BLASTP 2.2.25+


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



Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
           15,229,318 sequences; 5,219,829,388 total letters



Query= Rv1189

Length=290
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

gi|15608329|ref|NP_215705.1|  RNA polymerase sigma factor SigI [M...   579    2e-163
gi|289761334|ref|ZP_06520712.1|  alternative RNA polymerase sigma...   579    2e-163
gi|340626203|ref|YP_004744655.1|  putative alternative RNA polyme...   577    9e-163
gi|121637120|ref|YP_977343.1|  RNA polymerase sigma factor SigI [...   553    1e-155
gi|339294179|gb|AEJ46290.1|  RNA polymerase sigma factor SigI [My...   516    2e-144
gi|342860116|ref|ZP_08716768.1|  RNA polymerase sigma factor SigI...   253    3e-65 
gi|254821879|ref|ZP_05226880.1|  RNA polymerase sigma factor SigI...   244    1e-62 
gi|41406268|ref|NP_959104.1|  RNA polymerase sigma factor SigI [M...   235    6e-60 
gi|118463107|ref|YP_879457.1|  RNA polymerase sigma factor SigI [...   234    2e-59 
gi|254773221|ref|ZP_05214737.1|  RNA polymerase sigma factor SigI...   233    3e-59 
gi|296166997|ref|ZP_06849410.1|  RNA polymerase sigma-70 factor [...   227    1e-57 
gi|169630082|ref|YP_001703731.1|  RNA polymerase sigma factor Sig...   221    1e-55 
gi|325675187|ref|ZP_08154872.1|  ECF subfamily RNA polymerase sig...   184    2e-44 
gi|312138042|ref|YP_004005378.1|  sigma-70 factor [Rhodococcus eq...   182    4e-44 
gi|271968354|ref|YP_003342550.1|  ECF subfamily RNA polymerase si...   182    5e-44 
gi|284042744|ref|YP_003393084.1|  RNA polymerase, sigma-24 subuni...   170    3e-40 
gi|297161730|gb|ADI11442.1|  ECF subfamily RNA polymerase sigma f...   168    8e-40 
gi|256391672|ref|YP_003113236.1|  RNA polymerase, sigma-24 subuni...   164    1e-38 
gi|111017938|ref|YP_700910.1|  sigma factor, includes region 2 [R...   162    5e-38 
gi|345011533|ref|YP_004813887.1|  ECF subfamily RNA polymerase si...   160    2e-37 
gi|337763893|emb|CCB72603.1|  putative RNA polymerase ECF-subfami...   160    3e-37 
gi|297559640|ref|YP_003678614.1|  ECF subfamily RNA polymerase si...   160    3e-37 
gi|337763736|emb|CCB72446.1|  putative RNA polymerase ECF-subfami...   159    6e-37 
gi|269929065|ref|YP_003321386.1|  RNA polymerase, sigma-24 subuni...   158    7e-37 
gi|241666621|ref|YP_002984705.1|  RNA polymerase, sigma-24 subuni...   158    8e-37 
gi|54022462|ref|YP_116704.1|  putative sigma factor [Nocardia far...   158    1e-36 
gi|291300793|ref|YP_003512071.1|  ECF subfamily RNA polymerase si...   157    1e-36 
gi|291435486|ref|ZP_06574876.1|  RNA polymerase sigma factor [Str...   157    1e-36 
gi|190895555|ref|YP_001985847.1|  RNA polymerase sigma factor pro...   157    1e-36 
gi|327190872|gb|EGE57933.1|  putative RNA polymerase sigma factor...   157    2e-36 
gi|29833966|ref|NP_828600.1|  ECF subfamily RNA polymerase sigma ...   157    2e-36 
gi|116255619|ref|YP_771452.1|  putative alternative RNA polymeras...   156    3e-36 
gi|117164605|emb|CAJ88151.1|  putative sigma factor [Streptomyces...   156    4e-36 
gi|54023594|ref|YP_117836.1|  putative sigma factor [Nocardia far...   155    6e-36 
gi|260905992|ref|ZP_05914314.1|  RNA polymerase, sigma-24 subunit...   155    8e-36 
gi|284028234|ref|YP_003378165.1|  ECF subfamily RNA polymerase si...   155    8e-36 
gi|260905994|ref|ZP_05914316.1|  putative sigma factor [Brevibact...   155    9e-36 
gi|209546187|ref|YP_002278077.1|  RNA polymerase, sigma-24 subuni...   154    1e-35 
gi|134098509|ref|YP_001104170.1|  putative RNA polymerase sigma f...   154    1e-35 
gi|111223115|ref|YP_713909.1|  RNA polymerase ECF-subfamily sigma...   154    2e-35 
gi|302535941|ref|ZP_07288283.1|  sigma factor [Streptomyces sp. C...   154    2e-35 
gi|254381494|ref|ZP_04996858.1|  RNA polymerase ECF-subfamily sig...   153    2e-35 
gi|312196886|ref|YP_004016947.1|  RNA polymerase, sigma-24 subuni...   153    2e-35 
gi|284046577|ref|YP_003396917.1|  RNA polymerase, sigma-24 subuni...   153    3e-35 
gi|302547996|ref|ZP_07300338.1|  RNA polymerase sigma-70 factor, ...   152    5e-35 
gi|329935018|ref|ZP_08285032.1|  RNA polymerase sigma-70 factor [...   152    5e-35 
gi|302562298|ref|ZP_07314640.1|  RNA polymerase sigma-70 factor [...   152    6e-35 
gi|328883906|emb|CCA57145.1|  putative RNA polymerase sigma facto...   152    7e-35 
gi|271968368|ref|YP_003342564.1|  ECF subfamily RNA polymerase si...   152    8e-35 
gi|320012102|gb|ADW06952.1|  RNA polymerase, sigma-24 subunit, EC...   152    9e-35 


>gi|15608329|ref|NP_215705.1| RNA polymerase sigma factor SigI [Mycobacterium tuberculosis 
H37Rv]
 gi|15840632|ref|NP_335669.1| RNA polymerase sigma factor SigI [Mycobacterium tuberculosis 
CDC1551]
 gi|31792382|ref|NP_854875.1| RNA polymerase sigma factor SigI [Mycobacterium bovis AF2122/97]
 72 more sequence titles
 Length=290

 Score =  579 bits (1493),  Expect = 2e-163, Method: Compositional matrix adjust.
 Identities = 290/290 (100%), Positives = 290/290 (100%), Gaps = 0/290 (0%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV
Sbjct  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG
Sbjct  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT
Sbjct  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240
            RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP
Sbjct  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240

Query  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG  290
            VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG
Sbjct  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG  290


>gi|289761334|ref|ZP_06520712.1| alternative RNA polymerase sigma factor sigI [Mycobacterium tuberculosis 
GM 1503]
 gi|289708840|gb|EFD72856.1| alternative RNA polymerase sigma factor sigI [Mycobacterium tuberculosis 
GM 1503]
Length=290

 Score =  579 bits (1492),  Expect = 2e-163, Method: Compositional matrix adjust.
 Identities = 289/290 (99%), Positives = 290/290 (100%), Gaps = 0/290 (0%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV
Sbjct  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG
Sbjct  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHR+VT
Sbjct  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRIVT  180

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240
            RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP
Sbjct  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240

Query  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG  290
            VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG
Sbjct  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG  290


>gi|340626203|ref|YP_004744655.1| putative alternative RNA polymerase sigma factor SIGI [Mycobacterium 
canettii CIPT 140010059]
 gi|340004393|emb|CCC43536.1| putative alternative RNA polymerase sigma factor SIGI [Mycobacterium 
canettii CIPT 140010059]
Length=290

 Score =  577 bits (1486),  Expect = 9e-163, Method: Compositional matrix adjust.
 Identities = 289/290 (99%), Positives = 289/290 (99%), Gaps = 0/290 (0%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV
Sbjct  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG
Sbjct  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT
Sbjct  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240
            RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHW HPATVLVAQP
Sbjct  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWCHPATVLVAQP  240

Query  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG  290
            VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG
Sbjct  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELGGG  290


>gi|121637120|ref|YP_977343.1| RNA polymerase sigma factor SigI [Mycobacterium bovis BCG str. 
Pasteur 1173P2]
 gi|121492767|emb|CAL71238.1| Possible alternative RNA polymerase sigma factor sigI' [Mycobacterium 
bovis BCG str. Pasteur 1173P2]
Length=401

 Score =  553 bits (1425),  Expect = 1e-155, Method: Compositional matrix adjust.
 Identities = 279/281 (99%), Positives = 279/281 (99%), Gaps = 0/281 (0%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV
Sbjct  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG
Sbjct  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT
Sbjct  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240
            RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP
Sbjct  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240

Query  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLD  281
            VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQP  LD
Sbjct  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPPALD  281


>gi|339294179|gb|AEJ46290.1| RNA polymerase sigma factor SigI [Mycobacterium tuberculosis 
CCDC5079]
Length=260

 Score =  516 bits (1329),  Expect = 2e-144, Method: Compositional matrix adjust.
 Identities = 259/260 (99%), Positives = 260/260 (100%), Gaps = 0/260 (0%)

Query  31   VAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHIKSASTRRERPQDIAAWHDGD  90
            +AEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHIKSASTRRERPQDIAAWHDGD
Sbjct  1    MAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHIKSASTRRERPQDIAAWHDGD  60

Query  91   ASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQAST  150
            ASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQAST
Sbjct  61   ASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQAST  120

