NITKH   PKH +LTD+EK+ +LK+  + + Q
Sbjct: 128 FYIKELLFNITKHKDVPKHVLLTDEEKKSVLKERKVGDAQ 167


>gi|156061727|ref|XP_001596786.1| hypothetical protein SS1G_03009 [Sclerotinia sclerotiorum 1980]
 gi|154700410|gb|EDO00149.1| hypothetical protein SS1G_03009 [Sclerotinia sclerotiorum 1980
           UF-70]
          Length = 242

 Score = 69.7 bits (169), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 53/190 (27%), Positives = 91/190 (47%), Gaps = 29/190 (15%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISH 91
           D   R++ + +   RTV EM++DRGY +A  E+N+S   F+A +   D  VDR +++ S 
Sbjct: 13  DGIDREAAKLWRCYRTVHEMVQDRGYLLAEEEVNMSFDTFKAKFTSNDGSVDRRQMNFS- 71

Query: 92  QSDPSKRILVVFCG--------PGIVKVNVI----------------RSIISQIVNRDTL 127
            + PS+ ++  +          P   ++  I                    +Q +++   
Sbjct: 72  -ATPSEAMIAKYANAPTPQNPNPTTSEIGTIWVEFLMVTDVSIGIKQMRTFAQHLSQHNF 130

Query: 128 TGLILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKL 185
           +  ILI     +  A K +       ++E F   DLLVNIT H L PKH +L+ +E+ KL
Sbjct: 131 SAGILIAPVPPSGPAQKIIPAVASDTRIETFVEQDLLVNITHHELVPKHVLLSKEERAKL 190

Query: 186 LKKYSIEEKQ 195
           L +Y +++ Q
Sbjct: 191 LSRYRLKDTQ 200


>gi|387594524|gb|EIJ89548.1| hypothetical protein NEQG_00318 [Nematocida parisii ERTm3]
 gi|387596634|gb|EIJ94255.1| hypothetical protein NEPG_00922 [Nematocida parisii ERTm1]
          Length = 208

 Score = 69.3 bits (168), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 86/160 (53%), Gaps = 6/160 (3%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV---DRLRISISHQSDPSK 97
           + +L ++T+ +M+K RGY V+ +++ + +  F+  Y    +      L +   H + P K
Sbjct: 9   KLWLCQKTIFQMMKCRGYTVSEADLEMDLDLFKTSYPALINTGSKHSLSMLFQHTTMPEK 68

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEM 155
           ++ V F      K   I+   S +  ++   G+I + +  + + + KA+     ++ +E+
Sbjct: 69  QLFVFFPDNAYFKAKDIKLYTSTLGKQNIHNGII-VCKETLKAHSLKALDESRKEYDLEL 127

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F I +LL NITKH   PKH +LT++EK+ +LK+  + E Q
Sbjct: 128 FYIRELLFNITKHKDVPKHILLTEEEKKNVLKERKVGEAQ 167


>gi|452840713|gb|EME42651.1| hypothetical protein DOTSEDRAFT_73472 [Dothistroma septosporum
           NZE10]
          Length = 228

 Score = 69.3 bits (168), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 53/185 (28%), Positives = 85/185 (45%), Gaps = 23/185 (12%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD---PDVDRLRISI 89
           D  SR+  R +   RT  +M  DRGY +   E N+S+ DFR  Y  +   P   R+  + 
Sbjct: 4   DEVSRELSRLWRVLRTTKQMCADRGYELTEEECNISLDDFRQQYADETGAPQRTRMAFTA 63

Query: 90  SHQSDPSKR------------------ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLI 131
               +  K+                  I V F     + +  I+     +  ++  TG I
Sbjct: 64  RPSENMQKKYMPLQRPGQSEGEPAIGTIHVEFSNDANIGIKHIKQFAQVLSEKNYYTG-I 122

Query: 132 LILQNQITSQATKAV-GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
            +     T  A K +  +    +E+F+  DLLVNI+KH L PKH +L+ +EK+ LL++Y 
Sbjct: 123 FVSAVAPTPAAMKIIPSILPTVMEIFREEDLLVNISKHELVPKHVLLSPEEKKGLLERYR 182

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 183 LKETQ 187


>gi|182676597|sp|Q54EH2.2|RPAB1_DICDI RecName: Full=DNA-directed RNA polymerases I, II, and III subunit
           rpabc1; Short=RNA polymerases I, II, and III subunit
           ABC1; AltName: Full=RPB5 homolog
          Length = 197

 Score = 69.3 bits (168), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/154 (33%), Positives = 78/154 (50%), Gaps = 12/154 (7%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           R+TVL+ML DR Y +   E     + F +        + L +    + DP+  I V F  
Sbjct: 11  RKTVLQMLSDREYIITAYEQEYPRESFVS-------RENLTMYCVKKDDPTDSIYVFFPD 63

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF----QFKVEMFQITDL 161
              V V  I+  +  + +R     +I++ QN IT  A +A+  F    +  +E F   +L
Sbjct: 64  TPKVGVTQIKKYVDIMKDRQANRAIIVVQQN-ITPFAKQALAEFSQEKKITLEQFNEAEL 122

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           LVNIT H L PKH +LT +EK +LL +Y ++E Q
Sbjct: 123 LVNITHHQLVPKHILLTKEEKLELLTRYKMKESQ 156


>gi|167516220|ref|XP_001742451.1| hypothetical protein [Monosiga brevicollis MX1]
 gi|163779075|gb|EDQ92689.1| predicted protein [Monosiga brevicollis MX1]
          Length = 210

 Score = 68.6 bits (166), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/151 (27%), Positives = 77/151 (50%), Gaps = 7/151 (4%)

Query: 48  TVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPG 107
           T+ +M  DRG+ V    +N++   +  IYG+ P  + L   +    D +  + V F    
Sbjct: 16  TLKQMCHDRGFRVTQEMMNMTFDTWNEIYGEYPRKE-LSFPVQKVDDDNDGLFVFFPESP 74

Query: 108 IVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-----QFKVEMFQITDLL 162
            VKV  I+S+  ++   D L   I++ Q ++   A   + +       + VE F   +L+
Sbjct: 75  DVKVAAIKSLYDRL-KSDNLRRAIIVYQRKVAPVAKSHIDILLKEDPPYIVETFAEAELV 133

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
            N+T+H L P H++L + EK++LL++Y + E
Sbjct: 134 YNVTRHHLVPHHEILKESEKQQLLERYCVSE 164


>gi|171688464|ref|XP_001909172.1| hypothetical protein [Podospora anserina S mat+]
 gi|170944194|emb|CAP70304.1| unnamed protein product [Podospora anserina S mat+]
          Length = 235

 Score = 68.6 bits (166), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 55/179 (30%), Positives = 87/179 (48%), Gaps = 25/179 (13%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDF-RAIYGQDPDVDRLRISISHQS------ 93
           R + + RT+ EM+ DRGY +A  EI + + +F R     D   +R  +S S +       
Sbjct: 17  RLWRAWRTIHEMVADRGYELAEEEIKMPLDEFKRKFTNGDGSPNRSIMSFSARPSASMIK 76

Query: 94  -----------DPSKR---ILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQI 138
                      DP+     I V FC     + ++V++  +    N     G IL+    +
Sbjct: 77  KFTPPPTASNPDPAPECGTIWVEFCPEKTSIGISVMKKFVEHCANNSYKAG-ILVTAVAL 135

Query: 139 TSQATKAVGLF-QFK-VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++QA K + +  Q+  +E F   DLLVNIT H L P H +L+ +EK  LLK+Y ++E Q
Sbjct: 136 SAQARKVMTVTSQYTLIECFLEEDLLVNITHHELVPTHILLSREEKMALLKRYRLKETQ 194


>gi|154292350|ref|XP_001546750.1| hypothetical protein BC1G_14664 [Botryotinia fuckeliana B05.10]
          Length = 242

 Score = 68.6 bits (166), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 92/190 (48%), Gaps = 29/190 (15%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISH 91
           D   R++ + +   RTV EM++DRGY +A  E+N+S   F++ +   D  VDR +++ S 
Sbjct: 13  DGIDREAAKLWRCYRTVHEMVQDRGYLLAEEEVNMSFDTFKSKFTSNDGSVDRRQMNFS- 71

Query: 92  QSDPSKRILVVFC--------GPGIVKVNVI----------------RSIISQIVNRDTL 127
            + PS+ ++  +          P   ++  I                    +Q +++   
Sbjct: 72  -ATPSEAMIARYAVAPTAENPNPTTSEIGTIWIEFLMVTDVSIGIKQMRTFAQHLSQHNF 130

Query: 128 TGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKL 185
           +  ILI     +  A K +     + ++E F   DLLVNIT H L PKH +L+ +E+ KL
Sbjct: 131 SAGILIAPVAPSGPAQKIIPAVASETRIETFVEQDLLVNITHHELVPKHVLLSREERAKL 190

Query: 186 LKKYSIEEKQ 195
           L +Y +++ Q
Sbjct: 191 LSRYRLKDTQ 200


>gi|154411936|ref|XP_001579002.1| RNA polymerase Rpb5, N-terminal domain containing protein
           [Trichomonas vaginalis G3]
 gi|121913204|gb|EAY18016.1| RNA polymerase Rpb5, N-terminal domain containing protein
           [Trichomonas vaginalis G3]
          Length = 202

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 83/163 (50%), Gaps = 19/163 (11%)

Query: 42  YYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILV 101
           Y+    T+ +M++DRGY V  S + +S   F  +Y  +P      ++  + +   +RIL 
Sbjct: 9   YFRIYHTINQMMRDRGYNVDPSRLEISHDKFNKVYSGNPH----NLNECYSNMEGERILT 64

Query: 102 VFCGPGIVKVNVIRSIISQI----VNRDTLTGLILILQNQITSQATKAVGLFQFK----- 152
            F     +    I++II  +    VNR  + G   IL        T A  L   +     
Sbjct: 65  FFDLIERLDSKTIQTIIKNMDEAGVNRAIVIGPEGILT------PTAARNLDNVRSSGKT 118

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +E F   ++++NIT+H L PKH+VLT+ EK+++LK+Y++ E Q
Sbjct: 119 IEFFSFDEVIINITEHELVPKHEVLTEDEKQEVLKRYNVTETQ 161


>gi|397611881|gb|EJK61509.1| hypothetical protein THAOC_17988 [Thalassiosira oceanica]
          Length = 581

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 71/127 (55%), Gaps = 8/127 (6%)

Query: 76  YGQDPD-----VDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGL 130
           +G+ PD     V  L  S     D + ++ V F     V V  I+ I++  +  + +T  
Sbjct: 415 FGKRPDGQFITVQVLTYSQEKADDDTNQLFVFFPEDEKVGVKPIK-ILTDRMKDEQVTNA 473

Query: 131 ILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           IL+L+  IT  A +AV      F++E F+  +LLV+IT+H L P+HQVL+  EK++LL++
Sbjct: 474 ILVLRGNITPFAKQAVAEMSDTFRIEHFKEAELLVDITEHTLVPEHQVLSQNEKQELLRR 533

Query: 189 YSIEEKQ 195
           Y + E Q
Sbjct: 534 YRLRETQ 540


>gi|380474201|emb|CCF45905.1| RNA polymerase Rpb5, partial [Colletotrichum higginsianum]
          Length = 219

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 53/184 (28%), Positives = 88/184 (47%), Gaps = 28/184 (15%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDVDRLRISISHQSDP 95
           ++  R + + RT  EM  DRGY +A  E+ +S+  F+  Y   D  V+R ++  S  ++P
Sbjct: 9   KEVTRLWRAWRTAHEMAADRGYELAEDELKISLDRFKMEYTAADGSVNRGKLQFS--ANP 66

Query: 96  SKRIL----------------------VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILI 133
           S  ++                      V F       +  I+  I  +++    +G I++
Sbjct: 67  SADMIRKYTPPPTSQNPNPTPDCGTLWVEFLADTTFGIKEIKKFIHHLISNKYSSG-IMV 125

Query: 134 LQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
               ++  A K +   +   KVE F   DLLVNIT+H L PKH +L+ +EK  LLK+Y +
Sbjct: 126 THVPLSPAARKMLITXESFXKVECFLEEDLLVNITQHELVPKHILLSREEKVALLKRYRL 185

Query: 192 EEKQ 195
           +E Q
Sbjct: 186 KETQ 189


>gi|326488034|dbj|BAJ89856.1| predicted protein [Hordeum vulgare subsp. vulgare]
          Length = 108

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 50/75 (66%), Gaps = 3/75 (4%)

Query: 28 LSGFVDNGSR---DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR 84
          +S  VD G R   +S R +L+RRT LEML+DRGY+V  SE+  ++ +FRA + Q+P+++R
Sbjct: 15 MSSMVDRGGRASQESHRLFLARRTALEMLRDRGYSVPESELARTLPEFRAWWAQEPEIER 74

Query: 85 LRISISHQSDPSKRI 99
          L  S    SD S ++
Sbjct: 75 LSFSTFLASDHSDKV 89


>gi|161899423|ref|XP_001712938.1| RNA polymerase I, II and III [Bigelowiella natans]
 gi|75756432|gb|ABA27326.1| RNA polymerase I, II and III [Bigelowiella natans]
          Length = 204

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 80/157 (50%), Gaps = 3/157 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           +YYL +    EML  RGY V    +NL+   F+    +     +    I+H +D + +I+
Sbjct: 8   KYYLLKNNYYEMLYRRGYYVEKKVLNLNYSQFKKKCIEKKRYFKSFKIINHLNDTNNKII 67

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEMFQI 158
             +   G++ VN +   I +    ++   +I I +  ++ Q   A+  F+  F +E+F  
Sbjct: 68  GFYNNKGLIDVNYLGLKIEKAKTNNS-NSIIFITKRYLSKQTNIALSHFRRNFNIEIFFE 126

Query: 159 TDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            ++L+N  KH L PKH +L    K K+LK Y++++ Q
Sbjct: 127 YEILINPIKHFLVPKHVLLAPDIKRKILKSYNVKDSQ 163


>gi|169600143|ref|XP_001793494.1| hypothetical protein SNOG_02900 [Phaeosphaeria nodorum SN15]
 gi|160705387|gb|EAT89631.2| hypothetical protein SNOG_02900 [Phaeosphaeria nodorum SN15]
          Length = 277

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 58/185 (31%), Positives = 90/185 (48%), Gaps = 31/185 (16%)

Query: 40  LRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-QDPDVDRLRISISHQSDPSKR 98
           +R +   RT  EM+ +RGY V   E+ +S++ F   Y  +D + DR R++ S  S PS+ 
Sbjct: 54  IRMWRVWRTAKEMMYERGYNVLDEEMTMSLEAFADKYAREDGEPDRSRLNFS--STPSEE 111

Query: 99  ILVVFCG-PGIVKVNVIRSI--ISQIVNRDTLTGL------------------ILILQNQ 137
           +L+ +   P   + N + +I  I    N D   GL                  I++    
Sbjct: 112 MLIKYTPMPTKKEPNPVPAIGTIWCEFNADEAVGLKQLRDFMNHLGSGSFYSGIMVTVKP 171

Query: 138 ITSQATKAV-GLFQFK------VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           IT  A + + G           +E+F   DLLVNITKH L PKH +L+ +EK +LL +Y 
Sbjct: 172 ITGMAIRLLRGASNLSDGPKGGIEVFVEQDLLVNITKHELVPKHVLLSAEEKAQLLTRYR 231

Query: 191 IEEKQ 195
           ++E Q
Sbjct: 232 LKETQ 236


>gi|443920437|gb|ELU40353.1| hypothetical protein AG1IA_05623 [Rhizoctonia solani AG-1 IA]
          Length = 133

 Score = 67.4 bits (163), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 43/135 (31%), Positives = 69/135 (51%), Gaps = 21/135 (15%)