Query  151  CRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDAR  210
            CRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDAR
Sbjct  121  CRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDAR  180

Query  211  KGVVVVGADRVGPTILRHWSHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITK  270
            KGVVVVGADRVGPTILRHWSHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITK
Sbjct  181  KGVVVVGADRVGPTILRHWSHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITK  240

Query  271  IHVLVQPSTLDPLRAELGGG  290
            IHVLVQPSTLDPLRAELGGG
Sbjct  241  IHVLVQPSTLDPLRAELGGG  260


>gi|342860116|ref|ZP_08716768.1| RNA polymerase sigma factor SigI [Mycobacterium colombiense CECT 
3035]
 gi|342132494|gb|EGT85723.1| RNA polymerase sigma factor SigI [Mycobacterium colombiense CECT 
3035]
Length=285

 Score =  253 bits (645),  Expect = 3e-65, Method: Compositional matrix adjust.
 Identities = 143/284 (51%), Positives = 179/284 (64%), Gaps = 14/284 (4%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVV  61
            S  D VS AWR HR YLV+LA++M+GDIG AED+ QEAF RL RA  G+I+D RGWL VV
Sbjct  6    SASDQVSEAWRRHRPYLVNLAYQMLGDIGEAEDIAQEAFLRLSRADAGEIEDTRGWLTVV  65

Query  62   TSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGP  121
             SRLCLD ++SA  R ERP D+    +   +   VDPADRVTLDDE+R ALL +L RL P
Sbjct  66   ASRLCLDQVRSARARYERPGDV----EDQPAPRRVDPADRVTLDDEIRTALLEVLRRLSP  121

Query  122  AERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIA-ASVEPAQHRVVT  180
             ERV FVLH++FG+P++ IA T+G    TCRQLA RAR K   ++   A V P +H++VT
Sbjct  122  GERVAFVLHDVFGVPFESIAQTVGRPVGTCRQLARRARSKFEAAQPKLADVAPPEHQLVT  181

Query  181  RAFIEACSNGDLDTLLEVLDPGVAG-----EIDARKGVVVVGADRVGPTILRH-WSHPAT  234
              FI AC+NGDL  L  VLDP V G        A    +  G D V   +LR+ W  P  
Sbjct  182  EKFIAACANGDLQALAAVLDPTVWGVGTILADPAPPPQINHGPDAVATNLLRYLW--PDV  239

Query  235  VLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPS  278
             LV+ PV G P +LAF  R L  V+ L+I   ++ KI  +  PS
Sbjct  240  TLVSGPV-GAPVLLAFSERRLFAVIVLTIRESRVCKIEAIADPS  282


>gi|254821879|ref|ZP_05226880.1| RNA polymerase sigma factor SigI [Mycobacterium intracellulare 
ATCC 13950]
Length=292

 Score =  244 bits (623),  Expect = 1e-62, Method: Compositional matrix adjust.
 Identities = 143/284 (51%), Positives = 178/284 (63%), Gaps = 14/284 (4%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVV  61
            S  D V+ AWR HR YLV+LA++M+GDIG AED+ QEAF RL RA VGDI D RGWL VV
Sbjct  6    STGDQVAEAWRRHRPYLVNLAYQMLGDIGDAEDVAQEAFLRLSRAEVGDIKDVRGWLTVV  65

Query  62   TSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGP  121
             SRLCLD ++SA  R ERP D+    +   +    DPADR+TLDDE+R ALL +L RL P
Sbjct  66   ASRLCLDQVRSARARYERPGDV----EERPAPRRSDPADRITLDDEIRSALLEVLRRLSP  121

Query  122  AERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAAS-VEPAQHRVVT  180
             ERV FVLH++FG+P+  IA T+G    TCRQLA RAR K   ++   + V  A+H++VT
Sbjct  122  GERVSFVLHDVFGVPFDSIAETVGRPVGTCRQLARRARAKFVAAQPNMNDVAVAEHQLVT  181

Query  181  RAFIEACSNGDLDTLLEVLDPGVAG-----EIDARKGVVVVGADRVGPTILRH-WSHPAT  234
              FI AC+NGDL  L  VLDP V G        A    V  G D V   +LR+ W  P  
Sbjct  182  EKFITACANGDLAALAAVLDPTVWGVGTILADPAPPPQVNHGPDAVATNLLRYLW--PDV  239

Query  235  VLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPS  278
             LV  PV G P +LAF +R L  V+ L+I   ++TKI  +  PS
Sbjct  240  TLVGGPV-GAPVLLAFSDRRLFAVIVLTIRGARVTKIEAIADPS  282


>gi|41406268|ref|NP_959104.1| RNA polymerase sigma factor SigI [Mycobacterium avium subsp. 
paratuberculosis K-10]
 gi|41394616|gb|AAS02487.1| SigI [Mycobacterium avium subsp. paratuberculosis K-10]
 gi|336457503|gb|EGO36510.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium avium 
subsp. paratuberculosis S397]
Length=285

 Score =  235 bits (599),  Expect = 6e-60, Method: Compositional matrix adjust.
 Identities = 141/284 (50%), Positives = 174/284 (62%), Gaps = 16/284 (5%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVV  61
            S  D V+ AWR HR YLV+LA++M+GDIG AED+ QEAF RL  A  GDIDD RGWL VV
Sbjct  6    SADDQVAEAWRRHRPYLVNLAYQMLGDIGDAEDVAQEAFLRLSAA--GDIDDVRGWLTVV  63

Query  62   TSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGP  121
             SRLCLD ++SA  R ERP D+        +    DPADR+TLDDEVR ALL +L RL P
Sbjct  64   ASRLCLDQLRSARARHERPGDVGE----QPAPPRFDPADRITLDDEVRTALLEVLRRLSP  119

Query  122  AERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIA-ASVEPAQHRVVT  180
             ERV FVLH++FG+P++ IA T+G    TCRQLA RAR K   ++    +V  A+H++VT
Sbjct  120  GERVSFVLHDVFGVPFEAIAQTVGRPVGTCRQLARRARAKFVAAQPKLNTVGAAEHQLVT  179

Query  181  RAFIEACSNGDLDTLLEVLDPGVAG-----EIDARKGVVVVGADRVGPTILRH-WSHPAT  234
              FI AC+NGDL  L  VLDP V G        A    V  G D V   +LR+ W  P  
Sbjct  180  EKFITACANGDLAGLAAVLDPTVWGVGTVLADPAPPPQVNHGPDAVATNLLRYLW--PDV  237

Query  235  VLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPS  278
             LV  P  G P +LAF  R L  V+ LSI   ++ KI  +  P+
Sbjct  238  TLVGGP-AGAPVLLAFSRRRLFAVIVLSIRDARVVKIEAIADPA  280


>gi|118463107|ref|YP_879457.1| RNA polymerase sigma factor SigI [Mycobacterium avium 104]
 gi|118164394|gb|ABK65291.1| RNA polymerase sigma-70 factor [Mycobacterium avium 104]
Length=285

 Score =  234 bits (596),  Expect = 2e-59, Method: Compositional matrix adjust.
 Identities = 141/284 (50%), Positives = 173/284 (61%), Gaps = 16/284 (5%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVV  61
            S  D V+ AWR HR YLV+LA++M+GDIG AED+ QEAF RL  A  GDIDD RGWL VV
Sbjct  6    SADDQVAEAWRRHRPYLVNLAYQMLGDIGDAEDVAQEAFLRLSAA--GDIDDVRGWLTVV  63

Query  62   TSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGP  121
             SRLCLD ++SA  R ERP D+        +    DPADR+TLDDEVR ALL +L RL P
Sbjct  64   ASRLCLDQLRSARARHERPGDVGE----QPAPPRFDPADRITLDDEVRTALLEVLRRLSP  119

Query  122  AERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIA-ASVEPAQHRVVT  180
             ERV FVLH++FG+P++ IA T+G    TCRQLA RAR K   ++    +V  A+H+ VT
Sbjct  120  GERVSFVLHDVFGVPFEAIAQTVGRPVGTCRQLARRARAKFVAAQPKLNTVGAAEHQRVT  179

Query  181  RAFIEACSNGDLDTLLEVLDPGVAG-----EIDARKGVVVVGADRVGPTILRH-WSHPAT  234
              FI AC+NGDL  L  VLDP V G        A    V  G D V   +LR+ W  P  
Sbjct  180  EKFITACANGDLAGLAAVLDPTVWGVGTVLADPAPPPQVNHGPDAVATNLLRYLW--PDV  237

Query  235  VLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPS  278
             LV  P  G P +LAF  R L  V+ LSI   ++ KI  +  P+
Sbjct  238  TLVGGP-AGAPVLLAFSRRRLFAVIVLSIRDARVVKIEAIADPA  280


>gi|254773221|ref|ZP_05214737.1| RNA polymerase sigma factor SigI [Mycobacterium avium subsp. 
avium ATCC 25291]
Length=285

 Score =  233 bits (594),  Expect = 3e-59, Method: Compositional matrix adjust.
 Identities = 141/284 (50%), Positives = 173/284 (61%), Gaps = 16/284 (5%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVV  61
            S  D V+ AWR HR YLV+LA++M+GDIG AED+ QEAF RL  A  GDIDD RGWL VV
Sbjct  6    SADDQVAKAWRRHRPYLVNLAYQMLGDIGDAEDVAQEAFLRLSAA--GDIDDVRGWLTVV  63

Query  62   TSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGP  121
             SRLCLD ++SA  R ERP D+        +    DPADR+TLDDEVR ALL +L RL P
Sbjct  64   ASRLCLDQLRSARARHERPGDVGE----QPAPPRFDPADRITLDDEVRTALLEVLRRLSP  119

Query  122  AERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIA-ASVEPAQHRVVT  180
             ERV FVLH++FG+P++ IA T+G    TCRQLA RAR K   ++    +V  A+H+ VT
Sbjct  120  GERVSFVLHDVFGVPFEAIAHTVGRPVGTCRQLARRARAKFVAAQPKLNAVGAAEHQRVT  179

Query  181  RAFIEACSNGDLDTLLEVLDPGVAG-----EIDARKGVVVVGADRVGPTILRH-WSHPAT  234
              FI AC+NGDL  L  VLDP V G        A    V  G D V   +LR+ W  P  
Sbjct  180  EKFITACANGDLAGLAAVLDPTVWGVGTVLADPAPPPQVNHGPDAVATNLLRYLW--PDV  237

Query  235  VLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPS  278
             LV  P  G P +LAF  R L  V+ LSI   ++ KI  +  P+
Sbjct  238  TLVGGP-AGAPVLLAFSRRRLFAVIVLSIRDARVVKIEAIADPA  280


>gi|296166997|ref|ZP_06849410.1| RNA polymerase sigma-70 factor [Mycobacterium parascrofulaceum 
ATCC BAA-614]
 gi|295897627|gb|EFG77220.1| RNA polymerase sigma-70 factor [Mycobacterium parascrofulaceum 
ATCC BAA-614]
Length=292

 Score =  227 bits (579),  Expect = 1e-57, Method: Compositional matrix adjust.
 Identities = 134/285 (48%), Positives = 175/285 (62%), Gaps = 14/285 (4%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
             S  + V+ AWR HR YLV+LA++M+GD+G AED+ QEAF R  R  +  I+D RGWL V
Sbjct  5    QSGSEQVAEAWRRHRPYLVNLAYQMLGDVGDAEDVAQEAFLRFSRTEIERIEDVRGWLTV  64

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V SRLCLD ++SA  R ERP ++    +  A   S DPADRVTLDDEVR ALL +L RL 
Sbjct  65   VASRLCLDQVRSARVRYERPGEV---QERPAPRRS-DPADRVTLDDEVRTALLEVLRRLS  120

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAAS-VEPAQHRVV  179
            P ERV FVLH++FG+P++ IA T+G    TCRQLA RAR K   ++   + V  A+H++V
Sbjct  121  PGERVAFVLHDVFGVPFESIAETVGRPEGTCRQLARRARAKFVAAQPKTNEVASAEHQLV  180

Query  180  TRAFIEACSNGDLDTLLEVLDPGVAG-----EIDARKGVVVVGADRVGPTILRH-WSHPA  233
            T  FI AC+NGD+  L+ VLDP V G        A    +  G   V   +LR+ W  P 
Sbjct  181  TEKFITACANGDIAGLVAVLDPTVWGVGTILADPAPPPQINHGPQAVATNLLRYLW--PD  238

Query  234  TVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPS  278
              LV+ P  G PA+LAF  R L  V+ L+I   +I K+  +   S
Sbjct  239  VTLVSGP-AGGPALLAFTGRRLFAVIVLTIRGSRIAKLEAIADAS  282


>gi|169630082|ref|YP_001703731.1| RNA polymerase sigma factor SigI [Mycobacterium abscessus ATCC 
19977]
 gi|169242049|emb|CAM63077.1| Possible alternative RNA polymerase SigI [Mycobacterium abscessus]
Length=292

 Score =  221 bits (562),  Expect = 1e-55, Method: Compositional matrix adjust.
 Identities = 133/293 (46%), Positives = 174/293 (60%), Gaps = 25/293 (8%)

Query  2    SQHDP-VSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            S HD  V+AAWR H  YLV+LA++M+GDIG AED VQEAF RL RA   +ID+ R WL V
Sbjct  5    STHDALVTAAWREHYPYLVNLAYQMLGDIGDAEDAVQEAFVRLARAEETEIDEPRAWLSV  64

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASV---SSVDPADRVTLDDEVRLALLIMLE  117
            V  RLCLD ++SA  RRER   +A+  +  A +   +  DPADRVTLDDEVR ALL +L 
Sbjct  65   VVGRLCLDQLRSARMRRER-TGVASVVESAAPLHVPAVTDPADRVTLDDEVRGALLEVLR  123

Query  118  RLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAAS-VEPAQH  176
             L P ERV FVLH++F +P+++IA+T+G    TCRQLA RAR +  +S   ++ V  A+H
Sbjct  124  SLSPGERVAFVLHDVFAVPFEEIASTVGRPVGTCRQLARRARTRFQQSAARSTDVTGAEH  183

Query  177  RVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGP-----------TI  225
            + +   F+ AC+ GDL  L+ VLDPGV        GV  +  D   P           T 
Sbjct  184  QQLIEKFVTACAQGDLTGLMAVLDPGV-------WGVGTILGDPAPPPQVNRGRTDVATN  236

Query  226  LRHWSHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPS  278
            L  +  P   LV  P  GQP +LAF  R L  V+ L++  G + KI     P+
Sbjct  237  LLVYLGPGATLVGGPF-GQPVLLAFTQRRLFAVVTLTVREGLVLKIEATADPA  288


>gi|325675187|ref|ZP_08154872.1| ECF subfamily RNA polymerase sigma-24 factor [Rhodococcus equi 
ATCC 33707]
 gi|325553893|gb|EGD23570.1| ECF subfamily RNA polymerase sigma-24 factor [Rhodococcus equi 
ATCC 33707]
Length=287

 Score =  184 bits (466),  Expect = 2e-44, Method: Compositional matrix adjust.
 Identities = 113/282 (41%), Positives = 165/282 (59%), Gaps = 11/282 (3%)

Query  7    VSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLC  66
            V++ + A R  LV +A+ ++G +  AED+VQEA+ RL R+ + +IDD  GWL+  TSRL 
Sbjct  3    VASEFDALRPRLVGVAYGLLGSVTEAEDVVQEAWIRLQRSNLDEIDDLTGWLVTTTSRLA  62

Query  67   LDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVV  126
            LD ++SA +RRE    +  W   +   ++ DPAD V+L D +  A+L++LE L PAER  
Sbjct  63   LDVLRSARSRRE--SYVGPWLP-EPVETAADPADAVSLADSISWAMLVVLETLAPAERAA  119

Query  127  FVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEA  186
            FVLH++FGL + +I T +G   + CR+LA RAR  I+  +   +++P  HR V  AF EA
Sbjct  120  FVLHDLFGLSFTEIGTALGRNPAACRKLASRARDHIDSRKPRFTIDPTVHRSVVDAFAEA  179

Query  187  CSNGDLDTLLEVLDPGVAGEIDARKGVV------VVGADRVGPTILRHWSH-PATVLVAQ  239
             ++GDL+ LL VLDP      D   G+V      VVGA+ +   +    +  P   + A 
Sbjct  180  ATSGDLEGLLRVLDPNAVLTADG-GGIVRAALEPVVGAEAIAAFLSGIAAQGPHKTMRAT  238

Query  240  PVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLD  281
             V   PA+L FV  AL GV+AL I  G +T I  +  P  L+
Sbjct  239  VVNHNPALLVFVGDALDGVVALGITEGLVTSIDFVRNPQKLN  280


>gi|312138042|ref|YP_004005378.1| sigma-70 factor [Rhodococcus equi 103S]
 gi|311887381|emb|CBH46693.1| putative sigma-70 factor [Rhodococcus equi 103S]
Length=287

 Score =  182 bits (463),  Expect = 4e-44, Method: Compositional matrix adjust.
 Identities = 112/282 (40%), Positives = 165/282 (59%), Gaps = 11/282 (3%)

Query  7    VSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLC  66
            V++ + A R  LV +A+ ++G +  AED+VQEA+ RL R+ + +IDD  GWL+  TSRL 
Sbjct  3    VASEFDALRPRLVGVAYGLLGSVTEAEDVVQEAWIRLQRSNLDEIDDLTGWLVTTTSRLA  62

Query  67   LDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVV  126
            LD ++SA +RRE    +  W   +   ++ DPAD V+L D +  A+L++LE L PAER  
Sbjct  63   LDVLRSARSRRE--SYVGPWLP-EPVETAADPADAVSLADSISWAMLVVLETLAPAERAA  119

Query  127  FVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEA  186
            FVLH++FGL + +I T +G   + CR+LA RAR  I+  +   +++P  HR V  AF EA
Sbjct  120  FVLHDLFGLSFTEIGTALGRNPAACRKLASRARDHIDSRKPRFTIDPTVHRSVVDAFAEA  179

Query  187  CSNGDLDTLLEVLDPGVAGEIDARKGVV------VVGADRVGPTILRHWSH-PATVLVAQ  239
             ++GDL+ LL VLDP      D   G+V      V+GA+ +   +    +  P   + A 
Sbjct  180  ATSGDLEGLLRVLDPNAVLTADG-GGIVRAALEPVLGAEAIAAFLSGIAAQGPHKTMRAT  238

Query  240  PVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLD  281
             V   PA+L FV  AL GV+AL I  G +T I  +  P  L+
Sbjct  239  VVNHNPALLVFVGDALDGVVALGITEGLVTSIDFVRNPQKLN  280