Query: 56  RGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIR 115
           +GY VA  E+N+ +Q F++ +                 DP+ +I + F     V    I+
Sbjct: 18  QGYLVAEDEMNMDIQTFKSTF----------------DDPTNQIFIFFADEKNV---TIK 58

Query: 116 SIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPK 173
           +I   I++   +T  I++   ++T  A K +     Q+ +E F   DLLVNIT H L P+
Sbjct: 59  TIFLGILDEKGITHGIIVFMEKMTPSARKVISAMSSQYSLEEFAEADLLVNITHHKLVPQ 118

Query: 174 HQVLTDQEKEKLLKK 188
           HQVLT  EK+ LL++
Sbjct: 119 HQVLTQVEKKALLER 133


>gi|322700991|gb|EFY92743.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Metarhizium
           acridum CQMa 102]
          Length = 250

 Score = 67.0 bits (162), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 59/205 (28%), Positives = 92/205 (44%), Gaps = 44/205 (21%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRG------------------YAVALSEINLSVQDFRA 74
           D  S++ +R + + RTV EM+ DR                   Y +A  E+N+S+  FR 
Sbjct: 7   DAKSKEVVRLWRAWRTVHEMVADRPCDHIRPTRPPQTDPFIQEYELAEEEVNISLDRFRD 66

Query: 75  IYGQDPDVDRLRISISHQSDPSKRIL--------------VVFCGPGIVK--------VN 112
            Y  +PD    R  +   + PS  +L              +  CGP  V+        V 
Sbjct: 67  EYC-NPDGSVNRSKLQFSARPSDAMLKKNTPPATESNPDPIPDCGPVWVEFLTDKQFGVG 125

Query: 113 VIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEMFQITDLLVNITKHVL 170
            IR      ++ +  TG I++    ++  A K++   +   K+E F   DLLVNIT H L
Sbjct: 126 QIRQFAKYTISNNYKTG-IMVTHVPLSPAARKSLASVENLAKIECFLEDDLLVNITHHEL 184

Query: 171 KPKHQVLTDQEKEKLLKKYSIEEKQ 195
            P+H +L+  EK  LLK+Y ++E Q
Sbjct: 185 VPRHVLLSRDEKSALLKRYRLKETQ 209


>gi|168036467|ref|XP_001770728.1| predicted protein [Physcomitrella patens subsp. patens]
 gi|162677946|gb|EDQ64410.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 211

 Score = 65.9 bits (159), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 47/161 (29%), Positives = 84/161 (52%), Gaps = 14/161 (8%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R S   Y  R+ VLEM++D  Y VA +E+ L+ + F   Y +DP  + L I     S+ +
Sbjct: 8   RQSTHLYQVRKKVLEMMRDLDYVVADNELTLTNEQFCEKYREDPKQEDLMILKPKSSNNA 67

Query: 97  KRILVVFCGP-----GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVG--LF 149
           +       GP     G V +  I++   ++  R+ +   + ++Q  IT  + + +     
Sbjct: 68  EH------GPKTGGKGRVGLKTIKTCKKRM-KRENVPRAVFVVQQHITPLSKQYISRKAQ 120

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYS 190
           ++ +E+F   + LVNIT+  L P H++LT +EK  LL++Y+
Sbjct: 121 KYHLEVFLEPEFLVNITECYLVPLHEILTPEEKNTLLERYT 161


>gi|149034610|gb|EDL89347.1| rCG29511, isoform CRA_c [Rattus norvegicus]
          Length = 146

 Score = 65.9 bits (159), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 36/146 (24%), Positives = 79/146 (54%), Gaps = 8/146 (5%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R     L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKHVLKP 172
              ++ +E F   +LL+NIT+H   P
Sbjct: 121 MAPKYVLEQFLQQELLINITEHEQAP 146


>gi|225711614|gb|ACO11653.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Caligus
           rogercresseyi]
          Length = 210

 Score = 65.5 bits (158), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 38/140 (27%), Positives = 79/140 (56%), Gaps = 8/140 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-----QDPDVDRLRISISHQSDPSKRIL 100
           R+TV+ +  DRGY V   E++ ++  F+  +G     + P  + L I ++H  DP+ ++ 
Sbjct: 14  RKTVMSLCHDRGYLVTQDELDQTLDQFKVQFGDKPSEKQPSRNDLTILVAHNDDPTDQMF 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     + +  IR+   ++   + +T  I+++Q+ +T  A +++     ++ +E F  
Sbjct: 74  VFFPDDPKIGIKHIRTYCKRM-QEENITRAIILVQSGMTPSAKQSLMDMAPKYILEQFLE 132

Query: 159 TDLLVNITKHVLKPKHQVLT 178
           ++LL+N+T+H L P+H V+T
Sbjct: 133 SELLINLTEHDLVPEHVVMT 152


>gi|290462657|gb|ADD24376.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Lepeophtheirus salmonis]
          Length = 210

 Score = 64.3 bits (155), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/140 (27%), Positives = 79/140 (56%), Gaps = 8/140 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-----QDPDVDRLRISISHQSDPSKRIL 100
           R+TV+ +  DRGY V   E++ +++ F+  +G     + P  + L I ++H  DP+ ++ 
Sbjct: 14  RKTVMCLCHDRGYLVTQDELDQTIEQFKIQFGDKPSEKQPSRNDLTILVAHNDDPTDQMF 73

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQI 158
           V F     + +  IR+   ++   + +T  I+++Q  +T  A +++     ++ +E F  
Sbjct: 74  VFFPEDPKIGIKHIRTYCKRM-QEENITRAIIVVQAGMTPSAKQSLMDMAPKYILEQFLE 132

Query: 159 TDLLVNITKHVLKPKHQVLT 178
           ++LL+N+T+H L P+H V+T
Sbjct: 133 SELLINLTEHDLVPEHVVMT 152


>gi|225718552|gb|ACO15122.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Caligus
           clemensi]
          Length = 210

 Score = 64.3 bits (155), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 39/148 (26%), Positives = 81/148 (54%), Gaps = 8/148 (5%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG-----QDPDVDRLRISISHQ 92
           ++ + +  R+TV+ +  DRGY V   E++ +   F+  +G     + P  + L I ++H 
Sbjct: 6   ETYKLWKVRKTVMSLCHDRGYLVTQDELDQTQDQFKVQFGDKPSEKQPSRNDLTILVAHN 65

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--Q 150
            DP+ ++ V F     + V  IR+   ++   + +T  I+++Q  +T  A +++     +
Sbjct: 66  DDPTDQMFVFFPEDPKIGVKHIRTYCKRM-QEENITRAIIVVQAGMTPSAKQSLMDMAPK 124

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLT 178
           + +E F  ++LL+N+T+H L P+H V+T
Sbjct: 125 YILEQFLESELLINLTEHDLVPEHVVMT 152


>gi|326430754|gb|EGD76324.1| hypothetical protein PTSG_01026 [Salpingoeca sp. ATCC 50818]
          Length = 207

 Score = 64.3 bits (155), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 46/162 (28%), Positives = 84/162 (51%), Gaps = 15/162 (9%)

Query: 38  DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISH-----Q 92
           D  + Y +     +M  DRGY V    + +    +  ++G     D++R  +S+      
Sbjct: 5   DRFKVYKAWVVSKQMCHDRGYLVTQDMMEMPYDRWEEMHG-----DKIRRELSYYVRKDS 59

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-- 150
            DP+  +LV F     V   +I+S+  +I   ++   +I++ + ++   A KA+ + +  
Sbjct: 60  GDPTG-LLVYFPVEPDVSTVLIKSLHERITKENS-KRVIIVYRGKLAGAARKAMEVLKDS 117

Query: 151 -FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
            F  E+F   +L +N+T+H L PKH VLT+ EK++LL +YSI
Sbjct: 118 GFVFEVFTEAELAINVTRHRLVPKHDVLTEAEKQQLLDRYSI 159


>gi|169806439|ref|XP_001827964.1| DNA-directed RNA polymerase, subunit H, RpoH-RPB5 [Enterocytozoon
           bieneusi H348]
 gi|161779104|gb|EDQ31129.1| DNA-directed RNA polymerase, subunit H, RpoH-RPB5 [Enterocytozoon
           bieneusi H348]
          Length = 202

 Score = 63.9 bits (154), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 2/144 (1%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVV 102
           +L+R T++EML DRGY    S I   ++DF+  +  +        +I + +D      + 
Sbjct: 10  WLARNTIIEMLTDRGYIFEQS-IFSQLEDFKNTFNLEDSTSCNFTAIRNVNDKVILCAIH 68

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLL 162
           F     +    I +II+   N+ +++ LILI  N++   A   +    F +E+F   D+L
Sbjct: 69  FTSNDKLSKKQIETIITDYSNQ-SISKLILISCNKLNHAALAYLDKSNFSIELFLYKDIL 127

Query: 163 VNITKHVLKPKHQVLTDQEKEKLL 186
            N TKH+L P H++++ +EK  LL
Sbjct: 128 FNPTKHILVPHHKIMSIEEKTTLL 151


>gi|380800089|gb|AFE71920.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1, partial
           [Macaca mulatta]
          Length = 181

 Score = 63.9 bits (154), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/139 (27%), Positives = 78/139 (56%), Gaps = 8/139 (5%)

Query: 64  EINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRILVVFCGPGIVKVNVIRSII 118
           E++ ++++F+A +G  P   R R     + ++H  DP+ ++ V F     V +  I+ + 
Sbjct: 3   ELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIK-VY 61

Query: 119 SQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQV 176
            Q +  + +T  ++++Q  +T  A +++     ++ +E F   +LL+NIT+H L P+H V
Sbjct: 62  CQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEHVV 121

Query: 177 LTDQEKEKLLKKYSIEEKQ 195
           +T +E  +LL +Y + E Q
Sbjct: 122 MTKEEVTELLARYKLRENQ 140


>gi|149239546|ref|XP_001525649.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Lodderomyces
           elongisporus NRRL YB-4239]
 gi|146451142|gb|EDK45398.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Lodderomyces
           elongisporus NRRL YB-4239]
          Length = 179

 Score = 63.9 bits (154), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 39/98 (39%), Positives = 55/98 (56%), Gaps = 2/98 (2%)

Query: 99  ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-FKVEMFQ 157
           + V FC    V +  +R+    I  ++   G I I QN IT  A K +   Q   +E FQ
Sbjct: 42  LWVEFCDEPSVGIKTMRNFCIHISEKNFQVG-IFIYQNSITPSANKLIPTVQPASIETFQ 100

Query: 158 ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            TDL+VNIT H L PKH  L  +EK++LL++Y ++E Q
Sbjct: 101 ETDLIVNITHHELVPKHIKLNREEKKELLERYRLKESQ 138


>gi|449681257|ref|XP_002162780.2| PREDICTED: uncharacterized protein LOC100208454, partial [Hydra
           magnipapillata]
          Length = 383

 Score = 63.5 bits (153), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 39/151 (25%), Positives = 80/151 (52%), Gaps = 8/151 (5%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQSDPSKRILVVFCGP 106
           M  DR Y V   E++ +++ F   +G  P         + + ++H  DP+ ++ V F   
Sbjct: 1   MCHDRRYLVTQDELDQTLEQFIEQFGDRPSEGHPSRGDISVLVAHNDDPTDQMFVFFPEE 60

Query: 107 GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVN 164
             V +  I+   +++   + +   I+++Q  +T  A +A+     ++ +E F   +LL+N
Sbjct: 61  EKVGIKTIKQYCTRM-QEEGINRAIIVVQTGMTPSAKQALVDMAPKYILEQFLEAELLIN 119

Query: 165 ITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +T+H L P+H VL+ +EK +LL +Y +++ Q
Sbjct: 120 VTEHNLVPEHVVLSPEEKAELLTRYKLKDHQ 150


>gi|432101146|gb|ELK29430.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Myotis
           davidii]
          Length = 203

 Score = 63.2 bits (152), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 35/142 (24%), Positives = 78/142 (54%), Gaps = 8/142 (5%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKH 168
              ++ +E F   +LL+NIT+H
Sbjct: 121 MAPKYILEQFLQQELLINITEH 142


>gi|68489026|ref|XP_711626.1| hypothetical protein CaO19.13696 [Candida albicans SC5314]
 gi|68489167|ref|XP_711558.1| hypothetical protein CaO19.6340 [Candida albicans SC5314]
 gi|46432871|gb|EAK92334.1| hypothetical protein CaO19.6340 [Candida albicans SC5314]
 gi|46432944|gb|EAK92404.1| hypothetical protein CaO19.13696 [Candida albicans SC5314]
          Length = 179

 Score = 62.4 bits (150), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 54/98 (55%), Gaps = 2/98 (2%)

Query: 99  ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-FKVEMFQ 157
           + V FC    V +  +R+    I  ++  TG I I QN +T  A K +       +E+FQ
Sbjct: 42  LWVEFCDEASVGIKTMRNFCIHITEKNFSTG-IFIYQNSMTPSANKLIPTVSPATIEIFQ 100

Query: 158 ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             DL+VNIT H L PKH  L  +EK++LL +Y ++E Q
Sbjct: 101 ENDLIVNITHHELVPKHLKLNREEKKELLTRYRLKESQ 138


>gi|146418140|ref|XP_001485036.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Meyerozyma
           guilliermondii ATCC 6260]
 gi|146390509|gb|EDK38667.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Meyerozyma
           guilliermondii ATCC 6260]
          Length = 179

 Score = 62.4 bits (150), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/98 (39%), Positives = 55/98 (56%), Gaps = 2/98 (2%)

Query: 99  ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLFQFKVEMFQ 157
           + V FC    V +  +R+    I  ++  TG I I QN IT  A K V  +    +E FQ
Sbjct: 42  LWVEFCDEASVGIKTMRNFCIHISEKNFSTG-IFIYQNSITPSANKLVPTVAPASIETFQ 100

Query: 158 ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +DL+VNIT H L PKH  L+  EK++LL +Y ++E Q
Sbjct: 101 ESDLIVNITHHDLVPKHIKLSIGEKKELLARYRLKESQ 138


>gi|294880824|ref|XP_002769160.1| DNA-directed RNA polymerases II 24 kDa polypeptide, putative
           [Perkinsus marinus ATCC 50983]
 gi|239872330|gb|EER01878.1| DNA-directed RNA polymerases II 24 kDa polypeptide, putative
           [Perkinsus marinus ATCC 50983]
          Length = 168

 Score = 62.0 bits (149), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 41/114 (35%), Positives = 68/114 (59%), Gaps = 4/114 (3%)

Query: 85  LRISISHQSDPSKRILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQAT 143
           L I +S Q DPS +++V F      V V  IR++  ++     L+  IL++Q  +T+ A 
Sbjct: 26  LIILVSKQDDPSDQLIVFFPDENKRVGVKPIRTLALKM-EEQRLSRAILVVQQPLTAFAK 84

Query: 144 KAV--GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            A+     Q ++E+F  ++L+VNIT H L P+H+ LT +EK  LL++Y ++E Q
Sbjct: 85  TAIQEASPQMEIEVFNESELVVNITHHELVPEHKPLTAEEKRLLLERYKVKENQ 138


>gi|357456709|ref|XP_003598635.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
 gi|355487683|gb|AES68886.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Medicago truncatula]
          Length = 124

 Score = 61.6 bits (148), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 55/83 (66%), Gaps = 2/83 (2%)

Query: 20  NGEPTES-CLSGFVDNGSR-DSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG 77
           NG  T S CL    +  S  +++RY+  R+T+++ML DRGY V+ S++ LS+ +FR+ +G
Sbjct: 6   NGNETRSECLVRICNEESNIETIRYFECRKTLMDMLHDRGYNVSESDLTLSLSEFRSRFG 65

Query: 78  QDPDVDRLRISISHQSDPSKRIL 100
           + P    L +S+S +S+PS ++L
Sbjct: 66  EFPKPHTLGVSVSLRSNPSIKVL 88


>gi|156396586|ref|XP_001637474.1| predicted protein [Nematostella vectensis]
 gi|156224586|gb|EDO45411.1| predicted protein [Nematostella vectensis]
          Length = 207

 Score = 61.6 bits (148), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/164 (24%), Positives = 89/164 (54%), Gaps = 11/164 (6%)

Query: 39  SLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQS 93
           + +++  R+TV+++       +   E++ +++ F+  +G  P   R     L I ++H  
Sbjct: 7   TYKFWRIRKTVMQVCNG---LILRDELDKTLEQFKEQFGDRPSEGRPSRSDLSILVAHND 63

Query: 94  DPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF--QF 151
           DP+ ++ V F     V +  I+    Q +  + ++  ++++Q  +T  A +A+     ++
Sbjct: 64  DPTDQMFVFFPEEPKVGIKTIKQY-CQRMQEENISRAVIVVQLGMTPSAKQALVDMAPKY 122

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +E F   +L++NIT+H L P+H ++T  EK++LL +Y ++E Q
Sbjct: 123 ILEQFVEAELMINITEHELVPEHVLMTPDEKQELLLRYKLKEHQ 166


>gi|66802850|ref|XP_635268.1| RNA polymerase II core subunit [Dictyostelium discoideum AX4]
 gi|60463617|gb|EAL61802.1| RNA polymerase II core subunit [Dictyostelium discoideum AX4]
          Length = 181

 Score = 61.6 bits (148), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 72/148 (48%), Gaps = 12/148 (8%)

Query: 52  MLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCGPGIVKV 111
           ML DR Y +   E     + F +        + L +    + DP+  I V F     V V
Sbjct: 1   MLSDREYIITAYEQEYPRESFVS-------RENLTMYCVKKDDPTDSIYVFFPDTPKVGV 53

Query: 112 NVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF----QFKVEMFQITDLLVNITK 167
             I+  +  + +R     +I++ QN IT  A +A+  F    +  +E F   +LLVNIT 
Sbjct: 54  TQIKKYVDIMKDRQANRAIIVVQQN-ITPFAKQALAEFSQEKKITLEQFNEAELLVNITH 112

Query: 168 HVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           H L PKH +LT +EK +LL +Y ++E Q
Sbjct: 113 HQLVPKHILLTKEEKLELLTRYKMKESQ 140


>gi|44890007|emb|CAF32125.1| DNA-directed RNA polymerase, putative [Aspergillus fumigatus]
          Length = 220

 Score = 60.5 bits (145), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 49/175 (28%), Positives = 81/175 (46%), Gaps = 20/175 (11%)

Query: 35  GSRDSLRYYLSRRTVLEMLKDRGYAVALS---------EINLSVQDFRAIYGQDPDVDRL 85
             R+  R + + RTV EML DR  +  L+         ++ +S +   A+  +       
Sbjct: 11  ADREMTRLWRTWRTVFEMLADRPRSTRLTHFLQPYSRTKMKISARPTAAMQAKYTP---- 66

Query: 86  RISISHQSDPSK---RILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQ 141
            +      DP      I V FC     V    +R+  +  V+ +     + I Q  I+  
Sbjct: 67  -LPTPANPDPQPDCGTIYVEFCADSTGVGTKQVRAF-NHFVDENNFHTGVFITQTPISPS 124

Query: 142 ATKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           A + +     ++ E FQ  DLLVNIT+H L PKH +L+ +EK+ LL++Y ++E Q
Sbjct: 125 AVRLLSGIPGRICEHFQEQDLLVNITRHELVPKHVLLSPEEKKNLLQRYRLKESQ 179


>gi|209738396|gb|ACI70067.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1 [Salmo
           salar]
          Length = 159

 Score = 60.1 bits (144), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 34/142 (23%), Positives = 76/142 (53%), Gaps = 8/142 (5%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +F++ +G  P   R     L + 
Sbjct: 2   DDDEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFKSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T   +++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRACIVVQMGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKH 168
              ++ +E F   +LL+NIT+H
Sbjct: 121 MAPKYILEQFLQQELLINITEH 142


>gi|351714028|gb|EHB16947.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1
           [Heterocephalus glaber]
          Length = 292

 Score = 60.1 bits (144), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 33/142 (23%), Positives = 77/142 (54%), Gaps = 8/142 (5%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRIS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F++ +G  P         L + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKSQFGDKPSEGHPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL 148
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A +++  
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVD 120

Query: 149 F--QFKVEMFQITDLLVNITKH 168
              ++ +E F   +LL+NIT+H
Sbjct: 121 MAPKYILEQFLQQELLINITEH 142



 Score = 43.9 bits (102), Expect = 0.048,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 48/81 (59%), Gaps = 2/81 (2%)

Query: 117 IISQIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKH 174
           +  Q +  + +T  ++++Q  +T  A +++     ++ +E F   +LL+NIT+H L P+H
Sbjct: 171 VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEH 230

Query: 175 QVLTDQEKEKLLKKYSIEEKQ 195
            V+T +E  +LL +Y + E Q
Sbjct: 231 VVMTKEEVTELLARYKLRENQ 251


>gi|389749829|gb|EIM91000.1| DNA-directed RNA polymerase RPB5 subunit [Stereum hirsutum FP-91666
           SS1]
          Length = 175

 Score = 60.1 bits (144), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 49/150 (32%), Positives = 71/150 (47%), Gaps = 33/150 (22%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP-DVDRLRISISHQSDPSKRILVVFCG 105
           RT+ E++KDRGY VA  EI++ +  F + Y      VDR +++             +   
Sbjct: 17  RTIQELVKDRGYQVADDEIHMDLSTFESHYANSAGSVDRNQLNF---------FTNLRVN 67

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNI 165
           P I K              D  +G+I I    +T  A K        VE F   DLLV I
Sbjct: 68  PQIFK--------------DIRSGVI-IFPGIMTPSARK--------VEEFAEADLLVYI 104

Query: 166 TKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           T H L P+H VLT +EK+ +L++Y ++E Q
Sbjct: 105 THHKLVPRHDVLTPEEKKMVLERYHLKETQ 134


>gi|300701817|ref|XP_002995033.1| hypothetical protein NCER_102232 [Nosema ceranae BRL01]
 gi|239603668|gb|EEQ81362.1| hypothetical protein NCER_102232 [Nosema ceranae BRL01]
          Length = 204

 Score = 60.1 bits (144), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 80/152 (52%), Gaps = 7/152 (4%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           +++L R T++EM  +RGY     +  LS  +F A   Q P  D+   SI+     +  ++
Sbjct: 7   KFFLCRNTLVEMCTERGYTT--DQKVLSYDNFIA---QFPSCDKDVNSINFVCKNADNLV 61

Query: 101 VV-FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQIT 159
            + F     +  + I  +I +      +  LIL++  +++S +   V +   K+E+F+  
Sbjct: 62  GIHFIDDEKIGKSSIEKVI-ETYKSINIYHLILVINQKMSSASQNIVNVSDLKIEIFKDE 120

Query: 160 DLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
           +L+ NITKHV  P+H++L D EK  +L+K  I
Sbjct: 121 ELMFNITKHVSVPRHRILNDTEKNSILEKLKI 152


>gi|115492143|ref|XP_001210699.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Aspergillus
           terreus NIH2624]
 gi|114197559|gb|EAU39259.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Aspergillus
           terreus NIH2624]
          Length = 219

 Score = 60.1 bits (144), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 55/174 (31%), Positives = 85/174 (48%), Gaps = 9/174 (5%)

Query: 29  SGFVDNGSRDSLRYYLSRRTVLEMLKDRGYA--VALSEINLSVQDFRAIYGQDPDVDRLR 86
           SG VD   R+  R + + RTV EML+DR     + L+  + +    +A   +   V    
Sbjct: 7   SGSVD-ADREMTRLWRTWRTVFEMLQDRPSPQRILLTLASRAKMKIQARPTEAMQVKYTP 65

Query: 87  ISISHQSDPSK---RILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQA 142
           ++   QS        I V FC     V    +R+    +   +  TG I I Q  I+  A
Sbjct: 66  LTKQGQSPAPADCGTIYVEFCPDSSGVGTKQVRAFNHTVDEHNFHTG-IFITQTPISPSA 124

Query: 143 TKAVGLFQFKV-EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            + +     ++ E FQ  DLLVNIT+H L PKH +L+ +EK++LL +Y ++E Q
Sbjct: 125 VRLLSGVPGRICEHFQEQDLLVNITRHELVPKHVLLSPEEKKRLLDRYRLKESQ 178


>gi|11994623|dbj|BAB02760.1| RNA polymerase-like protein [Arabidopsis thaliana]
          Length = 178

 Score = 59.3 bits (142), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 78/152 (51%), Gaps = 35/152 (23%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +L +RT+++MLKDRGY +  SEI +++++F   YG +     L +S   +        
Sbjct: 10  RLFLVQRTLMQMLKDRGYLIDGSEITMTLEEFIEKYGDNMKRSLLLLSKLRKM------- 62

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQN--QITSQATKAVGLFQ--FKVEMF 156
                     + +IR+I              L++Q+    + QA   +G     F +E+F
Sbjct: 63  ----------MTMIRAI--------------LVVQDIKAFSRQALVFLGAVYPIFHIEVF 98

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           Q  +L+VN+ +HV  P+HQ LT +EK+K L++
Sbjct: 99  QEKELIVNVKEHVFVPEHQALTTEEKQKFLER 130


>gi|340057896|emb|CCC52248.1| putative DNA-directed RNA polymerases II subunit [Trypanosoma vivax
           Y486]
          Length = 308

 Score = 59.3 bits (142), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 48/163 (29%), Positives = 85/163 (52%), Gaps = 13/163 (7%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIY-GQDPDV---DRLRISISHQSDPS 96
           R +   RTV EM++DR Y +A + I  SV+ FR  Y  Q  +    +R+ +       P 
Sbjct: 106 RMFRVMRTVGEMMRDRKYNIACNVIPESVEQFREWYTDQHSNAILRERMTVPCERVCGPQ 165

Query: 97  KRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV------GLFQ 150
           +   +VF   G+    V + I++   N D    LI++   ++ +   + V      G+  
Sbjct: 166 RSRAMVFFSQGLGMEAVKQYIMT--ANSDNCDRLIIVTSGKVNATVKRHVDDVNRTGV-A 222

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
            K+++F   DL+VNIT H L PKH  L ++E++++L+ +S+E+
Sbjct: 223 LKIQLFDEDDLVVNITHHELVPKHTQLEEEEEKEMLQSHSLEK 265


>gi|449299839|gb|EMC95852.1| hypothetical protein BAUCODRAFT_34618, partial [Baudoinia
           compniacensis UAMH 10762]
          Length = 171

 Score = 57.0 bits (136), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 44/168 (26%), Positives = 76/168 (45%), Gaps = 23/168 (13%)

Query: 33  DNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQD------------- 79
           D  SR+  R +   RT  +M  DRGY +   E N+S  DF+  Y  +             
Sbjct: 4   DAASREQSRLWRILRTAKQMCYDRGYELTEDECNISFDDFKTQYCDESGAPQRTRMNFTA 63

Query: 80  ---PDVDRLRISISHQSDPSKR-----ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLI 131
              P++++    +   S+P        I V F     + +  +++    +  ++  TG I
Sbjct: 64  RPTPEMNKKYSPLPKPSNPDPAPDIGTIFVQFNSDPNIGIKHLKTFAQLLSEKNLHTG-I 122

Query: 132 LILQNQITSQATKAVG-LFQFKVEMFQITDLLVNITKHVLKPKHQVLT 178
            + Q   T+ A K +  +    +E+F+  DLLVNI++H L PKH +L+
Sbjct: 123 YVSQAAPTASALKIIPTIAPLVMEIFREEDLLVNISRHELVPKHTLLS 170


>gi|428177456|gb|EKX46336.1| hypothetical protein GUITHDRAFT_163048 [Guillardia theta CCMP2712]
          Length = 231

 Score = 57.0 bits (136), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 50/182 (27%), Positives = 91/182 (50%), Gaps = 31/182 (17%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQ-----DPDVDRLRISISHQSDP 95
           R +  R+T   ML+DRG+ V     + ++  F+          DP +  +R   SH+ + 
Sbjct: 13  RIFQIRKTCWSMLEDRGFKVTNENKSETIVQFKETCTDRGHILDPGLLTMR---SHRVEN 69

Query: 96  SK-RILVVFCGPGIVKVN-----VIRSIISQIVN--RDTLTGLILILQNQITSQATKAVG 147
            K RI+V+FCG     V      V   I  +  N   ++LT +++I +N +TS A + + 
Sbjct: 70  EKQRIMVLFCGRKDKFVTDDAKYVFSCIDDEWKNTQAESLTAVVIIHKN-LTSYAKRFLV 128

Query: 148 L--------------FQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEE 193
                           + ++ +F   +L+VNIT+H + PKH++++  EK+KLL++Y + +
Sbjct: 129 TEHQKRYHGGGEGPRMKIELNIFFEVELVVNITEHEMVPKHRIMSGVEKKKLLQRYKVND 188

Query: 194 KQ 195
            Q
Sbjct: 189 DQ 190


>gi|308160666|gb|EFO63141.1| RNA polymerase II subunit Rpb5a [Giardia lamblia P15]
          Length = 229

 Score = 56.6 bits (135), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 57/180 (31%), Positives = 89/180 (49%), Gaps = 35/180 (19%)

Query: 46  RRTVLEMLKDRGYAV---------ALSEINLSVQDFRAIYGQDPDVDRL----RISISHQ 92
           RRTV+EML DRGY V         A   +N + QDF   +   P   ++    ++  S  
Sbjct: 14  RRTVVEMLIDRGYMVQSDDMSPWSAEMLLNQTFQDFDGEFHTAPFSWKILGTHKLRKSSA 73

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDT--LTGLILIL---------------Q 135
           +  ++  + V   P I K ++I  +  +  NR+T  L  +I ++               Q
Sbjct: 74  NSLNQETIKVRPVPVIDK-DLIDKLKVETQNRETRPLDRIIYVIYGREGKKLDPPNKTIQ 132

Query: 136 NQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +I  +A +A G+    +E F +T LL+NITKHVL PKH +L++ EK  +LK+Y   E Q
Sbjct: 133 ARI-DEAQRANGIV---IEHFLVTRLLINITKHVLVPKHVLLSEMEKSVVLKEYRCTEGQ 188


>gi|159108363|ref|XP_001704453.1| RNA polymerase II subunit Rpb5a [Giardia lamblia ATCC 50803]
 gi|21842211|gb|AAM77735.1|AF510643_1 RNA polymerase II subunit Rpb5a [Giardia intestinalis]
 gi|157432516|gb|EDO76779.1| RNA polymerase II subunit Rpb5a [Giardia lamblia ATCC 50803]
          Length = 229

 Score = 56.6 bits (135), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 57/180 (31%), Positives = 89/180 (49%), Gaps = 35/180 (19%)

Query: 46  RRTVLEMLKDRGYAV---------ALSEINLSVQDFRAIYGQDPDVDRL----RISISHQ 92
           RRTV+EML DRGY V         A   +N + QDF   +   P   ++    ++  S  
Sbjct: 14  RRTVIEMLIDRGYMVQSDDMSPWSAEMLLNQTFQDFDGEFHTAPFSWKILGTHKLRKSSA 73

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDT--LTGLILIL---------------Q 135
           +  ++  + V   P I K ++I  +  +  NR+T  L  +I ++               Q
Sbjct: 74  NSLNQETIKVRPVPVIDK-DLIDKLKVETQNRETRPLDRVIYVIYGREGKKLDSPNKTIQ 132