>gi|271968354|ref|YP_003342550.1| ECF subfamily RNA polymerase sigma-24 subunit [Streptosporangium 
roseum DSM 43021]
 gi|270511529|gb|ACZ89807.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Streptosporangium 
roseum DSM 43021]
Length=300

 Score =  182 bits (462),  Expect = 5e-44, Method: Compositional matrix adjust.
 Identities = 113/292 (39%), Positives = 170/292 (59%), Gaps = 12/292 (4%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            ++  + ++  + A R  LV +A+ ++G +  AED+VQ+A+ RL RA   +I D  GWL+V
Sbjct  13   VNSDEDLATEFDAIRPRLVGVAYGLLGSLDEAEDVVQDAWLRLGRADRAEIQDVTGWLVV  72

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
              SRL LD ++SA  RRE  + +  W   +  V+  DPADRVTL + + +A+L++LE L 
Sbjct  73   TVSRLALDVLRSARVRRE--EYVGPWLP-EPVVTEADPADRVTLAESMSMAMLVVLESLS  129

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAER  FVLH++FGLP++++A  +G   + CRQLA RAR+ +        V+  +HR V 
Sbjct  130  PAERTAFVLHDVFGLPFEEVAQAVGRSPAACRQLAARARKHVAARAPRFEVDADEHRRVV  189

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV------VVGADRVGPTI--LRHWSHP  232
             AF  A +  D+D LL +LDP V    D   G+V      V GA RV   I  +      
Sbjct  190  EAFARASTGRDIDALLALLDPDVVLRSDG-GGLVTAARRPVRGAGRVARFIAGVAERFGA  248

Query  233  ATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLR  284
             +      V G+P +L F + AL+GV AL++  G+IT+IH++V P  L  +R
Sbjct  249  GSRFTPIMVNGRPGLLRFRDGALSGVYALTVAGGRITEIHIVVNPEKLRSVR  300


>gi|284042744|ref|YP_003393084.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Conexibacter 
woesei DSM 14684]
 gi|283946965|gb|ADB49709.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Conexibacter 
woesei DSM 14684]
Length=305

 Score =  170 bits (430),  Expect = 3e-40, Method: Compositional matrix adjust.
 Identities = 119/291 (41%), Positives = 162/291 (56%), Gaps = 19/291 (6%)

Query  4    HDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTS  63
             + ++AA+   R YL  LA+  +G    A+D+VQEA+ RL R  V  I D RGWL  V  
Sbjct  6    EEELAAAFEDQRPYLRRLAYGTLGSFAEADDVVQEAWLRLQRTDVEPIRDLRGWLTTVVG  65

Query  64   RLCLDHIKSASTRRERPQDIAAWHDGD--ASVSSVDPADRVTLDDEVRLALLIMLERLGP  121
            RL LD + SA  RRER   +  W        V++ DPADRVTLD++V  ALL++LERL P
Sbjct  66   RLALDALGSARNRRERY--VGPWLPEPLVEDVAAEDPADRVTLDEQVTTALLVVLERLSP  123

Query  122  AERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINES--RIAASVEPAQHRVV  179
            AER  FVLH++FGL + ++A  +G   +  RQLA RARR +++   R  AS E  QH  +
Sbjct  124  AERTAFVLHDVFGLSFAEVAEVVGRSPAAVRQLAARARRHVDDGTPRFPASRE--QHTRI  181

Query  180  TRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVV-----GADRVGPTILRHWSHPAT  234
              AF  A   GD+D LL VLDPGV    D    VV V     GA+RV  T++   +    
Sbjct  182  VAAFAVAWQAGDVDALLAVLDPGVTFRSDGGGNVVAVSRPVDGAERVARTLVALATANVR  241

Query  235  VLVA-----QPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
              VA       V G P +L   +  + GV++L+++ G+I  I V+  P  L
Sbjct  242  RGVAVRGGIVDVNGLPGLLVEEDH-VRGVVSLTVDDGRIVAIDVVRNPEKL  291


>gi|297161730|gb|ADI11442.1| ECF subfamily RNA polymerase sigma factor [Streptomyces bingchenggensis 
BCW-1]
Length=298

 Score =  168 bits (426),  Expect = 8e-40, Method: Compositional matrix adjust.
 Identities = 104/290 (36%), Positives = 161/290 (56%), Gaps = 18/290 (6%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            MS  + ++  +  HR++L  +A+RM+G +  A+D VQE + +L R+ V ++ +  GWL  
Sbjct  1    MSDKELLAQRFEEHRSHLRAVAYRMLGSLNEADDAVQETWLKLSRSDVSEVQNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDG-----DASVSS---VDPADRVTLDDEVRLAL  112
            V  R+CLD ++S S+RRE P  +    DG     D  VS    VDP   + + D V +AL
Sbjct  61   VAGRVCLDMLRSRSSRREEP--LPEQQDGPIRLPDPVVSGPGGVDPEQEMLVADSVGIAL  118

Query  113  LIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVE  172
            +I+L+ L PAER+ FVLH++F +P+ +IA  +G  +++ RQLA RARR++  +  AA  +
Sbjct  119  MIVLQTLAPAERLAFVLHDLFAVPFDEIAPILGRTSASTRQLASRARRRVEGAAPAADTD  178

Query  173  PAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDA---RKGVVVVGADRVGPTILRHW  229
             A+ R V  AF+ A   GD D LL VLDP V    D    R  ++  GA  V    +   
Sbjct  179  LARKREVVDAFLTASRGGDFDALLAVLDPDVVARSDGGTLRPSLLRRGAQDVASQAI---  235

Query  230  SHPATVLVAQPVC--GQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQP  277
            +       A+PV   G P V++     +  V+A +I  G+IT + +L  P
Sbjct  236  TFARIAEAARPVLINGSPGVVSVAEGRVVSVMAFTIRGGRITALDILTDP  285


>gi|256391672|ref|YP_003113236.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Catenulispora 
acidiphila DSM 44928]
 gi|256357898|gb|ACU71395.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Catenulispora 
acidiphila DSM 44928]
Length=300

 Score =  164 bits (415),  Expect = 1e-38, Method: Compositional matrix adjust.
 Identities = 110/288 (39%), Positives = 156/288 (55%), Gaps = 28/288 (9%)

Query  13   AHRAYLVDLAFRMVGDIGVAEDMVQEAFSR---LLRAPVGDIDDERGWLIVVTSRLCLDH  69
            + R +L++LA+R++G +  AED+VQE + R   L RA   +I     WL  V SR+CLD 
Sbjct  12   SERRHLLNLAYRLLGSLADAEDVVQETYVRWYALSRAQQAEIAAPAAWLTTVASRICLDQ  71

Query  70   IKSASTRRER------PQDI---AAWHDGDASVSS--VDPADRVTLDDEVRLALLIMLER  118
            + SA  RRER      P+ +   +AW     SV S   DPADR+TLD+ V +A L++L+ 
Sbjct  72   LGSARARRERYVGQWIPEPLPGRSAW----VSVGSDPGDPADRITLDESVTMAFLVVLDA  127

Query  119  LGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRV  178
            + PAERV FVLH++F  P+ ++   +G  A+ CRQLA  ARR++     A  V  +    
Sbjct  128  MTPAERVAFVLHDVFRYPFAEVGEIVGRSAAACRQLATSARRRVE---TATGVVTSPDAG  184

Query  179  VTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV------VVGADRVGPTILRHWSHP  232
            V RAF  A S GD++ LL VL P      D   GVV      V+G + V          P
Sbjct  185  VVRAFQRAWSAGDIEGLLAVLAPDAVATGDG-GGVVHAAPEPVIGREAVARFFAERSGTP  243

Query  233  ATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
               L    V GQP + A V+ A   VLA +IE G+I+++  ++ P  L
Sbjct  244  GMELAEVEVNGQPGLAARVDGATVSVLAFAIEQGRISRVWAVLNPEKL  291


>gi|111017938|ref|YP_700910.1| sigma factor, includes region 2 [Rhodococcus jostii RHA1]
 gi|110817468|gb|ABG92752.1| probable sigma factor, includes region 2 [Rhodococcus jostii 
RHA1]
Length=292

 Score =  162 bits (411),  Expect = 5e-38, Method: Compositional matrix adjust.
 Identities = 101/284 (36%), Positives = 151/284 (54%), Gaps = 17/284 (5%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M+ +D ++  + AHR +L  +A+RM+G +  AED VQE++ RL R     +++  GWL  
Sbjct  1    MNDNDVLAQQFEAHRTHLRAVAYRMLGSLSEAEDAVQESWLRLSRTDADTVENLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V +R+CL+ ++S  TRRE P D A            DP     L D V LALL++L  L 
Sbjct  61   VVARVCLNMLQSRRTRREDPLDAAVPDPIVTRADGSDPEHEAVLADSVGLALLVVLGTLA  120

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAER+ FVLH++F +P++ IA  +    +  RQLA RARR++  + +    +P + R V 
Sbjct  121  PAERLAFVLHDMFAVPFEDIAPIVERTPAAARQLASRARRRLQGAPV-PDTDPVRQRAVV  179

Query  181  RAFIEACSNGDLDTLLEVLDPGV----------AGEIDARKGVVVVGADRVGPTILRHWS  230
             AF+ A  +GD D L+ VLDP V          AG     +G   V    +G   L  ++
Sbjct  180  DAFLAAARSGDFDALVAVLDPDVVLRADTGAVPAGASTMVRGSATVAGRVLGFARLARFA  239

Query  231  HPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVL  274
            HPA       V G   V+A  +  L  V+ ++I  GKI +I +L
Sbjct  240  HPAL------VNGAAGVVAISDGQLLSVMGVTIRRGKIVEIDIL  277


>gi|345011533|ref|YP_004813887.1| ECF subfamily RNA polymerase sigma-24 subunit [Streptomyces violaceusniger 
Tu 4113]
 gi|344037882|gb|AEM83607.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Streptomyces 
violaceusniger Tu 4113]
Length=290

 Score =  160 bits (405),  Expect = 2e-37, Method: Compositional matrix adjust.
 Identities = 105/276 (39%), Positives = 150/276 (55%), Gaps = 12/276 (4%)

Query  14   HRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHIKSA  73
             R  L  +A+R+ G +  A+D VQE + R    PV ++ D R +L  V SR+C D + SA
Sbjct  10   QRDRLWAVAYRITGSVADADDAVQETWLRWQALPVDEVADPRAYLTTVISRICYDLLGSA  69

Query  74   STRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLHEIF  133
              RRE    I  W   +  V++  P DRVTLD+ V LALL +LERL PAER  F+LH++F
Sbjct  70   RVRRE--AYIGPWLP-EPVVATAGPEDRVTLDESVGLALLTVLERLTPAERTAFILHDVF  126

Query  134  GLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNGDLD  193
             +P+ +IA  +G    + RQLA RAR+++ E     SV+  +HR    AF++A   GD++
Sbjct  127  SVPFPEIAEVVGRSPESVRQLASRARKRVREEAPRRSVDRGEHRRAVDAFLQAVLGGDME  186

Query  194  TLLEVLDPGVAGEID-----ARKGVVVVGADRVGPTI--LRHWSHPATVLVAQPVCGQPA  246
             LLE+LDP V    D     A   V V+G ++V      L     PAT++V +       
Sbjct  187  GLLEILDPEVVWRSDGGGKVAAARVPVLGNEKVARFAQGLARGFDPATMVVHRCAVNDAP  246

Query  247  VLAFVNRAL--AGVLALSIEAGKITKIHVLVQPSTL  280
             L   +R    A V A S+  G IT+I V++ P  L
Sbjct  247  GLVIADRTAGQAVVFAFSVHQGLITEIDVVINPDKL  282


>gi|337763893|emb|CCB72603.1| putative RNA polymerase ECF-subfamily sigma factor [Streptomyces 
cattleya NRRL 8057]
Length=294

 Score =  160 bits (404),  Expect = 3e-37, Method: Compositional matrix adjust.
 Identities = 104/293 (36%), Positives = 156/293 (54%), Gaps = 19/293 (6%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M+    ++  + A R  L  +A+RM+G +  AED VQEA+ +L RA VG + +   WL  
Sbjct  1    MNDETSLAERFEAERPGLRAVAYRMLGSLAEAEDAVQEAWFKLDRADVGGVRNLGAWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQ-DIAAW---HDGDASVSS-VDPADRVTLDDEVRLALLIM  115
            V  R+CLD ++S ++RRE P  +   W    D   + S+ V P + V + D V +AL+++
Sbjct  61   VVGRVCLDMLRSRASRREDPMPEQEGWVRLPDPVVTASARVGPEEEVLVADSVGIALMVV  120

Query  116  LERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQ  175
            LE LGPAERV FVLH++F +P+  IA  +G    + RQLA RARR++  +  AA  +  +
Sbjct  121  LETLGPAERVAFVLHDMFDVPFDDIAPGLGRTVVSTRQLASRARRRVQGATPAADTDNVR  180

Query  176  HRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDA--------RKGVVVVGADRVGPTILR  227
             R V  AF+ A   GD + LL VLDP V    D         R+G   V +  +     R
Sbjct  181  KRGVVDAFLTASRGGDFEALLAVLDPDVVARSDGGALVPSVLRRGAADVASQAI--MFAR  238

Query  228  HWSHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
              +    VL    V G P V+AF +     V++ +I  G++T + +L  P  L
Sbjct  239  FAAEARPVL----VNGTPGVVAFADGRPLSVMSFTIRDGRVTGLDILTDPERL  287


>gi|297559640|ref|YP_003678614.1| ECF subfamily RNA polymerase sigma-24 subunit [Nocardiopsis dassonvillei 
subsp. dassonvillei DSM 43111]
 gi|296844088|gb|ADH66108.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Nocardiopsis 
dassonvillei subsp. dassonvillei DSM 43111]
Length=295

 Score =  160 bits (404),  Expect = 3e-37, Method: Compositional matrix adjust.
 Identities = 105/291 (37%), Positives = 155/291 (54%), Gaps = 15/291 (5%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M + D ++  +  HR +L  +A+RM+G +  A+D VQEA+ RL R+    I +  GWL  
Sbjct  1    MDESDFLAERFEEHRVHLRAVAYRMLGSLAEADDAVQEAWLRLARSDTDGIGNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V  R+CLD ++S + R E P + A   D   S  + DP     + D V LALL++LE L 
Sbjct  61   VVGRVCLDMLRSRTQRGETPLE-ARLPDPIVSEPATDPEHVALMADSVGLALLVVLESLN  119

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAER+ FVLH++FGLP+++IA  +    +  R+LA RAR ++  +      +P   R V 
Sbjct  120  PAERLAFVLHDMFGLPFEEIAPIVDRTPAAARKLASRARVRVRGAAPEPDPDPVAQRRVV  179

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRV--------GPTILRHWSHP  232
             AF+ A   GD D L+ VLDP V   ID   G  + G  RV        G     H    
Sbjct  180  DAFLRAARGGDFDALVAVLDPDVVLRIDG--GNALPGGMRVLRGREAVAGQAATFH--RM  235

Query  233  ATVLVAQP--VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLD  281
            AT+  ++P  V G+  ++  V+ AL  V+  ++  G+IT I +L  P  LD
Sbjct  236  ATLSTSRPALVNGRAGLVNTVDGALFSVMGFTVTDGRITAIEILSDPERLD  286


>gi|337763736|emb|CCB72446.1| putative RNA polymerase ECF-subfamily sigma factor [Streptomyces 
cattleya NRRL 8057]
Length=300

 Score =  159 bits (401),  Expect = 6e-37, Method: Compositional matrix adjust.
 Identities = 92/209 (45%), Positives = 122/209 (59%), Gaps = 2/209 (0%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M+ HD ++A +  HR  L  +A R++G  G AED VQEA+ RL RA    ID   GWL  
Sbjct  1    MNAHDALAADFETHRDRLRAVAHRLLGSHGEAEDAVQEAWLRLARADADAIDTMGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAA-WHDGDASVSSVDPADRVTLDDEVRLALLIMLERL  119
              SR+CLD ++S + RRERP  +     D D  V   DP  R  L D V  A+L++L RL
Sbjct  61   TVSRICLDMLRSRAARRERPAGLPGPEEDRDTGVDG-DPEQRTLLADSVGRAVLVVLVRL  119

Query  120  GPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVV  179
            GPAERV FVLH++F +P+ +IA  +G   +  +QLA RARRK+  +   +  E A+ R V
Sbjct  120  GPAERVAFVLHDMFAVPFGEIAPVVGRSLAAAKQLASRARRKVRGAPAVSGAELARQRGV  179

Query  180  TRAFIEACSNGDLDTLLEVLDPGVAGEID  208
              AF+ A   GDLD +L VL P V    D
Sbjct  180  VEAFLAASRAGDLDAILAVLAPDVVRRAD  208


>gi|269929065|ref|YP_003321386.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Sphaerobacter 
thermophilus DSM 20745]
 gi|269788422|gb|ACZ40564.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Sphaerobacter 
thermophilus DSM 20745]
Length=307

 Score =  158 bits (400),  Expect = 7e-37, Method: Compositional matrix adjust.
 Identities = 100/286 (35%), Positives = 147/286 (52%), Gaps = 24/286 (8%)

Query  10   AWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDH  69
            A+ AHR  L  +A+RM+G +  AEDM+QEAF R LRAP G++   + +L    +RLC+DH
Sbjct  20   AFTAHRPLLFSIAYRMLGSVMDAEDMIQEAFLRWLRAPAGEVASPKAYLTTTITRLCIDH  79

Query  70   IKSASTRRERPQDIAAW-HDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFV  128
            ++SA  RRE  Q +  W  +   + S  D A+     + + LA L+MLERL P ER VF+
Sbjct  80   LRSARVRRE--QYVGPWLPEPLLTASYPDIAETAAQRESISLAFLVMLERLEPVERAVFL  137

Query  129  LHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACS  188
            L E+F   Y +IA  +    + CRQ+  RAR +I + R    V P +   +  AF+ AC+
Sbjct  138  LREVFDYDYAEIAPIVDKTPTNCRQIVRRARERIADERRRVEVPPERQEALIDAFLGACA  197

Query  189  NGDLDTLLEVLDPGVAGEID-------ARKGVVVVGADRVG-------PTILRHWSHPAT  234
            NGDL  LL +L   +    D       AR+   +VGADRV        P I      P T
Sbjct  198  NGDLPGLLTLLADDITMWTDGGPHARAARRP--IVGADRVARFSIGVTPRI-----PPGT  250

Query  235  VLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
                  + GQP V+ +          + +   +I +I +++ P  L
Sbjct  251  TAHHVEINGQPGVVLYAGGEPHTAFVVDLVGDRIHRIWMVLNPDKL  296