Query: 136 NQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            +I  +A +A G+    +E F +T LL+NITKHVL PKH +L++ EK  +LK+Y   E Q
Sbjct: 133 ARI-DEAQRANGIV---IEHFLVTRLLINITKHVLVPKHVLLSEMEKSVVLKEYRCTEGQ 188


>gi|194693176|gb|ACF80672.1| unknown [Zea mays]
          Length = 127

 Score = 56.2 bits (134), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 54/78 (69%), Gaps = 2/78 (2%)

Query: 120 QIVNRDTLTGLILILQNQITSQATKAVGLFQFKV--EMFQITDLLVNITKHVLKPKHQVL 177
           +++  + ++  +L+LQ  +T  A   +   + K+  E+FQ  ++L+NI +HVL P+HQVL
Sbjct: 9   EMMTHENVSRAVLVLQQNLTPFAKSFLIELEPKIHLEIFQEAEMLINIKEHVLVPEHQVL 68

Query: 178 TDQEKEKLLKKYSIEEKQ 195
           T++EK+ LL++Y+++E Q
Sbjct: 69  TNEEKKTLLERYTLKETQ 86


>gi|116196520|ref|XP_001224072.1| hypothetical protein CHGG_04858 [Chaetomium globosum CBS 148.51]
 gi|88180771|gb|EAQ88239.1| hypothetical protein CHGG_04858 [Chaetomium globosum CBS 148.51]
          Length = 220

 Score = 56.2 bits (134), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 47/162 (29%), Positives = 76/162 (46%), Gaps = 25/162 (15%)

Query: 58  YAVALSEINLSVQDFRAIYGQD---PDVDRLRISISHQSDPSKR---------------- 98
           Y +A  E+ +S+  FR  Y  D   P+  +++ S        K+                
Sbjct: 19  YELAEDEVKISLDRFRLEYTNDDGSPNRSKMQFSARPSESMIKKFTPPPTPSNPDPAPEC 78

Query: 99  --ILVVFC-GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFK-V 153
             I V FC     + +NV++  +      +   G IL+    +++QA K + +  Q+  +
Sbjct: 79  GTIWVEFCPEKASIGINVMKKFVEHCGTNNFKAG-ILVTAVALSAQARKVMTVTSQYTLI 137

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E F   DLLVNIT H L PKH +L+ +EK  LLK+Y ++E Q
Sbjct: 138 ECFLEEDLLVNITHHELVPKHVLLSREEKTALLKRYRLKETQ 179


>gi|407846764|gb|EKG02755.1| DNA-directed RNA polymerases II, putative [Trypanosoma cruzi]
          Length = 219

 Score = 56.2 bits (134), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 83/161 (51%), Gaps = 23/161 (14%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD---VDRLRISISHQSDPSKRILV-- 101
           RTV EM+ DR Y VA   I  SV++F+  Y  DP    + R R+++     P +RI V  
Sbjct: 23  RTVGEMMCDRKYQVADKIIPSSVEEFKDWY-TDPREGVIHRDRMTV-----PCERIGVSQ 76

Query: 102 -----VFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-----GLFQF 151
                VF   G+  +  ++   +Q  +      +I+++Q +I +   + V          
Sbjct: 77  RSRAMVFFSEGL-SMETMKRYHTQ-ASEANCDRVIIVVQGRINAIVKRHVEDINRSSLGL 134

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
           K+++F   DL+VNIT H L PKH  L D+E +++L+ +S+E
Sbjct: 135 KIQLFDEDDLVVNITHHELVPKHTQLEDEEVKEMLQAHSLE 175


>gi|224087898|ref|XP_002198655.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1 [Taeniopygia guttata]
          Length = 119

 Score = 55.8 bits (133), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/117 (23%), Positives = 63/117 (53%), Gaps = 6/117 (5%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKA 145
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  ++++Q  +T  A ++
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRALIVVQQGMTPSAKQS 117


>gi|429861288|gb|ELA35981.1| DNA-directed RNA polymerases ii 24 kda polypeptide [Colletotrichum
           gloeosporioides Nara gc5]
          Length = 204

 Score = 55.5 bits (132), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 82/165 (49%), Gaps = 28/165 (16%)

Query: 56  RGYAVALSEINLSVQDFRAIYGQ-DPDVDRLRISISHQSDPSKRILVVF----------- 103
           +GY +A  E+ +S+  F+  Y   D  V+R ++  S  ++PS  ++  F           
Sbjct: 2   QGYELAEEELTISLDRFKMEYTSGDGSVNRGKLQFS--ANPSADMIRKFTPPPTSQNPNP 59

Query: 104 ---CGPGIVK--------VNVIRSIISQIVNRDTLTGLILILQNQITSQATKA-VGLFQF 151
              CG   V+        +  I+  I  +++    +G I++    ++  A K  V +  F
Sbjct: 60  TPECGTLWVEFLADTTFGIKEIKKFIHHLISNKYSSG-IMVTHVPLSPAARKMLVTIESF 118

Query: 152 -KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            KVE F   DLLVNITKH L P+H +L+ +EK  LLK+Y ++E Q
Sbjct: 119 AKVECFLEEDLLVNITKHELVPRHILLSREEKIALLKRYRLKETQ 163


>gi|429961418|gb|ELA40963.1| hypothetical protein VICG_01993 [Vittaforma corneae ATCC 50505]
          Length = 206

 Score = 55.5 bits (132), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/150 (24%), Positives = 75/150 (50%), Gaps = 6/150 (4%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVV 102
           +L+R T++EML +RGY    S  N+ + D+ +   Q P+ +    +++      +   V 
Sbjct: 14  WLARNTIIEMLNERGY----SSSNMPL-DYASFVSQFPNAENNPSTLNFVCSKDQPFAVH 68

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLL 162
           F     +    + ++ ++   +  +  +ILI   ++       +   +  +E F + +L 
Sbjct: 69  FTSEDKLSKKSLETLTNEYAAQG-IANVILITSAKLNPACKVLMKSIKLNLEHFLVEELQ 127

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
            NITKH L PKH+++++ E+++LL K   E
Sbjct: 128 FNITKHHLVPKHRIMSESEQKELLNKLKCE 157


>gi|449273017|gb|EMC82646.1| DNA-directed RNA polymerases I, II, and III subunit RPABC1, partial
           [Columba livia]
          Length = 168

 Score = 55.5 bits (132), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/126 (27%), Positives = 62/126 (49%), Gaps = 6/126 (4%)

Query: 76  YGQDPDVDRLR-----ISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGL 130
           +G  P   R R     + ++H  DP+ ++ V F     V +  I+    ++   +    L
Sbjct: 2   FGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIKMYCQRMQEENITRAL 61

Query: 131 ILILQNQITSQATKAVGLF-QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKY 189
           I++ Q    S     V +  ++ +E F   +LL+NIT+H L P+H V+T +E  +LL +Y
Sbjct: 62  IVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARY 121

Query: 190 SIEEKQ 195
            + E Q
Sbjct: 122 KLRENQ 127


>gi|253741620|gb|EES98486.1| RNA polymerase II subunit Rpb5a [Giardia intestinalis ATCC 50581]
          Length = 229

 Score = 55.1 bits (131), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 52/176 (29%), Positives = 88/176 (50%), Gaps = 27/176 (15%)

Query: 46  RRTVLEMLKDRGYAVALSEIN---------LSVQDFRAIYGQDPDVDRL----RISISHQ 92
           RRTV+EML DRGY V   +I+          + QDF A +   P   ++    ++  S+ 
Sbjct: 14  RRTVVEMLIDRGYMVQSDDISPWSAEMLLGQTFQDFEAEFHTAPFSWKILGTHKLRKSNA 73

Query: 93  SDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDT--LTGLILILQNQ-----------IT 139
           +  ++  + V   P I K  +I  +  +  N++T  L  +I ++  +           I 
Sbjct: 74  NSLNQETIKVRPVPVIDK-ELIDKLRVETQNKETRPLDRIIYVIYGREGKKLDSPNKTIQ 132

Query: 140 SQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++  +A  +    +E F +T LL+NIT+HVL PKH +L++ EK  +LK+Y   E Q
Sbjct: 133 ARIDEAQRVNGIIIEHFLVTRLLINITRHVLVPKHVLLSEMEKSVVLKEYRCTEGQ 188


>gi|238488995|ref|XP_002375735.1| RNA polymerase subunit [Aspergillus flavus NRRL3357]
 gi|220698123|gb|EED54463.1| RNA polymerase subunit [Aspergillus flavus NRRL3357]
          Length = 171

 Score = 55.1 bits (131), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 37/102 (36%), Positives = 54/102 (52%), Gaps = 9/102 (8%)

Query: 99  ILVVFC----GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLFQFKV 153
           I V FC    G G  +V       + +V+ +     + I Q  I+  A + + G+     
Sbjct: 33  IYVEFCPDSTGVGTKQVRAF----NHVVDENNFHTGVFITQTPISPSAVRLLSGVPGRIC 88

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E FQ  DLLVNIT+H L PKH +L+ +EK KLL +Y ++E Q
Sbjct: 89  EHFQEQDLLVNITRHELVPKHVLLSPEEKAKLLARYRLKESQ 130


>gi|429965029|gb|ELA47026.1| hypothetical protein VCUG_01471 [Vavraia culicis 'floridensis']
          Length = 223

 Score = 54.7 bits (130), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 80/165 (48%), Gaps = 21/165 (12%)

Query: 27  CLSGFVDNGSR--------DSLR-YYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG 77
           CLS  +  G +         SLR  YL R+T+LEML DRGY +        ++D+     
Sbjct: 9   CLSCAITMGVKPLKFLTPMTSLRNQYLVRKTMLEMLSDRGYPIK----EYQMKDYDEFVN 64

Query: 78  QDP----DVDRLRISISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILI 133
           + P    D   LRI +  Q D  + + V F     + +  ++ ++  I  +  +  LI++
Sbjct: 65  KYPSCVKDTSNLRIIV--QKD-KEMLFVFFSDEEKMSLKNVKILVENI-EKQNIKNLIVV 120

Query: 134 LQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLT 178
           L+  I+  A+K        + +F+  +LL N+TKH L  KH+++T
Sbjct: 121 LREGISPAASKFALECPVNITIFKEKELLFNVTKHSLVFKHRIIT 165


>gi|71660313|ref|XP_821874.1| DNA-directed RNA polymerases II [Trypanosoma cruzi strain CL
           Brener]
 gi|71664576|ref|XP_819267.1| DNA-directed RNA polymerases II [Trypanosoma cruzi strain CL
           Brener]
 gi|19718719|gb|AAL96367.1|AC116314_4 Tcc44h21-2.4 [Trypanosoma cruzi]
 gi|70884561|gb|EAN97416.1| DNA-directed RNA polymerases II, putative [Trypanosoma cruzi]
 gi|70887263|gb|EAO00023.1| DNA-directed RNA polymerases II, putative [Trypanosoma cruzi]
          Length = 219

 Score = 54.7 bits (130), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 49/161 (30%), Positives = 82/161 (50%), Gaps = 23/161 (14%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD-----VDRL-----RISISHQSDPS 96
           RTV EM+ DR Y VA   I  SV++F+  Y  DP       DR+     RI +S +S   
Sbjct: 23  RTVGEMMCDRKYQVADKIIPSSVEEFKDWY-TDPREGVIYRDRMTVPCERIGVSQRSRA- 80

Query: 97  KRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-----GLFQF 151
               +VF   G+  +  ++   +Q  +      +I+++Q +I +   + V          
Sbjct: 81  ----MVFFSEGL-SMETMKRYHTQ-ASEANCDRVIIVVQGRINAIVKRHVEDINRSSLGL 134

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
           K+++F   DL+VNIT H L PKH  L D+E +++L+ +++E
Sbjct: 135 KIQLFDEDDLVVNITHHELVPKHTQLEDEEVKEMLQAHALE 175


>gi|313765818|gb|ADR80315.1| RNA polymerase B5-subunit [Rutilus rutilus]
          Length = 129

 Score = 54.3 bits (129), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 28/118 (23%), Positives = 63/118 (53%), Gaps = 6/118 (5%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++ +FR+ +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLDEFRSQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV 146
           ++H  DP+ ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A +++
Sbjct: 62  VAHNDDPTDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSAKQSL 118


>gi|70996052|ref|XP_752781.1| RNA polymerase subunit [Aspergillus fumigatus Af293]
 gi|66850416|gb|EAL90743.1| RNA polymerase subunit [Aspergillus fumigatus Af293]
 gi|159131535|gb|EDP56648.1| RNA polymerase subunit [Aspergillus fumigatus A1163]
          Length = 171

 Score = 54.3 bits (129), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 35/99 (35%), Positives = 54/99 (54%), Gaps = 3/99 (3%)

Query: 99  ILVVFCGPGI-VKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLFQFKVEMF 156
           I V FC     V    +R+  +  V+ +     + I Q  I+  A + + G+     E F
Sbjct: 33  IYVEFCADSTGVGTKQVRAF-NHFVDENNFHTGVFITQTPISPSAVRLLSGIPGRICEHF 91

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           Q  DLLVNIT+H L PKH +L+ +EK+ LL++Y ++E Q
Sbjct: 92  QEQDLLVNITRHELVPKHVLLSPEEKKNLLQRYRLKESQ 130


>gi|407407449|gb|EKF31248.1| DNA-directed RNA polymerases II, putative [Trypanosoma cruzi
           marinkellei]
          Length = 219

 Score = 54.3 bits (129), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 49/161 (30%), Positives = 81/161 (50%), Gaps = 23/161 (14%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-----DRL-----RISISHQSDPS 96
           RTV EM+ DR Y VA   I  SV++F+  Y  DP       DR+     RI +S +S   
Sbjct: 23  RTVGEMMCDRKYQVADKIIPSSVEEFKDWY-TDPREGVIYRDRMTVPCERIGVSQRSRA- 80

Query: 97  KRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-----GLFQF 151
               +VF   G+  +  ++   +Q  +      +I++ Q +I +   + V          
Sbjct: 81  ----MVFFSEGL-SMETMKRYHTQ-ASEANCDRVIIVAQGKINAIVKRHVEDINRSSLGL 134

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
           K+++F   DL+VNIT H L PKH  L D+E +++L+ +++E
Sbjct: 135 KIQLFDEDDLVVNITHHELVPKHTQLEDEEVKEMLQAHALE 175


>gi|195164197|ref|XP_002022935.1| GL16452 [Drosophila persimilis]
 gi|194104997|gb|EDW27040.1| GL16452 [Drosophila persimilis]
          Length = 126

 Score = 53.9 bits (128), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 6/104 (5%)

Query: 46  RRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDR-----LRISISHQSDPSKRIL 100
           R+TV EM  DRGY V   E++ +V+ F  ++G  P   R     L + ++H  DP  R+L
Sbjct: 18  RKTVFEMSHDRGYLVTQGELDQTVEQFTELFGDKPSEQRPMRSDLTMVLTHADDPKNRML 77

Query: 101 VVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK 144
           V F     V V  I++  +++  R T  G  + L   ++S+  K
Sbjct: 78  VFFPEEPKVAVRTIKAFANRMRPR-TFIGPSVCLGVVVSSKELK 120


>gi|414586667|tpg|DAA37238.1| TPA: hypothetical protein ZEAMMB73_455773 [Zea mays]
          Length = 117

 Score = 53.5 bits (127), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 50/75 (66%), Gaps = 3/75 (4%)

Query: 123 NRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQ 180
           N +   G IL++Q  +++ A  AV     ++ +E+FQ  +LLVNI  HVL P+H +LT +
Sbjct: 3   NENVFAG-ILVVQQALSAFARSAVQEVSQKYHLEVFQEAELLVNIKDHVLVPEHVLLTPE 61