>gi|241666621|ref|YP_002984705.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Rhizobium leguminosarum 
bv. trifolii WSM1325]
 gi|240862078|gb|ACS59743.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Rhizobium leguminosarum 
bv. trifolii WSM1325]
Length=289

 Score =  158 bits (400),  Expect = 8e-37, Method: Compositional matrix adjust.
 Identities = 103/284 (37%), Positives = 149/284 (53%), Gaps = 3/284 (1%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M +   ++  + A+RA+L   AFRM+G    AED VQEA+ RL R     + +  GWL  
Sbjct  1    MDEKKWLTEEFEANRAHLRAAAFRMLGSRSEAEDAVQEAWLRLSRTDTTGVGNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V +R+CLD +++  TRRE P ++   H G A  ++ DP       D V LALL++L+ L 
Sbjct  61   VVARICLDMLRARKTRREEPLEVPD-HGGIADPAN-DPEREAAFADSVGLALLVVLQTLA  118

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERV FVLH++F LP+ +IA  IG  ++  RQLA RARR++     A  V+    R + 
Sbjct  119  PAERVAFVLHDMFDLPFDEIAPIIGRSSAATRQLASRARRRVQGVDEAPDVDFGHKRTIA  178

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV-VVGADRVGPTILRHWSHPATVLVAQ  239
             AF+ A  NGDL+ L+ VL P V    DA       +G  R    +   +   A      
Sbjct  179  EAFLTASRNGDLEGLIAVLAPDVVFRPDATAARFGTIGEMRGATDVAEAFKGRAQAAEIA  238

Query  240  PVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPL  283
             V G+   +  +   L  V+AL+I  G+I  I  +  P  L+ L
Sbjct  239  IVGGELGFVVEIQGQLRVVVALTIADGRIAAIDAIADPEHLERL  282


>gi|54022462|ref|YP_116704.1| putative sigma factor [Nocardia farcinica IFM 10152]
 gi|54013970|dbj|BAD55340.1| putative sigma factor [Nocardia farcinica IFM 10152]
Length=293

 Score =  158 bits (399),  Expect = 1e-36, Method: Compositional matrix adjust.
 Identities = 97/275 (36%), Positives = 146/275 (54%), Gaps = 7/275 (2%)

Query  11   WRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHI  70
            +  HR +L  +A+RM+G +  A+D VQEA+ RL R   GD+D+  GWL  V  R+CLD +
Sbjct  11   FEEHRTHLRAVAYRMLGSLSDADDAVQEAWLRLARTETGDVDNLGGWLTTVVGRVCLDML  70

Query  71   KSASTRRERPQDIAAWHDGDASV---SSVDPADRVTLDDEVRLALLIMLERLGPAERVVF  127
            ++  TR E P  +   H  D  +   ++ DP     L D V LALL++LE L PAER+ F
Sbjct  71   RARKTRHEEP--LETEHLPDPVILGENTSDPEHEALLADSVGLALLVVLESLSPAERLAF  128

Query  128  VLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEAC  187
            VLH++F +PY+QIA  +     T ++LA +ARR++     A   +  + R V  AF+ A 
Sbjct  129  VLHDMFAMPYEQIAPIVDRTPQTAKKLASQARRRVQGLTPAPDPDLPRQRRVVDAFLTAA  188

Query  188  SNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP--VCGQP  245
              GD D LL++LDP V    DA + + V+            +   AT+    P  V G  
Sbjct  189  RGGDFDELLQLLDPDVVLRADAGEAMRVIRGAAAVAGQAETFQRMATLCTVHPAVVNGGT  248

Query  246  AVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
             ++  V  A   V+  ++   +IT I +L  P+ L
Sbjct  249  GLVNTVEGAPFSVIGFTVANDRITAIDILSDPTRL  283


>gi|291300793|ref|YP_003512071.1| ECF subfamily RNA polymerase sigma-24 subunit [Stackebrandtia 
nassauensis DSM 44728]
 gi|290570013|gb|ADD42978.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Stackebrandtia 
nassauensis DSM 44728]
Length=292

 Score =  157 bits (398),  Expect = 1e-36, Method: Compositional matrix adjust.
 Identities = 106/289 (37%), Positives = 158/289 (55%), Gaps = 10/289 (3%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M++   ++  ++ HR +L  +A+RM+G +  AED VQEA+ RL R+  G ID+  GWL  
Sbjct  1    MTEQRYLADRFQEHRTHLKAVAYRMLGSLSEAEDAVQEAWLRLARSDDGAIDNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V  R+CLD ++S  +RRE P +     D   +  + DP     + D V LALL++LE L 
Sbjct  61   VVGRVCLDMLRSRRSRRETPLE-TRLPDPVVTDPAADPEHAALIADSVGLALLVVLESLT  119

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAER+ FVLH++FGLP+ +IA  +    +  R+LA RAR ++  S      + A  R   
Sbjct  120  PAERLAFVLHDLFGLPFDEIAPIVDRTPAATRKLASRARGRVRASAPKPDPDRAAQRRAV  179

Query  181  RAFIEACSNGDLDTLLEVLDPGVA--GEIDARKGVVVV-GADRVGPTILRHWSHPATVLV  237
             AF+ A   GD   L+ +LDP V   G+  A   VVV+ G D V    L  +   A + +
Sbjct  180  DAFLSAAREGDFAALVSILDPDVVLRGDTGALPDVVVLRGRDAVAGQ-LETFHRMAAIAI  238

Query  238  AQP--VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQP---STLD  281
             +P  V G    L FV+  L  +++ S+  G+IT+I +L      STLD
Sbjct  239  TRPALVNGTEGQLNFVDGELFSIMSFSVVDGRITEIDILSDAERLSTLD  287


>gi|291435486|ref|ZP_06574876.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672]
 gi|291338381|gb|EFE65337.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672]
Length=297

 Score =  157 bits (398),  Expect = 1e-36, Method: Compositional matrix adjust.
 Identities = 101/291 (35%), Positives = 155/291 (54%), Gaps = 15/291 (5%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            MS  + ++  +  HR +L  +A+RM+G +  AED VQEA+ RL R   G+I +  GWL  
Sbjct  1    MSDEELLAERFEEHRGHLRAVAYRMLGSLTEAEDAVQEAWLRLGRTDPGEIGNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDG-DASVSSVDPADRVTLDDEVRLALLIMLERL  119
            VT R+CLD ++S + RRE+P D     D     +   DP       D V +ALL++L+RL
Sbjct  61   VTGRICLDLLRSRTARREQPMDETFVPDPVIRPLPRTDPEQEALRADSVGVALLVVLDRL  120

Query  120  GPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVV  179
             P ER+ FVLH++F +P+  IA  +G  A+  RQLA RARR++ ++  ++  +P + +  
Sbjct  121  APDERLAFVLHDMFAVPFDDIAPVVGRTAAATRQLAGRARRRVRDATPSSEPDPGRQKEA  180

Query  180  TRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQ  239
              AF+ A   GD + L+ VL P V    DA  G +V GA   G   LR     A   +  
Sbjct  181  LDAFMAAARGGDFEALVAVLHPDVVLRADA--GALVRGA--AGSKTLRGAKPVAESALLF  236

Query  240  PVCGQPAVLAFVNRALA----------GVLALSIEAGKITKIHVLVQPSTL  280
                  A +A VN A+            V+++++  G+IT +++L  P  L
Sbjct  237  ARYTAAARMALVNDAIGLVSVVEGRIRSVMSVTVTDGRITGLYILADPERL  287


>gi|190895555|ref|YP_001985847.1| RNA polymerase sigma factor protein [Rhizobium etli CIAT 652]
 gi|190699500|gb|ACE93584.1| probable RNA polymerase sigma factor protein [Rhizobium etli 
CIAT 652]
Length=288

 Score =  157 bits (398),  Expect = 1e-36, Method: Compositional matrix adjust.
 Identities = 99/283 (35%), Positives = 149/283 (53%), Gaps = 2/283 (0%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M +   ++  + A+RA+L   AFRM+G    AED VQEA+ RL R     I +  GWL  
Sbjct  1    MDEKKWLADEFEANRAHLRTAAFRMLGSRSEAEDAVQEAWLRLNRTDATGIGNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V +R+CLD +++  +RRE P ++   H   A  +  DP       D V LALL++L+ L 
Sbjct  61   VVARICLDMLRARKSRREEPLEMP-MHAAVADPAG-DPEREAAFADSVGLALLVVLQTLA  118

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERV FVLH++F LP+ +IA  IG  ++  RQLA RARR++  +     V+  + R + 
Sbjct  119  PAERVAFVLHDMFDLPFDEIAPIIGRSSAAARQLASRARRRVQGTDETPDVDLGRKRTIA  178

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240
             AF+ A  NGDL+ L+ VL P V    DA      +GA R    +   +   A       
Sbjct  179  AAFLTASRNGDLEALIAVLAPDVVFRPDATAARYGIGATRGATDVAAAFKGRAQAAEMAI  238

Query  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPL  283
            V G+   +  ++  +   + L+I+ G+I  I  +  P  L+ L
Sbjct  239  VDGELGFVVHIDGQIRVAVTLTIDEGRIVAIDAVADPDQLERL  281


>gi|327190872|gb|EGE57933.1| putative RNA polymerase sigma factor protein [Rhizobium etli 
CNPAF512]
Length=288

 Score =  157 bits (397),  Expect = 2e-36, Method: Compositional matrix adjust.
 Identities = 100/283 (36%), Positives = 149/283 (53%), Gaps = 2/283 (0%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M +   ++  + A+RA+L   AFRM+G    AED VQEA+ RL R     I +  GWL  
Sbjct  1    MDEKKWLADEFEANRAHLRAAAFRMLGSRSEAEDAVQEAWLRLNRTDATGIGNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V +R+CLD +++  +RRE P ++   H   A  +  DP       D V LALL++L+ L 
Sbjct  61   VVARICLDMLRARKSRREEPLEMP-MHAAVADPAG-DPEREAAFADSVGLALLVVLQTLA  118

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERV FVLH++F LP+ +IA  IG  ++  RQLA RARR++  +     V+  + R + 
Sbjct  119  PAERVAFVLHDMFDLPFDEIAPIIGRSSAAVRQLASRARRRVQGTDETPDVDLGRKRTIA  178

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP  240
             AF+ A  NGDL+ L+ VL P V    DA      +GA R    +   +   A       
Sbjct  179  AAFLTASRNGDLEALIAVLAPDVVFRPDATAARYGIGAMRGATDVAAAFKGRAQAAEMAI  238

Query  241  VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPL  283
            V G+   +  ++  +   + L+I+ GKI  I  +  P  L+ L
Sbjct  239  VDGELGFVVHIDGQIRVAVTLTIDEGKIVAIDAVADPDQLERL  281


>gi|29833966|ref|NP_828600.1| ECF subfamily RNA polymerase sigma factor [Streptomyces avermitilis 
MA-4680]
 gi|29611091|dbj|BAC75135.1| putative RNA polymerase ECF-subfamily sigma factor [Streptomyces 
avermitilis MA-4680]
Length=322

 Score =  157 bits (396),  Expect = 2e-36, Method: Compositional matrix adjust.
 Identities = 101/289 (35%), Positives = 158/289 (55%), Gaps = 12/289 (4%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            MS+ D ++  +  HR +L  +A+RM+G +  A+D VQE + +L  A V ++ +  GWL  
Sbjct  29   MSESDLLAGRFEEHRRHLRAVAYRMLGSLSEADDAVQETWLKLSHADVSEVRNLAGWLTT  88

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V SR+CL+ ++S ++RRE P D        +S+  +DP   V L D V LALL++LE L 
Sbjct  89   VVSRVCLNMLRSRASRREEPMDTFVPDPVVSSLERIDPEQEVLLADSVGLALLVVLETLE  148

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAER+ FVLH++F +P+  IA  +   ++  RQLA RARR++  S  A   +  + + V 
Sbjct  149  PAERLAFVLHDMFAVPFDDIAPIVDRSSAATRQLASRARRRVQGSAPAPDPDLGRQKQVL  208

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDA---RKGV----VVVGADRVGPT--ILRHWSH  231
             AF+ A   GD + LL VLDP V    DA     GV    +V GA  V     + R  + 
Sbjct  209  DAFLAASRGGDFEALLSVLDPDVVLRADAGALAGGVAVSKLVRGAAAVAEQALMFRQLAQ  268

Query  232  PATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
             + +++   V G   V+  ++    GV+ +++  G+I  I +L  P  L
Sbjct  269  FSRLVL---VNGAVGVVTVLDGQPMGVMGVTVADGRIVDICILSDPDRL  314


>gi|116255619|ref|YP_771452.1| putative alternative RNA polymerase sigma factor [Rhizobium leguminosarum 
bv. viciae 3841]
 gi|115260267|emb|CAK03371.1| putative alternative RNA polymerase sigma factor [Rhizobium leguminosarum 
bv. viciae 3841]
Length=289

 Score =  156 bits (395),  Expect = 3e-36, Method: Compositional matrix adjust.
 Identities = 103/284 (37%), Positives = 150/284 (53%), Gaps = 3/284 (1%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M +   ++  + A+RA+L   A+RM+G    AED VQEA+ RL R     + +  GWL  
Sbjct  1    MDEKKWLADEFEANRAHLRAAAYRMLGSRSEAEDAVQEAWLRLSRTDTTGVGNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V +R+CLD +++  TRRE P + A  H G A  ++ DP       D V LALL++L+ L 
Sbjct  61   VVARICLDMLRARKTRREEPLE-APIHAGIADPAN-DPEREAAFADSVGLALLVVLQTLA  118

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERV FVLH++F LP+ +IA  IG  ++  RQLA RARR++     A  V+  + R + 
Sbjct  119  PAERVAFVLHDMFDLPFDEIAPIIGRSSAATRQLASRARRRVQGVDEAPDVDFGRKRTIA  178

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV-VVGADRVGPTILRHWSHPATVLVAQ  239
             AF+ A  NGDL+ L+ VL P V    DA       +G  R    +   +   A      
Sbjct  179  EAFLTASRNGDLERLIAVLAPDVVFRPDATAARFGTIGEMRGAAHVAEAFKGRAQAAEIA  238

Query  240  PVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPL  283
             V G+   +  +   L  V+AL+I  G+I  I  +  P  L+ L
Sbjct  239  IVGGELGFVVEIQGQLRVVVALTIADGRIAAIDAIADPDHLERL  282


>gi|117164605|emb|CAJ88151.1| putative sigma factor [Streptomyces ambofaciens ATCC 23877]
Length=311

 Score =  156 bits (394),  Expect = 4e-36, Method: Compositional matrix adjust.
 Identities = 102/300 (34%), Positives = 159/300 (53%), Gaps = 21/300 (7%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSR---LLRAPVGDIDDERGWL  58
            ++ +P  +   + R  L +LA+R++G +  AED+VQE ++R   + R     I    GWL
Sbjct  10   TRTEPSLSVIMSERRRLTNLAYRLLGSLADAEDVVQETYARWYGMSREQQEGIRSPGGWL  69

Query  59   IVVTSRLCLDHIKSASTRRER------PQ---DIAAWHDGDASVSSVDPADRVTLDDEVR  109
              V  R+CLD + SA  RRER      P+   D A W  G A  ++ DPADRVTLD+ V 
Sbjct  70   TKVAGRICLDQLGSARARRERYVGEWIPEPLPDRAEWSGGRAGGTASDPADRVTLDESVS  129

Query  110  LALLIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAA  169
            +A L+ML+ + PAERV F+LH++FG P+ ++A  +G   + CRQLA  ARR++  S ++ 
Sbjct  130  MAFLVMLDAMTPAERVAFILHDVFGYPFAEVAEIVGRTPAACRQLASVARRRLRGSEVSV  189

Query  170  SVEPAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV------VVGADRVGP  223
                 Q  +V R F  A    D++ L+++LDP   G  D   G+V      VVG +R+  
Sbjct  190  PRAARQADLV-RDFKLAWEAKDIEALIDLLDPDATGVADG-GGLVDAAPRPVVGNERIAR  247

Query  224  TILRHWSHPATV-LVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDP  282
             ++   +  A + +V + V G P ++       A V+A  +   +I     +  P  L P
Sbjct  248  YLIDVTATAADLTIVERTVNGLPGLVVERGGRTAVVMAFEVAGDRIRNFWAVTNPEKLRP  307


>gi|54023594|ref|YP_117836.1| putative sigma factor [Nocardia farcinica IFM 10152]
 gi|54015102|dbj|BAD56472.1| putative sigma factor [Nocardia farcinica IFM 10152]
Length=312

 Score =  155 bits (393),  Expect = 6e-36, Method: Compositional matrix adjust.
 Identities = 109/299 (37%), Positives = 152/299 (51%), Gaps = 23/299 (7%)

Query  1    MSQHDPVSAA--------WRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLR--APVGD  50
            M+  DP +A         +  HR YL  LA+  +G +  AED+VQEA+ RL R     G+
Sbjct  1    MTSFDPDAAPDTAELARRFEEHRPYLRRLAYSTLGSLSDAEDVVQEAWLRLQRHRQTAGE  60

Query  51   IDDERGWLIVVTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRL  110
            I++ R WL  VT RL LDH+ SA  RRE  Q +  W       +  DPADR+  D+ V  
Sbjct  61   IENLRAWLTTVTGRLALDHLGSARARRE--QYVGEWLPEPEVSTWDDPADRIAQDERVTT  118

Query  111  ALLIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAAS  170
            ALL++LE L PAER  FVL E+FG+   ++A  +G   +  RQLA RAR+ + +      
Sbjct  119  ALLVVLESLSPAERTAFVLQEVFGMSSPEVAEVVGRTPAAVRQLASRARKHVEQGTPRFP  178

Query  171  VEPAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGV-----VVVGADRVGPTI  225
              P + + V  AF  A  +GDL  LL VLD  V    D    V      V GA+ V   +
Sbjct  179  ASPDEQQKVVSAFALAWRSGDLGALLGVLDDKVTLTADGGGKVPAIRQAVRGAELVAKLL  238

Query  226  LRHW----SHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
            L  +    + PA       V G+P +L F +    GV A +++AG+I  I ++  P  L
Sbjct  239  LGWYQVQSNRPAWGRFVL-VNGEPGLLVF-DGTHTGVFAFTVDAGRIVAIDIVRNPDKL  295


>gi|260905992|ref|ZP_05914314.1| RNA polymerase, sigma-24 subunit, ECF subfamily protein [Brevibacterium 
linens BL2]
Length=325