Query: 181 EKEKLLKKYSIEEKQ 195
           +K+ LL++Y+++E Q
Sbjct: 62  DKKTLLERYTVKETQ 76


>gi|167517495|ref|XP_001743088.1| hypothetical protein [Monosiga brevicollis MX1]
 gi|163778187|gb|EDQ91802.1| predicted protein [Monosiga brevicollis MX1]
          Length = 176

 Score = 53.1 bits (126), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 71/160 (44%), Gaps = 43/160 (26%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRIS-----ISHQSDP 95
           R +  R T+ ++ +DRGY V   ++ L+ + F   +G  P  ++ R S     +   SDP
Sbjct: 13  RLWRVRVTLAQLCQDRGYDVKSEDLLLTREGFAERFGSQPLNEQPRRSDLDFVVQRASDP 72

Query: 96  SKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEM 155
           + ++ V F     V + V+R                                      + 
Sbjct: 73  TDQLGVYFANDPKVGIAVVR--------------------------------------DF 94

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F+  +L+VN+TKH L PKH + T +EK  LL++Y ++E+Q
Sbjct: 95  FEEKELVVNVTKHELVPKHFLQTPEEKAALLERYKLKEQQ 134


>gi|401827017|ref|XP_003887601.1| DNA-directed RNA polymerase subunit Rpb5 [Encephalitozoon hellem
           ATCC 50504]
 gi|392998607|gb|AFM98620.1| DNA-directed RNA polymerase subunit Rpb5 [Encephalitozoon hellem
           ATCC 50504]
          Length = 200

 Score = 53.1 bits (126), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 43/146 (29%), Positives = 72/146 (49%), Gaps = 8/146 (5%)

Query: 44  LSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS-DPSKRILVV 102
           LSR T +EM+KDRGY     E+   ++ FR  Y   P     R S++    D  + + + 
Sbjct: 10  LSRNTTIEMVKDRGYTTT-QEVQ-PLESFREKY---PFALTKRSSLNFVCVDVDRPVAIH 64

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGL-FQFKVEMFQITDL 161
           F     +       ++SQ   +D +  LILIL    +      + L  +F VE+F + ++
Sbjct: 65  FGDDEKMGKKSFEGLLSQ-YEKDNIFHLILILPQMPSPAVMSMIALNAKFNVEIFLVEEM 123

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLK 187
           + N TKH   P H++L+ +E+E + K
Sbjct: 124 MFNKTKHSWVPPHRILSREERENVFK 149


>gi|215399667|gb|ACJ65826.1| RNA polymerase II [Oreochromis niloticus]
          Length = 108

 Score = 52.0 bits (123), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/107 (25%), Positives = 58/107 (54%), Gaps = 6/107 (5%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDP 95
           R +  R+T++++  DRGY V   E++ ++++F++ +G  P   R R     + ++H  DP
Sbjct: 1   RLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKSQFGDKPSEGRPRRTDLTVLVAHNDDP 60

Query: 96  SKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQA 142
           + ++ V F     V +  I+ +  Q +  + +T  I+++Q  +T  A
Sbjct: 61  TDQMFVFFPEEPKVGIKTIK-MYCQRMQEENITRAIIVVQMGMTPSA 106


>gi|22902245|gb|AAH37681.1| Polymerase (RNA) II (DNA directed) polypeptide E [Mus musculus]
 gi|148699663|gb|EDL31610.1| mCG13422, isoform CRA_c [Mus musculus]
          Length = 96

 Score = 52.0 bits (123), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 48/88 (54%), Gaps = 5/88 (5%)

Query: 34  NGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----IS 88
           +   ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + 
Sbjct: 2   DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVL 61

Query: 89  ISHQSDPSKRILVVFCGPGIVKVNVIRS 116
           ++H  DP+ ++ V F G  +    V+ S
Sbjct: 62  VAHNDDPTDQMFVFFPGEALGLAGVVSS 89


>gi|396081727|gb|AFN83342.1| DNA-directed RNA polymerase I [Encephalitozoon romaleae SJ-2008]
          Length = 210

 Score = 51.6 bits (122), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/146 (28%), Positives = 71/146 (48%), Gaps = 8/146 (5%)

Query: 44  LSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS-DPSKRILVV 102
           LSR T +EM+KDRGY          VQ   + + + P     R +++    D  + + + 
Sbjct: 20  LSRNTTIEMIKDRGYTT-----TQEVQSLESFHERYPFALTKRSTLNFVCVDVDRPVGIH 74

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKVEMFQITDL 161
           F     +       ++SQ   +D +  LILIL    +      + L  +F VE+F + ++
Sbjct: 75  FGDDEKMGKKGFEGLLSQ-YEKDNIFHLILILPQFPSPTVMSMISLNPKFNVEIFLVEEM 133

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLK 187
           + N TKH   P H++L+ +EKE +LK
Sbjct: 134 VFNKTKHSWVPPHRILSREEKENVLK 159


>gi|303389965|ref|XP_003073214.1| DNA-directed RNA polymerase I [Encephalitozoon intestinalis ATCC
           50506]
 gi|303302359|gb|ADM11854.1| DNA-directed RNA polymerase I [Encephalitozoon intestinalis ATCC
           50506]
          Length = 214

 Score = 51.6 bits (122), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 71/145 (48%), Gaps = 8/145 (5%)

Query: 44  LSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS-DPSKRILVV 102
           LSR T +EM+KDRGY          VQ     + + P     R +++    D ++ + + 
Sbjct: 24  LSRNTTIEMIKDRGYTT-----TQEVQTLDEFHEKYPFALTKRSTLNFVCVDTNRPVAIH 78

Query: 103 FCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKVEMFQITDL 161
           F     +   V   +++Q   +D +  LILIL    +      + L  +F +E+F + ++
Sbjct: 79  FGEDEKMGKKVFEGLLTQ-YEKDNIFHLILILPLAPSPTVMSMISLNPKFCIEIFLVEEM 137

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLL 186
           + N TKH   P H++L+ +EKEK+ 
Sbjct: 138 IFNKTKHSWVPPHRILSREEKEKVF 162


>gi|346325153|gb|EGX94750.1| DNA-directed RNA polymerases II 24 kDa polypeptide [Cordyceps
           militaris CM01]
          Length = 334

 Score = 51.6 bits (122), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 69/159 (43%), Gaps = 27/159 (16%)

Query: 61  ALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL--------------VVFCGP 106
           A S   LS Q F       P   R ++  S +  PS  +L              V  CGP
Sbjct: 80  ATSYPALSSQVFCLTLSSPPSPSRAKLQFSAR--PSDAMLRKHTPPATDANPDPVADCGP 137

Query: 107 GIVK--------VNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ--FKVEMF 156
             V+        V  IR      +     TG I++    ++  A K++   +   K+E F
Sbjct: 138 IWVEFLADKQFGVAQIRQFAKYTITNHYKTG-IMVTHVALSPAARKSLASVENLAKIECF 196

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
              DLLVNIT H L P+H +L+ +EK  LLK+Y ++E Q
Sbjct: 197 LEDDLLVNITHHELVPRHVLLSREEKIALLKRYRLKETQ 235


>gi|83315225|ref|XP_730701.1| RNA polymerase Rpb5 [Plasmodium yoelii yoelii 17XNL]
 gi|23490506|gb|EAA22266.1| RNA polymerase Rpb5, C-terminal domain, putative [Plasmodium yoelii
           yoelii]
          Length = 112

 Score = 51.2 bits (121), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 2/78 (2%)

Query: 118 ISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMFQITDLLVNITKHVLKPKHQ 175
           +++ ++  ++   IL+ QN +T  A  A+     +  +E F  T+LLVNITKH L PKH 
Sbjct: 6   LTEKMDEKSIQRAILVTQNTLTPFAKDAIKEAAPRHIIENFLDTELLVNITKHELVPKHI 65

Query: 176 VLTDQEKEKLLKKYSIEE 193
            LT  EK  LL++Y I+E
Sbjct: 66  PLTSDEKRNLLQRYKIKE 83


>gi|71748956|ref|XP_827817.1| DNA-directed RNA polymerases II subunit [Trypanosoma brucei
           TREU927]
 gi|70833201|gb|EAN78705.1| DNA-directed RNA polymerases II subunit, putative [Trypanosoma
           brucei brucei strain 927/4 GUTat10.1]
          Length = 219

 Score = 51.2 bits (121), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 46/166 (27%), Positives = 79/166 (47%), Gaps = 21/166 (12%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDF---------RAIYGQDPDVDRLRISISH 91
           R +   RTV EM++DR Y V  S I  +V  F         R IY +   V   R+  +H
Sbjct: 17  RMFRVMRTVGEMMRDRKYQVPSSIIPETVGQFCEQYVDREGRRIYRERMTVPCERVGGTH 76

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQF 151
           +S    R +V F     + +  ++      ++ +    +I++   ++ +   + V     
Sbjct: 77  RS----RAMVFFASE--LGMEGMKGYCQTAMDANC-ERVIIVTHGKVNATVKRYVDCINR 129

Query: 152 -----KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
                KV++F   DL+VNIT H L PKH  L D+E +++L+ +S+E
Sbjct: 130 SGTGQKVQLFDEDDLVVNITHHELVPKHTQLEDEEVKEMLEAHSLE 175


>gi|70938710|ref|XP_739995.1| DNA-directed RNA polymerase 2 [Plasmodium chabaudi chabaudi]
 gi|56517394|emb|CAH79759.1| DNA-directed RNA polymerase 2, putative [Plasmodium chabaudi
           chabaudi]
          Length = 126

 Score = 51.2 bits (121), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 2/78 (2%)

Query: 118 ISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMFQITDLLVNITKHVLKPKHQ 175
           +++ ++  ++   IL+ QN +T  A  A+     +  +E F  T+LLVNITKH L PKH 
Sbjct: 6   LTEKMDEKSIQRAILVTQNTLTPFAKDAIKEAAPRHIIENFLDTELLVNITKHELVPKHI 65

Query: 176 VLTDQEKEKLLKKYSIEE 193
            LT  EK  LL++Y I+E
Sbjct: 66  PLTSDEKRNLLQRYKIKE 83


>gi|453084450|gb|EMF12494.1| RNA polymerase subunit [Mycosphaerella populorum SO2202]
          Length = 170

 Score = 50.8 bits (120), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 34/98 (34%), Positives = 54/98 (55%), Gaps = 2/98 (2%)

Query: 99  ILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV-GLFQFKVEMFQ 157
           I V F     V +  ++    ++  ++  TG I + Q   TS A K +  +    +E+F+
Sbjct: 33  IHVEFANETSVGIKHLKQFAQELSEKNYYTG-IYVSQVAPTSAALKIIPSVLPTVMEIFR 91

Query: 158 ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             DLLVNI+KH L PKH  L+ +EK  LL++Y ++E Q
Sbjct: 92  EEDLLVNISKHELVPKHIPLSQEEKRGLLERYRLKETQ 129


>gi|212533615|ref|XP_002146964.1| RNA polymerase subunit [Talaromyces marneffei ATCC 18224]
 gi|210072328|gb|EEA26417.1| RNA polymerase subunit [Talaromyces marneffei ATCC 18224]
          Length = 172

 Score = 50.8 bits (120), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 55/106 (51%), Gaps = 15/106 (14%)

Query: 98  RILVVFC----GPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATK----AVGLF 149
           +I V FC    G G  +V       + +V+       I I +  I+  A +    A+G  
Sbjct: 33  QIFVQFCEDTTGVGAKQVRQF----NHLVDEGNYHSGIFITRTAISPSAVRLLNSAIGHI 88

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
               E FQ +DLLVNIT H L PKH +L+ +EK +LL++Y ++E Q
Sbjct: 89  ---CEHFQESDLLVNITHHELVPKHVLLSAEEKARLLERYRLKESQ 131


>gi|149034615|gb|EDL89352.1| rCG29511, isoform CRA_f [Rattus norvegicus]
          Length = 175

 Score = 50.4 bits (119), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 44/76 (57%), Gaps = 5/76 (6%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISH 91
            ++ R +  R+T++++  DRGY V   E++ ++++F+A +G  P   R R     + ++H
Sbjct: 5   EETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAH 64

Query: 92  QSDPSKRILVVFCGPG 107
             DP+ ++ V F G G
Sbjct: 65  NDDPTDQMFVFFPGEG 80


>gi|242082576|ref|XP_002441713.1| hypothetical protein SORBIDRAFT_08g001130 [Sorghum bicolor]
 gi|241942406|gb|EES15551.1| hypothetical protein SORBIDRAFT_08g001130 [Sorghum bicolor]
          Length = 274

 Score = 50.1 bits (118), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 23/37 (62%), Positives = 29/37 (78%)

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
           +F +   LVNITKHVLKPKH+VLT +EK KL K Y++
Sbjct: 193 LFNVRSRLVNITKHVLKPKHEVLTVEEKVKLQKDYNV 229


>gi|225681878|gb|EEH20162.1| DNA-directed RNA polymerases I [Paracoccidioides brasiliensis Pb03]
          Length = 171

 Score = 49.7 bits (117), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 55/102 (53%), Gaps = 9/102 (8%)

Query: 99  ILVVFCGP-GIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV----GLFQFKV 153
           I V FC     V    +R+    I  ++  TG I I Q  I+  A + +    G F    
Sbjct: 33  IYVEFCADIQSVGTKQVRAFNHFIDEQNYHTG-IFISQTPISPSAMRVLNSIPGRF---C 88

Query: 154 EMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           E FQ  +LLVNIT H L PKH +L+ +EK++LL++Y ++E Q
Sbjct: 89  EHFQEQELLVNITHHELVPKHILLSAEEKKRLLQRYRLKESQ 130


>gi|90954539|emb|CAJ44464.1| RNA polymerase subunit 2RPB5 [Trypanosoma brucei brucei]
 gi|261333514|emb|CBH16509.1| DNA-directed RNA polymerases II subunit,putative [Trypanosoma
           brucei gambiense DAL972]
          Length = 219

 Score = 49.7 bits (117), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 45/166 (27%), Positives = 79/166 (47%), Gaps = 21/166 (12%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDF---------RAIYGQDPDVDRLRISISH 91
           R +   RTV EM++DR Y V  S I  +V  F         + IY +   V   R+  +H
Sbjct: 17  RMFRVMRTVGEMMRDRKYQVPSSIIPETVGQFCEQYVDREGKRIYRERMTVPCERVGGTH 76

Query: 92  QSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQF 151
           +S    R +V F     + +  ++      ++ +    +I++   ++ +   + V     
Sbjct: 77  RS----RAMVFFASE--LGMEGMKGYCQTAMDANC-ERVIIVTHGKVNATVKRYVDCINR 129

Query: 152 -----KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
                KV++F   DL+VNIT H L PKH  L D+E +++L+ +S+E
Sbjct: 130 SGTGQKVQLFDEDDLVVNITHHELVPKHTQLEDEEVKEMLEAHSLE 175


>gi|105923251|gb|ABF81466.1| TIR-NBS type disease resistance protein [Populus trichocarpa]
          Length = 1432

 Score = 48.9 bits (115), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 23/39 (58%), Positives = 33/39 (84%)

Query: 157 QITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           QITDLLV+ITKHVL+PK + L  ++K++L+ KY +E+KQ
Sbjct: 13  QITDLLVSITKHVLQPKLERLPAEQKQQLVDKYKMEDKQ 51


>gi|380495005|emb|CCF32725.1| DNA-directed RNA polymerase II polypeptide [Colletotrichum
           higginsianum]
          Length = 107

 Score = 48.9 bits (115), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 25/44 (56%), Positives = 32/44 (72%)

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           KVE F   DLLVNIT+H L PKH +L+ +EK  LLK+Y ++E Q
Sbjct: 23  KVECFLEEDLLVNITQHELVPKHILLSREEKVALLKRYRLKETQ 66


>gi|19074518|ref|NP_586024.1| DNA-DIRECTED RNA POLYMERASE I [Encephalitozoon cuniculi GB-M1]
 gi|449329590|gb|AGE95861.1| DNA-directed RNA polymerase I [Encephalitozoon cuniculi]
          Length = 212

 Score = 48.5 bits (114), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 74/152 (48%), Gaps = 20/152 (13%)

Query: 44  LSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS-------DPS 96
           LSR T +EM++DRGY         + Q+  A+ G     +R  ++++ +S       +  
Sbjct: 20  LSRNTAIEMVRDRGYT--------TTQEVLALDGFH---ERYPLALTKRSTLNFVCVNVD 68

Query: 97  KRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKVEM 155
           + + V F     +       ++SQ   +D +  LILIL    +      + L  +F +E+
Sbjct: 69  RPVAVHFGDDEKMGKKAFEGLLSQ-YEKDNMFHLILILPQLPSPTVMSMIPLTPRFSIEI 127

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
           F + +L+ N TKH   P H+VL+ +E+E + +
Sbjct: 128 FLVEELIFNKTKHSWVPPHRVLSREERESVFR 159


>gi|68074989|ref|XP_679411.1| DNA-directed RNA polymerase 2 [Plasmodium berghei strain ANKA]
 gi|56500155|emb|CAI00595.1| DNA-directed RNA polymerase 2, putative [Plasmodium berghei]
          Length = 107

 Score = 48.1 bits (113), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 28/102 (27%), Positives = 57/102 (55%), Gaps = 5/102 (4%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R+Y  R+T  EML+DRGY +   E   +   F+ ++ ++  +  R+ I  SH++D + +I
Sbjct: 7   RFYKCRKTCCEMLEDRGYIITAREKLENFAAFKELFEENEKLRSRMTIITSHKNDANNKI 66

Query: 100 LVVFCGPGIVKVNVIRSI--ISQIVNRDTLTGLILILQNQIT 139
           +V F     VK   ++ +  +++ ++  ++   IL+ QN +T
Sbjct: 67  IVYFVDE--VKKTGVKPLRELTEKMDEKSIQRAILVTQNTLT 106


>gi|392512756|emb|CAD25628.2| DNA-DIRECTED RNA POLYMERASE I [Encephalitozoon cuniculi GB-M1]
          Length = 202

 Score = 48.1 bits (113), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 74/152 (48%), Gaps = 20/152 (13%)

Query: 44  LSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQS-------DPS 96
           LSR T +EM++DRGY         + Q+  A+ G     +R  ++++ +S       +  
Sbjct: 10  LSRNTAIEMVRDRGYT--------TTQEVLALDGFH---ERYPLALTKRSTLNFVCVNVD 58

Query: 97  KRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLF-QFKVEM 155
           + + V F     +       ++SQ   +D +  LILIL    +      + L  +F +E+
Sbjct: 59  RPVAVHFGDDEKMGKKAFEGLLSQ-YEKDNMFHLILILPQLPSPTVMSMIPLTPRFSIEI 117

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLK 187
           F + +L+ N TKH   P H+VL+ +E+E + +
Sbjct: 118 FLVEELIFNKTKHSWVPPHRVLSREERESVFR 149


>gi|340377817|ref|XP_003387425.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Amphimedon queenslandica]
          Length = 143

 Score = 48.1 bits (113), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 48/76 (63%), Gaps = 2/76 (2%)

Query: 122 VNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTD 179
           +  + ++  I+++Q  +T  A +A+     ++ +E F   +L++NIT+H L P+H V+T 
Sbjct: 27  MQEENISRAIIVVQQGMTPSAKQALVDMAPKYILEQFMEAELMINITEHELVPEHIVMTT 86

Query: 180 QEKEKLLKKYSIEEKQ 195
           +EK +LL +Y ++E Q
Sbjct: 87  EEKRELLARYKLKEHQ 102


>gi|308158149|gb|EFO60958.1| RNA polymerase II subunit Rpb5b [Giardia lamblia P15]
          Length = 201

 Score = 47.4 bits (111), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 42/151 (27%), Positives = 73/151 (48%), Gaps = 8/151 (5%)

Query: 48  TVLEMLKDRGYAVALSE--INLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
            VLEM +DRGY +   E  I LS ++   +   D +V+ LR         S    VV+  
Sbjct: 15  VVLEMYRDRGYELGPLEKQIGLSAEEIGRLI--DDNVNNLRPLWFVTIKGSVAAAVVY-- 70

Query: 106 PGIVKVNVIRSIISQIVNRDTLTGLILI-LQNQITSQATKAVGLFQFKVEMFQITDLLVN 164
             I+      + I Q V+++ +   + +      TS   +   +   +++++  + LL+N
Sbjct: 71  -SILPWVDASAAIGQYVDQEAVQKCLFVYFGGPATSCRLEHRVINDVEIDIYDFSQLLIN 129

Query: 165 ITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            TKH L PKH +L++ EK K+L +  + E Q
Sbjct: 130 PTKHRLVPKHTILSNTEKAKVLAELRVTEAQ 160


>gi|154417816|ref|XP_001581927.1| RNA polymerase Rpb5, C-terminal domain containing protein
           [Trichomonas vaginalis G3]
 gi|121916159|gb|EAY20941.1| RNA polymerase Rpb5, C-terminal domain containing protein
           [Trichomonas vaginalis G3]
          Length = 217

 Score = 47.4 bits (111), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 42/73 (57%), Gaps = 4/73 (5%)

Query: 127 LTGLILILQN----QITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEK 182
           +T LIL+ Q      I  +  K + L   K+E F + +L  NIT H   PKH+VL+++EK
Sbjct: 104 ITHLILVHQEGSLAHIFDRIKKQLRLIGKKLETFTLQELQYNITMHFFVPKHKVLSNEEK 163

Query: 183 EKLLKKYSIEEKQ 195
            +L  +Y I+E +
Sbjct: 164 NELFNRYKIDETK 176


>gi|342184881|emb|CCC94363.1| putative DNA-directed RNA polymerases II subunit [Trypanosoma
           congolense IL3000]
          Length = 219

 Score = 47.4 bits (111), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 77/167 (46%), Gaps = 23/167 (13%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRIL 100
           R +   RTV EM++DR Y    S I  +V+ F   Y    D D   I  S  + P +R+ 
Sbjct: 17  RMFRVLRTVGEMMRDRKYHFPTSLIPETVEQFCEQY---VDRDTREIFRSRMTLPCERVG 73

Query: 101 VVFCGPGIVKVNV----------IRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ 150
               G  +V  +V           +S +    +R     +I+++ +++ +   + V    
Sbjct: 74  GSQRGRAMVFFSVELGMEAMKTYYQSAMDAGCDR-----VIIVVHSKVNATVKRYVDYIN 128

Query: 151 -----FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
                 KV++F    L+VNIT H L PKH  L D+E  ++L+ +S+E
Sbjct: 129 RSNTGAKVQLFDEDSLVVNITHHELVPKHTPLEDEEVREMLRAHSLE 175


>gi|296232401|ref|XP_002761575.1| PREDICTED: uncharacterized protein LOC100393628 [Callithrix
           jacchus]
          Length = 323

 Score = 47.4 bits (111), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 52/89 (58%), Gaps = 3/89 (3%)

Query: 109 VKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMFQITDLLVNIT 166
           V +  I+ +  Q +  + +T  ++++Q  +T  A +++     ++ +E F   +LL+NIT
Sbjct: 195 VGIKTIK-VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINIT 253

Query: 167 KHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +H L P+H V+T +E  +LL +Y + E Q
Sbjct: 254 EHELVPEHVVMTKEEVTELLARYKLRENQ 282


>gi|340386554|ref|XP_003391773.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like, partial [Amphimedon queenslandica]
          Length = 124

 Score = 47.0 bits (110), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 44/67 (65%), Gaps = 2/67 (2%)

Query: 131 ILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           I+++Q  +T  A +A+     ++ +E F   +L++NIT+H L P+H V+T +EK +LL +
Sbjct: 19  IIVVQQGMTPSAKQALVDMAPKYILEQFMEAELMINITEHELVPEHIVMTTEEKRELLAR 78

Query: 189 YSIEEKQ 195
           Y ++E Q
Sbjct: 79  YKLKEHQ 85


>gi|241696177|ref|XP_002411834.1| RNA polymerase, 25-kDa subunit, putative [Ixodes scapularis]
 gi|215504757|gb|EEC14251.1| RNA polymerase, 25-kDa subunit, putative [Ixodes scapularis]
          Length = 91

 Score = 46.6 bits (109), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 26/71 (36%), Positives = 46/71 (64%), Gaps = 2/71 (2%)

Query: 120 QIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVL 177
           Q +  + +T  I+++Q  +T  A +A+G    ++ +E F  ++LL+NIT+H L P+H VL
Sbjct: 21  QRMQEENITRAIIVVQQGMTPSAKQALGDMAPKYILEHFLESELLINITEHELVPEHVVL 80

Query: 178 TDQEKEKLLKK 188
           T +EK +LL +
Sbjct: 81  TPEEKAELLAR 91


>gi|145481253|ref|XP_001426649.1| hypothetical protein [Paramecium tetraurelia strain d4-2]
 gi|124393725|emb|CAK59251.1| unnamed protein product [Paramecium tetraurelia]
          Length = 224

 Score = 46.6 bits (109), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 42/168 (25%), Positives = 78/168 (46%), Gaps = 17/168 (10%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLS---VQDFRAIYGQDPDVDRLRISISHQSDPSKRI 99
           Y   +T+  M++ RGY  A   I +     + F A Y  D    R+ +    + +  K +
Sbjct: 18  YKVFQTLASMIRQRGYFEANPPILIEDEPFELFEAKYRTDVLPQRV-VCFKKEDETDKMV 76

Query: 100 LVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILIL-------QNQITSQATKAV-----G 147
           +  +     +  +  +  IS++ NR  +  LI++        + Q+  +  +        
Sbjct: 77  IQFYTKQTALNYDDAKKYISELSNR-QVKRLIMVFPTDPFATKPQVVEKKARFFIDQVNS 135

Query: 148 LFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +  +  E+F   DL+ ++TKH L P+H +L D+EKE LLKKY + + Q
Sbjct: 136 IQTYSFELFGEDDLVYDVTKHELVPQHIILNDKEKELLLKKYGMVDNQ 183


>gi|344307865|ref|XP_003422599.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Loxodonta africana]
          Length = 224

 Score = 45.8 bits (107), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 48/81 (59%), Gaps = 2/81 (2%)

Query: 117 IISQIVNRDTLTGLILILQNQITSQATKAV--GLFQFKVEMFQITDLLVNITKHVLKPKH 174
           +  Q +  + +T  ++++Q  +T  A +++     ++ +E F   +LL+NIT+H L P+H
Sbjct: 103 VYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEH 162

Query: 175 QVLTDQEKEKLLKKYSIEEKQ 195
            V+T +E  +LL +Y + E Q
Sbjct: 163 VVMTKEEVTELLARYKLRENQ 183


>gi|323305973|gb|EGA59708.1| Rpb5p [Saccharomyces cerevisiae FostersB]
          Length = 114

 Score = 45.8 bits (107), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 50/99 (50%), Gaps = 11/99 (11%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQIVNRD 125
           +           + V FC    V V  +++ +  I  ++
Sbjct: 66  EESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKN 104


>gi|323310097|gb|EGA63291.1| Rpb5p [Saccharomyces cerevisiae FostersO]
          Length = 114

 Score = 45.4 bits (106), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 29/95 (30%), Positives = 48/95 (50%), Gaps = 11/95 (11%)

Query: 37  RDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPS 96
           R+  R + + RTV EM+KDRGY +   E+ L ++DF+A Y  D      R  +S Q++P+
Sbjct: 7   RNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYC-DSMGRPQRKMMSFQANPT 65

Query: 97  KR----------ILVVFCGPGIVKVNVIRSIISQI 121
           +           + V FC    V V  +++ +  I
Sbjct: 66  EESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHI 100


>gi|83315223|ref|XP_730700.1| hypothetical protein [Plasmodium yoelii yoelii 17XNL]
 gi|23490505|gb|EAA22265.1| hypothetical protein [Plasmodium yoelii yoelii]
          Length = 91

 Score = 45.4 bits (106), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 1/64 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R+Y  R+T  EML+DRGY +   E   +   F+ ++ ++  +  R+ I  SH++D + +I
Sbjct: 7   RFYKCRKTCCEMLEDRGYIITAREKLENFAAFKELFEENEKLRSRMTIITSHKNDANNKI 66

Query: 100 LVVF 103
           +V F
Sbjct: 67  IVYF 70


>gi|413949944|gb|AFW82593.1| hypothetical protein ZEAMMB73_065125 [Zea mays]
          Length = 142

 Score = 45.4 bits (106), Expect = 0.017,   Method: Compositional matrix adjust.
 Identities = 21/46 (45%), Positives = 34/46 (73%), Gaps = 6/46 (13%)

Query: 150 QFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +VEMF      +NI +HVL P+H VLT++EK+ LL++Y+++E Q
Sbjct: 34  EMEVEMF------INIKEHVLVPEHHVLTNEEKKTLLEQYTLKETQ 73


>gi|118387602|ref|XP_001026905.1| RNA polymerase Rpb5, C-terminal domain containing protein
           [Tetrahymena thermophila]
 gi|89308672|gb|EAS06660.1| RNA polymerase Rpb5, C-terminal domain containing protein
           [Tetrahymena thermophila SB210]
          Length = 275

 Score = 45.4 bits (106), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 23/45 (51%), Positives = 30/45 (66%)

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +K E+F   DL++NITKH L PKH  L   EK+KL+ KY I + Q
Sbjct: 190 YKYEIFFFDDLVINITKHQLVPKHVPLNAIEKKKLMDKYKINDAQ 234


>gi|149595717|ref|XP_001520959.1| PREDICTED: hypothetical protein LOC100092316, partial
           [Ornithorhynchus anatinus]
          Length = 157

 Score = 45.1 bits (105), Expect = 0.022,   Method: Compositional matrix adjust.
 Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 5/67 (7%)

Query: 44  LSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKR 98
           LSR    ++  DRGY V   E++ ++++F+  +G  P   R R     + ++H  DP+ +
Sbjct: 44  LSRNAPFQLCHDRGYLVTQDELDQTLEEFKGQFGDKPSEGRPRRTDLTVLVAHNDDPTDQ 103

Query: 99  ILVVFCG 105
           + V F G
Sbjct: 104 MFVFFPG 110


>gi|238488993|ref|XP_002375734.1| DNA-directed RNA polymerase II, putative [Aspergillus flavus
          NRRL3357]
 gi|220698122|gb|EED54462.1| DNA-directed RNA polymerase II, putative [Aspergillus flavus
          NRRL3357]
          Length = 79

 Score = 45.1 bits (105), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 2/56 (3%)

Query: 25 ESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDP 80
          E   SG VD   R+  R + + RTV EML+DRGY V   E+ +S+++F+  Y  DP
Sbjct: 3  EDYSSGSVD-ADREMTRLWRTWRTVFEMLQDRGYEVTEEEVQISLEEFKQKYS-DP 56


>gi|15228284|ref|NP_188290.1| DNA binding / DNA-directed RNA polymerase [Arabidopsis thaliana]
 gi|332642330|gb|AEE75851.1| DNA binding / DNA-directed RNA polymerase [Arabidopsis thaliana]
          Length = 87

 Score = 44.7 bits (104), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 18/38 (47%), Positives = 29/38 (76%)

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKK 188
           F +E+FQ  +L+VN+ +HV  P+HQ LT +EK+K L++
Sbjct: 41  FHIEVFQEKELIVNVKEHVFVPEHQALTTEEKQKFLER 78


>gi|428163062|gb|EKX32155.1| hypothetical protein GUITHDRAFT_82572, partial [Guillardia theta
           CCMP2712]
          Length = 81

 Score = 44.3 bits (103), Expect = 0.035,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 31/40 (77%)

Query: 156 FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           F  ++L VNIT+H L P+H VLT+++K+ LLK+Y ++EK 
Sbjct: 1   FLASELKVNITRHELVPQHYVLTEEDKKTLLKRYHLQEKH 40


>gi|145481865|ref|XP_001426955.1| hypothetical protein [Paramecium tetraurelia strain d4-2]
 gi|124394033|emb|CAK59557.1| unnamed protein product [Paramecium tetraurelia]
          Length = 223

 Score = 43.9 bits (102), Expect = 0.050,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 31/45 (68%)

Query: 151 FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +  E+F   DL+ ++TKH L P+H +L D+EKE LLKKY + + Q
Sbjct: 138 YSFELFGEDDLVYDVTKHELVPQHIILNDREKELLLKKYGLVDNQ 182


>gi|432855570|ref|XP_004068252.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like isoform 2 [Oryzias latipes]
          Length = 159

 Score = 43.5 bits (101), Expect = 0.057,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 48/78 (61%), Gaps = 2/78 (2%)

Query: 120 QIVNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVL 177
           Q +  + +T  I+++Q  +T  A +++     ++ +E F   +LL+NIT+H L P+H V+
Sbjct: 41  QRMQEENITRAIIVVQMGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEHIVM 100

Query: 178 TDQEKEKLLKKYSIEEKQ 195
           T +E  +LL +Y ++E Q
Sbjct: 101 TKEEVTELLARYKLKESQ 118


>gi|340386044|ref|XP_003391518.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like, partial [Amphimedon queenslandica]
          Length = 88

 Score = 43.5 bits (101), Expect = 0.067,   Method: Compositional matrix adjust.
 Identities = 22/82 (26%), Positives = 43/82 (52%), Gaps = 5/82 (6%)

Query: 39  SLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPD-----VDRLRISISHQS 93
           + R +  R+TV++M  DR Y V   E++ ++  F+  +G+ P+      + L I ++H  
Sbjct: 7   TYRLWRIRKTVMQMCHDRRYLVTQDELDQTLDQFKEQFGERPNDGHPSRNDLSILVAHND 66

Query: 94  DPSKRILVVFCGPGIVKVNVIR 115
           DP+ ++ V F     V +  I+
Sbjct: 67  DPTDQMFVFFPEDPKVGIKTIK 88


>gi|70936236|ref|XP_739092.1| hypothetical protein [Plasmodium chabaudi chabaudi]
 gi|56515823|emb|CAH87208.1| hypothetical protein PC302370.00.0 [Plasmodium chabaudi chabaudi]
          Length = 69

 Score = 43.5 bits (101), Expect = 0.073,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 37/62 (59%), Gaps = 1/62 (1%)

Query: 41  RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV-DRLRISISHQSDPSKRI 99
           R+Y  R+T  EML+DRGY +   E   +   F+ ++ ++  +  R+ I  SH++D S +I
Sbjct: 7   RFYKCRKTCCEMLEDRGYIITAREKLENFAAFKELFEENEKLRSRMTIITSHKNDASNKI 66

Query: 100 LV 101
           +V
Sbjct: 67  IV 68


>gi|253741540|gb|EES98408.1| RNA polymerase II subunit Rpb5b [Giardia intestinalis ATCC 50581]
          Length = 201

 Score = 43.1 bits (100), Expect = 0.078,   Method: Compositional matrix adjust.
 Identities = 41/161 (25%), Positives = 74/161 (45%), Gaps = 30/161 (18%)

Query: 49  VLEMLKDRGYAVA--LSEINLSVQDFRAIYGQ--DPDVDRLRISISHQSDPSKRILVVFC 104
           VLEM +DRGY +     ++ L+ ++     GQ  D +V  LR              +V  
Sbjct: 16  VLEMCRDRGYDIESLRKQMGLTAEEM----GQLIDNNVSNLR----------PLWFIVTK 61

Query: 105 GPGIVKVNVIRSI---------ISQIVNRDTLTGLILI-LQNQITSQATKAVGLFQFKVE 154
           GP  V   V+ S+         I Q ++++ +   + I      TS  ++   +   +++
Sbjct: 62  GP--VATAVVYSVLPWADASAAIGQYLDQEAVQKCLFIYFGGPTTSCRSEHRVINDVEID 119

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           ++  +  L+N TKH L PKH +L+  EK ++L +  + E Q
Sbjct: 120 IYDFSQFLINPTKHSLVPKHTILSSTEKARVLAELRVTEAQ 160


>gi|7208597|gb|AAF40216.1|AF236666_1 RNA polymerase subunit [Emericella nidulans]
          Length = 117

 Score = 43.1 bits (100), Expect = 0.080,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 29/46 (63%)

Query: 32 VDNGSRDSLRYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYG 77
           D+  R+++R + + RTV EML+DRGY V   E+ + + +F+  Y 
Sbjct: 19 ADDAERETIRVWRTWRTVFEMLQDRGYEVTEEEVKIDLDEFKREYA 64


>gi|327409963|ref|YP_004347383.1| DNA-directed RNA polymerase subunit RPB5 [Lausannevirus]
 gi|326785137|gb|AEA07271.1| DNA-directed RNA polymerase subunit RPB5 [Lausannevirus]
          Length = 198

 Score = 42.7 bits (99), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 26/107 (24%), Positives = 59/107 (55%), Gaps = 3/107 (2%)

Query: 91  HQSDPSKRILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ 150
           H+ DP K   V +      K++ ++ + S+    + L  +++I+++ + S+A   V    
Sbjct: 45  HEKDPEKFARVFWSLGSESKMSFVQQVFSEAAT-EKLNQIVIIVEHPLVSKAKTTVNSIT 103

Query: 151 FKVE--MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
             V   +F+I+D+      H L P H+ L+++EK+K+L+ Y +++++
Sbjct: 104 KIVNTCVFEISDVQFRKPSHKLVPPHRRLSEEEKQKVLEDYQVKKEK 150


>gi|146083991|ref|XP_001464893.1| putative DNA-directed RNA polymerases II [Leishmania infantum
           JPCM5]
 gi|398013799|ref|XP_003860091.1| DNA-directed RNA polymerases II, putative [Leishmania donovani]
 gi|134068988|emb|CAM67131.1| putative DNA-directed RNA polymerases II [Leishmania infantum
           JPCM5]
 gi|322498310|emb|CBZ33384.1| DNA-directed RNA polymerases II, putative [Leishmania donovani]
          Length = 239

 Score = 42.7 bits (99), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 38/181 (20%), Positives = 77/181 (42%), Gaps = 33/181 (18%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV------------------------ 82
           +T  EM+ DR Y VA   +  S+ +F   Y ++ +V                        
Sbjct: 19  QTSAEMMSDRKYKVAQHVVPSSLGEFIERYVEEVEVTEDGGAAVGGGPNDAPPRRKQVIR 78

Query: 83  -DRLRISISHQSDPSK--RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQIT 139
            D++ ++   +       + +V FC P  +   V++ I    +N +    ++ +  ++  
Sbjct: 79  RDKMTLACEREVGEGNTLKAVVYFCPPNHLSSEVVKKIAEDALN-EGYQRVVFVTPSKPN 137

Query: 140 SQATKAVGLFQ-----FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEK 194
               K +  +       + E+F+  +L VNIT H L PKH  L+++E   +L+ +++E  
Sbjct: 138 PIVRKTMDTYNRSEQDLRFELFEEDELSVNITHHELVPKHSPLSEEELTDVLQAHALELN 197

Query: 195 Q 195
           Q
Sbjct: 198 Q 198


>gi|119589956|gb|EAW69550.1| polymerase (RNA) II (DNA directed) polypeptide E, 25kDa, isoform
           CRA_c [Homo sapiens]
 gi|194381594|dbj|BAG58751.1| unnamed protein product [Homo sapiens]
          Length = 117

 Score = 42.7 bits (99), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 46/76 (60%), Gaps = 2/76 (2%)

Query: 122 VNRDTLTGLILILQNQITSQATKAVGLF--QFKVEMFQITDLLVNITKHVLKPKHQVLTD 179
           +  + +T  ++++Q  +T  A +++     ++ +E F   +LL+NIT+H L P+H V+T 
Sbjct: 1   MQEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEHVVMTK 60

Query: 180 QEKEKLLKKYSIEEKQ 195
           +E  +LL +Y + E Q
Sbjct: 61  EEVTELLARYKLRENQ 76


>gi|413923120|gb|AFW63052.1| hypothetical protein ZEAMMB73_163602 [Zea mays]
          Length = 222

 Score = 42.4 bits (98), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 37/61 (60%), Gaps = 11/61 (18%)

Query: 147 GLFQFKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQQHNRHLCWTTT 206
            +   +VEMF      +NI +HVL  +H VLT++EK+ LL++Y+++E Q     + W  T
Sbjct: 107 AILASEVEMF------INIKEHVLVSEHHVLTNEEKKTLLERYTLKETQ-----VLWPQT 155

Query: 207 K 207
           +
Sbjct: 156 R 156


>gi|413952169|gb|AFW84818.1| hypothetical protein ZEAMMB73_052663 [Zea mays]
          Length = 134

 Score = 42.0 bits (97), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 23/59 (38%), Positives = 36/59 (61%)

Query: 41 RYYLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRI 99
          R Y  RRTV++ML+DRGY V   E+  S +DF   +G+    + L I+   ++DPS ++
Sbjct: 14 RLYRIRRTVMQMLRDRGYLVVDHELATSRRDFLRKFGESFHREDLLINKYKKNDPSDQV 72


>gi|401419204|ref|XP_003874092.1| putative DNA-directed RNA polymerases II [Leishmania mexicana
           MHOM/GT/2001/U1103]
 gi|322490326|emb|CBZ25586.1| putative DNA-directed RNA polymerases II [Leishmania mexicana
           MHOM/GT/2001/U1103]
          Length = 239

 Score = 42.0 bits (97), Expect = 0.20,   Method: Compositional matrix adjust.
 Identities = 38/181 (20%), Positives = 77/181 (42%), Gaps = 33/181 (18%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV------------------------ 82
           +T  EM+ DR Y VA   +  S+ +F   Y ++ +V                        
Sbjct: 19  QTSAEMMSDRKYKVAQHVVPGSLGEFIERYVEEVEVTEDGGAAVGGGPTDAPPRRKQVIR 78

Query: 83  -DRLRISISHQSDPSK--RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQIT 139
            D++ ++   +       + +V FC P  +   V++ I    +N +    ++ +  ++  
Sbjct: 79  RDKMTLACEREVGEGNTLKAVVYFCPPNHLSSEVVKKIAEDALN-EGYQRVVFVTPSKPN 137

Query: 140 SQATKAVGLFQ-----FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEK 194
               K +  +       + E+F+  +L VNIT H L PKH  L+++E + +L  +++E  
Sbjct: 138 PIVRKTMDTYNRSEQDLRFELFEEDELSVNITHHELVPKHTPLSEEELKDVLHAHALELH 197

Query: 195 Q 195
           Q
Sbjct: 198 Q 198


>gi|157867861|ref|XP_001682484.1| putative DNA-directed RNA polymerases II [Leishmania major strain
           Friedlin]
 gi|68125938|emb|CAJ03739.1| putative DNA-directed RNA polymerases II [Leishmania major strain
           Friedlin]
          Length = 239

 Score = 41.6 bits (96), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 38/181 (20%), Positives = 76/181 (41%), Gaps = 33/181 (18%)

Query: 47  RTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDV------------------------ 82
           +T  EM+ DR Y VA   +  S+ +F   Y ++ +V                        
Sbjct: 19  QTSAEMMSDRKYKVAQHVVPGSLGEFIERYVEEVEVTEDGGAAVGGGPTDALPRRKQVIR 78

Query: 83  -DRLRISISHQSDPSK--RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQIT 139
            D++ ++   +       + +V FC P  +   V++ I    +N +    ++ +  ++  
Sbjct: 79  RDKMTLACEREVGEGNTLKAVVYFCPPNHLSSEVVKKIAEDALN-EGYQRIVFVTPSKPN 137

Query: 140 SQATKAVGLFQ-----FKVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEK 194
               K +  +       + E+F+  +L VNIT H L PKH  L+++E   +L  +++E  
Sbjct: 138 PIVRKTMDTYNRSEQDLRFELFEEDELSVNITHHELVPKHTPLSEEELRDVLHAHALELN 197

Query: 195 Q 195
           Q
Sbjct: 198 Q 198


>gi|403257973|ref|XP_003921562.1| PREDICTED: DNA-directed RNA polymerases I, II, and III subunit
           RPABC1-like [Saimiri boliviensis boliviensis]
          Length = 87

 Score = 41.6 bits (96), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 44/76 (57%), Gaps = 2/76 (2%)

Query: 122 VNRDTLTGLILILQNQITSQATKAVGLFQFK--VEMFQITDLLVNITKHVLKPKHQVLTD 179
           +  + +T  + ++Q  +T  A +++     K  +E F   +LL+NIT+H L P+H V+T 
Sbjct: 1   MQEENITRALFVVQQGMTPSAKQSLVDMAPKCILEQFLQQELLINITEHELVPEHVVMTK 60

Query: 180 QEKEKLLKKYSIEEKQ 195
           +E  +LL +Y + E Q
Sbjct: 61  EEVTELLARYKLRENQ 76


>gi|159118208|ref|XP_001709323.1| RNA polymerase II subunit Rpb5b [Giardia lamblia ATCC 50803]
 gi|21842214|gb|AAM77736.1|AF510644_1 RNA polymerase II subunit Rpb5b [Giardia intestinalis]
 gi|157437439|gb|EDO81649.1| RNA polymerase II subunit Rpb5b [Giardia lamblia ATCC 50803]
          Length = 201

 Score = 41.2 bits (95), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 74/161 (45%), Gaps = 28/161 (17%)

Query: 48  TVLEMLKDRGYAVALSE--INLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
            VLEM +DRGY +   E  + LS ++   +   D +V  LR              ++  G
Sbjct: 15  VVLEMYRDRGYEMGPLEKQMGLSAEEVGRLI--DDNVTNLR----------PLWFIITKG 62

Query: 106 PGIVKVNVIRSI---------ISQIVNRDTLTGLILILQN--QITSQATKAVGLFQFKVE 154
           P  V   V+ SI         I Q V+++ +   + +      I+ ++   V +   +V+
Sbjct: 63  P--VATAVVYSILPWVDASAAIGQYVDQEAVQKCLFVYFGGPAISCRSEHRV-INDVEVD 119

Query: 155 MFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +   +  L+N TKH L PKH +L++ EK ++L +  + E Q
Sbjct: 120 IHDFSQFLINPTKHRLVPKHTILSNTEKARVLAELRVTEAQ 160


>gi|403166115|ref|XP_003326024.2| hypothetical protein PGTG_07854 [Puccinia graminis f. sp. tritici
           CRL 75-36-700-3]
 gi|375166076|gb|EFP81605.2| hypothetical protein PGTG_07854 [Puccinia graminis f. sp. tritici
           CRL 75-36-700-3]
          Length = 1190

 Score = 41.2 bits (95), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 26/67 (38%), Positives = 36/67 (53%), Gaps = 9/67 (13%)

Query: 21  GEPTESCLSGFVDNGSRDSLRYYLSRRTVLEMLKDRG------YAVALSEINLS-VQDFR 73
            +P E  + GF+D G RD+LRYYL  R  LE LK +        A  L+EI L+ + +  
Sbjct: 526 SKPFEEVVLGFIDRGERDALRYYLISR--LERLKRQDLTQRMMLATWLTEIYLAKINELE 583

Query: 74  AIYGQDP 80
            + G DP
Sbjct: 584 DLVGADP 590


>gi|149034609|gb|EDL89346.1| rCG29511, isoform CRA_b [Rattus norvegicus]
          Length = 167

 Score = 40.8 bits (94), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 5/62 (8%)

Query: 51  EMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLR-----ISISHQSDPSKRILVVFCG 105
           ++  DRGY V   E++ ++++F+A +G  P   R R     + ++H  DP+ ++ V F G
Sbjct: 11  QLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPG 70

Query: 106 PG 107
            G
Sbjct: 71  EG 72


>gi|384486776|gb|EIE78956.1| hypothetical protein RO3G_03661 [Rhizopus delemar RA 99-880]
          Length = 140

 Score = 40.4 bits (93), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 48/98 (48%), Gaps = 16/98 (16%)

Query: 117 IISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQV 176
           IIS  V +DT TGL            +K  G   F+ +M    + L+ +    L+ KH  
Sbjct: 34  IISARVMKDTQTGL------------SKGYGFVSFR-QMEDAYEALMEMNGSRLRTKHIS 80

Query: 177 LTDQEKEKLLKKYSIEEKQQHNRHLCWTTTKQSPSLQP 214
           ++  E++K  ++Y   EK Q NRH   ++TKQS  + P
Sbjct: 81  VSFHEQKKTAQEY---EKIQRNRHSISSSTKQSEPMAP 115


>gi|332157776|ref|YP_004423055.1| DNA-directed RNA polymerase subunit H [Pyrococcus sp. NA2]
 gi|331033239|gb|AEC51051.1| DNA-directed RNA polymerase subunit H [Pyrococcus sp. NA2]
          Length = 82

 Score = 40.0 bits (92), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 19/32 (59%), Positives = 24/32 (75%)

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI  HVL P+H+VL+++EKE LLKKY I   Q
Sbjct: 8   NIFDHVLVPEHRVLSEEEKEALLKKYRITPAQ 39


>gi|284504393|ref|YP_003407108.1| RNAP subunit Rpb5 [Marseillevirus]
 gi|282935831|gb|ADB04146.1| RNAP subunit Rpb5 [Marseillevirus]
          Length = 193

 Score = 40.0 bits (92), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 36/158 (22%), Positives = 74/158 (46%), Gaps = 29/158 (18%)

Query: 45  SRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFC 104
           +++TV+ M+ DRGY + L  +     D +    ++P      I    +++  K+  V + 
Sbjct: 8   AKKTVVRMMSDRGY-LPLKRL----PDPKGSSSREP------ICWEFENEQQKKANVFW- 55

Query: 105 GPGIVKVNVIRS--------IISQIVNRDTLTGLILILQNQITSQATKAVGLFQFKVEM- 155
                  N+ RS         + ++   D L  +++++   + S+    V      V+M 
Sbjct: 56  -------NLDRSESKMPFIQYVFEVAVMDKLEQVVIVVDKGLVSKGKNTVSSMSENVDMT 108

Query: 156 -FQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIE 192
            F+++DL V    HV  P H+ L++++K + L+KY +E
Sbjct: 109 VFEVSDLQVITPDHVDVPPHKKLSEKKKRETLEKYGVE 146


>gi|357289742|gb|AET73055.1| hypothetical protein PGAG_00166 [Phaeocystis globosa virus 12T]
 gi|357292542|gb|AET73878.1| hypothetical protein PGBG_00170 [Phaeocystis globosa virus 14T]
          Length = 211

 Score = 39.7 bits (91), Expect = 1.00,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 79/165 (47%), Gaps = 20/165 (12%)

Query: 43  YLSRRTVLEMLKDRGYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVV 102
           Y SR+ +LE+L +RGY ++  + N ++ +     G   + D+L + I   S   K+I V 
Sbjct: 14  YNSRKHLLEILGERGYDISTYD-NFTINEV----GLMLEYDQLDMLIKKTS-TQKKIYVK 67

Query: 103 FCGPGIVKVNVIRSIISQIVN-RDTLT---GLILILQ---NQITSQATKAV----GLFQF 151
           +    ++K   I  +I  + +  + LT    LI+I +   N    Q  K +    G +  
Sbjct: 68  YYVGKVLKTQNIYDMIQDLFHLENVLTKKDDLIIITKDEPNDTLRQNVKDIWNDEGNY-- 125

Query: 152 KVEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQQ 196
            + +  I  L  N+ KH L+PK   L D EK +   KY+I + +Q
Sbjct: 126 -ISLINIKRLQYNVLKHELQPKFTKLNDTEKAEFKVKYNILDDKQ 169


>gi|315426561|dbj|BAJ48191.1| DNA-directed RNA polymerase subunit H [Candidatus Caldiarchaeum
           subterraneum]
 gi|343485293|dbj|BAJ50947.1| DNA-directed RNA polymerase subunit H [Candidatus Caldiarchaeum
           subterraneum]
          Length = 76

 Score = 38.9 bits (89), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 15/29 (51%), Positives = 25/29 (86%)

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSI 191
           ++IT+HVL PKH+VL+ +E E+LL++Y +
Sbjct: 1   MDITEHVLVPKHEVLSPEEAEELLRRYGV 29


>gi|154335545|ref|XP_001564011.1| putative DNA-directed RNA polymerases II [Leishmania braziliensis
           MHOM/BR/75/M2904]
 gi|134061042|emb|CAM38061.1| putative DNA-directed RNA polymerases II [Leishmania braziliensis
           MHOM/BR/75/M2904]
          Length = 239

 Score = 38.9 bits (89), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 24/103 (23%), Positives = 51/103 (49%), Gaps = 6/103 (5%)

Query: 98  RILVVFCGPGIVKVNVIRSIISQIVNRDTLTGLILILQNQITSQATKAVGLFQ-----FK 152
           + +V FC P  +   V++ I    ++ +    ++ +  ++      K +  +       +
Sbjct: 97  KAVVYFCPPNHLSSEVVKKIAEDALH-EGYQRVVFVTPSKPNPIVRKTMDTYNRSEQDLR 155

Query: 153 VEMFQITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
            E+F+  +L VNIT H L PKH  L+++E + +L  +++E  Q
Sbjct: 156 FELFEEDELSVNITHHELVPKHTPLSEEELKDVLHAHALELHQ 198


>gi|14591330|ref|NP_143408.1| DNA-directed RNA polymerase subunit H [Pyrococcus horikoshii OT3]
 gi|6685902|sp|O74019.1|RPOH_PYRHO RecName: Full=DNA-directed RNA polymerase subunit H
 gi|3257975|dbj|BAA30658.1| 82aa long hypothetical DNA-directed RNA polymerase subunit Hprotein
           [Pyrococcus horikoshii OT3]
          Length = 82

 Score = 38.9 bits (89), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 25/32 (78%)

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI KHVL P+H++L+++EK+ LL+KY I   Q
Sbjct: 8   NIFKHVLVPEHRILSEEEKKALLEKYKITPAQ 39


>gi|14520829|ref|NP_126304.1| DNA-directed RNA polymerase subunit H [Pyrococcus abyssi GE5]
 gi|13124530|sp|Q9V116.1|RPOH_PYRAB RecName: Full=DNA-directed RNA polymerase subunit H
 gi|5458045|emb|CAB49535.1| rpoH DNA-directed RNA polymerase, subunit H [Pyrococcus abyssi GE5]
 gi|380741371|tpe|CCE70005.1| TPA: DNA-directed RNA polymerase subunit H [Pyrococcus abyssi GE5]
          Length = 82

 Score = 38.5 bits (88), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 25/32 (78%)

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI KHVL P+H++L+++EK+ LL+KY I   Q
Sbjct: 8   NIFKHVLVPEHRILSEEEKKALLEKYRITPAQ 39


>gi|68074991|ref|XP_679412.1| hypothetical protein [Plasmodium berghei strain ANKA]
 gi|56500156|emb|CAI00596.1| hypothetical protein PB108754.00.0 [Plasmodium berghei]
          Length = 117

 Score = 38.1 bits (87), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 18/34 (52%), Positives = 24/34 (70%)

Query: 162 LVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           +VNITKH L P+H  LT  EK  LL++Y I+E +
Sbjct: 16  VVNITKHELVPRHIPLTSDEKRNLLQRYKIKENK 49


>gi|221064717|ref|ZP_03540822.1| conserved hypothetical protein [Comamonas testosteroni KF-1]
 gi|220709740|gb|EED65108.1| conserved hypothetical protein [Comamonas testosteroni KF-1]
          Length = 646

 Score = 38.1 bits (87), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 29/49 (59%)

Query: 57  GYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           GY V L+  N + Q  R++ G++  +DR  + +    DP++RI+V+  G
Sbjct: 322 GYGVWLARANFNRQSLRSLLGREGGIDRPHVYLMQPYDPNRRIIVMLHG 370


>gi|319764696|ref|YP_004128633.1| hypothetical protein Alide_4042 [Alicycliphilus denitrificans BC]
 gi|317119257|gb|ADV01746.1| hypothetical protein Alide_4042 [Alicycliphilus denitrificans BC]
          Length = 646

 Score = 38.1 bits (87), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 29/49 (59%)

Query: 57  GYAVALSEINLSVQDFRAIYGQDPDVDRLRISISHQSDPSKRILVVFCG 105
           GY V L+  N + Q  R++ G++  +DR  + +    DP++RI+V+  G
Sbjct: 322 GYGVWLARANFNRQSLRSLLGREGGIDRPHVYLMQPYDPNRRIIVMLHG 370


>gi|356927751|gb|AET42541.1| hypothetical protein EXVG_00192 [Emiliania huxleyi virus 202]
          Length = 213

 Score = 37.7 bits (86), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 12/142 (8%)

Query: 51  EMLKDRGYAVALSEINLSVQDFRAI-YGQDPDVDRLRISISHQSDPSKRILVVFCGPGIV 109
           EML  RGY      I   V  + AI Y  +     L  S S++  P    +V F     V
Sbjct: 31  EMLTARGYEC----IKGDVTSYGAIEYSMENTTPLLTGSFSNRCRPDS--VVYFFNELKV 84

Query: 110 KVNVIRSIISQIVNRDTLTGLILI-LQNQITSQATKAVGLFQFKVEMFQITDLLVNITKH 168
            V ++R ++ ++        LIL+ +Q   +S+    +      VE      +  NITKH
Sbjct: 85  GVKIVRDLLEKLDATPESVHLILVSVQGSTSSRPAHKMD----HVEFLTYKQMSFNITKH 140

Query: 169 VLKPKHQVLTDQEKEKLLKKYS 190
           VL PKH  +  ++ + ++  ++
Sbjct: 141 VLVPKHTYIDKEQADVIINSFT 162


>gi|356506930|ref|XP_003522226.1| PREDICTED: uncharacterized protein LOC100806474 [Glycine max]
          Length = 330

 Score = 37.0 bits (84), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 19/38 (50%), Positives = 26/38 (68%)

Query: 158 ITDLLVNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + +LL N+TKH  + K++VLTD EK  LL +   EEKQ
Sbjct: 259 VDELLFNVTKHGKQQKYEVLTDDEKRALLTELKREEKQ 296


>gi|389852854|ref|YP_006355088.1| DNA-directed RNA polymerase subunit H [Pyrococcus sp. ST04]
 gi|388250160|gb|AFK23013.1| DNA-directed RNA polymerase subunit H [Pyrococcus sp. ST04]
          Length = 82

 Score = 37.0 bits (84), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 24/32 (75%)

Query: 164 NITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           NI  HVL P+H+VL+++EK+ LL+KY I   Q
Sbjct: 8   NIFDHVLVPEHRVLSEEEKKALLEKYKITPAQ 39


>gi|15079165|ref|NP_149917.1| 454R [Invertebrate iridescent virus 6]
 gi|82011977|sp|Q91F72.1|454R_IIV6 RecName: Full=Putative DNA-directed RNA polymerase subunit 454R
 gi|15042534|gb|AAK82314.1|AF303741_455 454R [Invertebrate iridescent virus 6]
          Length = 184

 Score = 36.6 bits (83), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 2/74 (2%)

Query: 118 ISQIVN--RDTLTGLILILQNQITSQATKAVGLFQFKVEMFQITDLLVNITKHVLKPKHQ 175
           +SQI++   +    + +I    IT+   K     + KVE+F   DL +NITK+ L+P   
Sbjct: 59  LSQIIDFSSNEYVCVTIICDGSITTNVKKIEQTTKGKVEIFHNKDLQMNITKYHLQPLFN 118

Query: 176 VLTDQEKEKLLKKY 189
            L D+E +   KKY
Sbjct: 119 KLLDEEAKDFKKKY 132


>gi|242398378|ref|YP_002993802.1| DNA-directed RNA polymerase subunit H [Thermococcus sibiricus MM
           739]
 gi|259494220|sp|C6A1F8.1|RPOH_THESM RecName: Full=DNA-directed RNA polymerase subunit H
 gi|242264771|gb|ACS89453.1| DNA-directed RNA polymerase subunit H [Thermococcus sibiricus MM
           739]
          Length = 82

 Score = 36.2 bits (82), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 17/33 (51%), Positives = 25/33 (75%)

Query: 163 VNITKHVLKPKHQVLTDQEKEKLLKKYSIEEKQ 195
           + I  HVL P+H+VL+ +E E+LLKKY+I+  Q
Sbjct: 7   LTIFDHVLVPEHRVLSKEETEELLKKYNIKPSQ 39


  Database: nr
    Posted date:  Mar 3, 2013 10:45 PM
  Number of letters in database: 999,999,864
  Number of sequences in database:  2,912,245
  
  Database: /local_scratch/syshi//blastdatabase/nr.01
    Posted date:  Mar 3, 2013 10:52 PM
  Number of letters in database: 999,999,666
  Number of sequences in database:  2,912,720
  
  Database: /local_scratch/syshi//blastdatabase/nr.02
    Posted date:  Mar 3, 2013 10:58 PM
  Number of letters in database: 999,999,938
  Number of sequences in database:  3,014,250
  
  Database: /local_scratch/syshi//blastdatabase/nr.03
    Posted date:  Mar 3, 2013 11:03 PM
  Number of letters in database: 999,999,780
  Number of sequences in database:  2,805,020
  
  Database: /local_scratch/syshi//blastdatabase/nr.04
    Posted date:  Mar 3, 2013 11:08 PM
  Number of letters in database: 999,999,551
  Number of sequences in database:  2,816,253
  
  Database: /local_scratch/syshi//blastdatabase/nr.05
    Posted date:  Mar 3, 2013 11:13 PM
  Number of letters in database: 999,999,897
  Number of sequences in database:  2,981,387
  
  Database: /local_scratch/syshi//blastdatabase/nr.06
    Posted date:  Mar 3, 2013 11:18 PM
  Number of letters in database: 999,999,649
  Number of sequences in database:  2,911,476
  
  Database: /local_scratch/syshi//blastdatabase/nr.07
    Posted date:  Mar 3, 2013 11:24 PM
  Number of letters in database: 999,999,452
  Number of sequences in database:  2,920,260
  
  Database: /local_scratch/syshi//blastdatabase/nr.08
    Posted date:  Mar 3, 2013 11:25 PM
  Number of letters in database: 64,230,274
  Number of sequences in database:  189,558
  
Lambda     K      H
   0.317    0.135    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,490,279,442
Number of Sequences: 23463169
Number of extensions: 132667216
Number of successful extensions: 424759
Number of sequences better than 100.0: 524
Number of HSP's better than 100.0 without gapping: 497
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 423701
Number of HSP's gapped (non-prelim): 541
length of query: 225
length of database: 8,064,228,071
effective HSP length: 137
effective length of query: 88
effective length of database: 9,144,741,214
effective search space: 804737226832
effective search space used: 804737226832
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 74 (33.1 bits)