 Score =  155 bits (392),  Expect = 8e-36, Method: Compositional matrix adjust.
 Identities = 106/305 (35%), Positives = 155/305 (51%), Gaps = 35/305 (11%)

Query  12   RAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD---IDDERGWLIVVTSRLCLD  68
            +  R  L+ +A+ ++G    AED VQEA+ R  R P  +   I     WL  V +R+CLD
Sbjct  22   QGERLRLLSVAYNLLGSASDAEDAVQEAYLRWYRQPPSERNAIKTPGAWLTKVVTRICLD  81

Query  69   HIKSASTRRE------RPQDIAAWH---DGDASVSSVDPADRVTLDDEVRLALLIMLERL  119
             ++SA  RRE       P+ I A+       +  +S DPADR++LD+ V +ALLI+L+++
Sbjct  82   QLRSARKRREVYVGEWLPEPIPAFDVRVAEPSGTTSADPADRISLDESVSMALLIVLDKM  141

Query  120  GPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVV  179
             PAERV FVLH++F   + +IA  +G     CRQLA  AR++  +S  +  VE  +HR V
Sbjct  142  SPAERVSFVLHDVFQYSFAEIAEIVGRTPHACRQLASSARKRA-KSATSGRVEQDEHRRV  200

Query  180  TRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV------VVGADRVGPTILRHWSHPA  233
             +AF EA   G L  LL VLDP V    D   G+V      +VGA++V            
Sbjct  201  NQAFKEAWQQGSLTKLLNVLDPSVTAVTDG-GGIVSAAIDPMVGAEQVAAFF-------K  252

Query  234  TVLVAQP--------VCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRA  285
             V++ QP        V  QP ++   +  +  V+A  I   +I+ I  +  P  L     
Sbjct  253  AVMIKQPDLIVSEAVVNYQPGLIGSSHGRVIAVVATQITGTRISNIWAVRNPEKLHLWHN  312

Query  286  ELGGG  290
            EL  G
Sbjct  313  ELSEG  317


>gi|284028234|ref|YP_003378165.1| ECF subfamily RNA polymerase sigma-24 subunit [Kribbella flavida 
DSM 17836]
 gi|283807527|gb|ADB29366.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Kribbella flavida 
DSM 17836]
Length=289

 Score =  155 bits (391),  Expect = 8e-36, Method: Compositional matrix adjust.
 Identities = 106/291 (37%), Positives = 157/291 (54%), Gaps = 14/291 (4%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M+Q D ++  +  +R +L  +A+RM+G +  AED VQEA+ RL R+   +I +  GWL  
Sbjct  1    MNQDD-LARQFEQNRRHLRAVAYRMLGSLSEAEDAVQEAWLRLSRSDSSEIANLGGWLTT  59

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V SR+CLD +++  +RRE P D    +  D  VS +DP +     D V LA+L++LE L 
Sbjct  60   VVSRVCLDMLRARKSRREDPYDT---YVPDPVVSRLDPEEEAVQTDSVGLAMLVVLETLK  116

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAER+ FVLH++FG+ + +IA  +    +  RQLA RARR++  +  +      + R V 
Sbjct  117  PAERLAFVLHDLFGVSFDEIAPIVDKTPAATRQLASRARRRVQGAPTSDG-NLGRQREVV  175

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDA--------RKGVVVVGADRVGPTILRHWSHP  232
             AF+ A  +GD D LL VLDP V    DA            +V GA  V    L      
Sbjct  176  EAFLAASRSGDFDGLLAVLDPDVVLRADAGAVPATGLATSRLVRGAKTVVEQALLFGRLS  235

Query  233  ATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPL  283
                VA  V G P ++  V+  L GV++  I  G+I +I++L   S L+ L
Sbjct  236  PHAQVAT-VNGAPGLVTVVDGRLLGVMSPEIRDGRIVEINILADLSRLESL  285


>gi|260905994|ref|ZP_05914316.1| putative sigma factor [Brevibacterium linens BL2]
Length=307

 Score =  155 bits (391),  Expect = 9e-36, Method: Compositional matrix adjust.
 Identities = 97/285 (35%), Positives = 150/285 (53%), Gaps = 20/285 (7%)

Query  14   HRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLR---APVGDIDDERGWLIVVTSRLCLDHI  70
             R+ L+ L +R++G +  AED VQ+ + R  R   +   D+   R WLI   SR+C D +
Sbjct  21   ERSILLGLCYRLLGSLSDAEDAVQDTYIRWYRLEDSAREDVRSPRAWLITTASRICFDLL  80

Query  71   KSASTRRER------PQ---DIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGP  121
             SA  RRE       P+   D +AW    +S +S+DPADRV++D+ V +ALL++LE + P
Sbjct  81   GSARVRRELYVGEWLPEPIPDPSAWTSS-SSQASIDPADRVSMDESVSMALLVVLESMTP  139

Query  122  AERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTR  181
            AERV FVLH++F   + ++A  +G     CRQLA  AR++I +SR  A V   +H  V R
Sbjct  140  AERVAFVLHDVFRFTFAEVAEIVGRSPVACRQLASSARKRIRDSRQIA-VPSEEHAAVVR  198

Query  182  AFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHW------SHPATV  235
            +F  A S GD+  L+E+LDP V    D    V        GP  +  +        P   
Sbjct  199  SFKNAWSEGDIGGLIELLDPNVTAVTDGGGLVSAALEPLYGPEAVARFFIGAFGRQPGLH  258

Query  236  LVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
            +  Q V G+  ++A     +  V+++++ +G +  I  +  P  L
Sbjct  259  IEEQVVNGEAGLVATSEGKIVAVISVNVSSGMVDHIWAVRNPEKL  303


>gi|209546187|ref|YP_002278077.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Rhizobium leguminosarum 
bv. trifolii WSM2304]
 gi|209539044|gb|ACI58977.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Rhizobium leguminosarum 
bv. trifolii WSM2304]
Length=289

 Score =  154 bits (390),  Expect = 1e-35, Method: Compositional matrix adjust.
 Identities = 102/282 (37%), Positives = 150/282 (54%), Gaps = 3/282 (1%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M++   ++  + A+RA+L   A+RM+G    AED VQEA+ RL RA   DI +  GWL  
Sbjct  1    MNEKKWLADQFEANRAHLRAAAYRMLGSRSEAEDAVQEAWLRLNRADTTDIGNLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLG  120
            V +R+CLD +++  TRRE+P ++   H   A  +  DP       + V +ALL++L+ L 
Sbjct  61   VVARICLDMLRARKTRREQPLEMPV-HAAIADPAH-DPERDAAFAESVGVALLVVLQTLA  118

Query  121  PAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVT  180
            PAERV FVLH++F LP+ +IA  IG  ++  RQLA RARR++  +  A  V+  + R + 
Sbjct  119  PAERVAFVLHDMFDLPFDEIAPIIGRTSAAARQLASRARRRVQGTDEAPDVDFGRKRTIA  178

Query  181  RAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV-VVGADRVGPTILRHWSHPATVLVAQ  239
             AF+ A   GDL+ LL VL P V    DA        G  R    +   +   A    A 
Sbjct  179  EAFLTASRIGDLEALLAVLAPDVVFRPDATAARFGPFGGRRGASEVAELFKGRAQAAEAA  238

Query  240  PVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLD  281
             V G+   +  +   L  V+ L+I  GK+T I     P  L+
Sbjct  239  LVDGEVGFIVRIKGELRVVVTLTIVDGKVTVIEAFADPDYLE  280


>gi|134098509|ref|YP_001104170.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea 
NRRL 2338]
 gi|291003275|ref|ZP_06561248.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea 
NRRL 2338]
 gi|133911132|emb|CAM01245.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea 
NRRL 2338]
Length=306

 Score =  154 bits (390),  Expect = 1e-35, Method: Compositional matrix adjust.
 Identities = 111/306 (37%), Positives = 158/306 (52%), Gaps = 24/306 (7%)

Query  1    MSQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIV  60
            M +++ ++  + AHRA+L  +A+RM+G    AED VQEA+ RL R+   ++ +  GWL  
Sbjct  1    MDENEFLADRFEAHRAHLRAVAYRMLGSHAEAEDAVQEAWLRLSRSDTSEVANLGGWLTT  60

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPA---DRVTLDDEVRLALLIMLE  117
            V  R+CLD ++S  +RRE P+ +   H  D      DPA    +  L D V  ALL++L+
Sbjct  61   VVGRVCLDVLRSRKSRREDPRGV---HLPDEVAGGRDPATPEQQAVLADSVGQALLVVLD  117

Query  118  RLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASV-----E  172
             L PAER+ FVLH++F +PY +IA  +G   +  RQLA RARR++  +  A        +
Sbjct  118  TLEPAERLAFVLHDMFAVPYDEIAPVVGRSTAAARQLASRARRRVQGTSPAGGAGTTEGD  177

Query  173  PAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRV-GPTIL----R  227
             A+ R V  AF+ A   GDLD LL VLDP V    D    V   GA R  G  +L    R
Sbjct  178  AARRREVVDAFLTAARGGDLDALLAVLDPDVVLRADP-AAVETAGASRAHGAPLLAGEIR  236

Query  228  HWSHPATVLVAQPVCGQPAVLAFVNRALAG-------VLALSIEAGKITKIHVLVQPSTL  280
              S  A     +    QPA++  V  A          V   ++E G+I  I V+  P+ L
Sbjct  237  GASAVADTFSGRARGAQPALVDGVLAATYAPGGTPRVVFGFAVEDGRIVGIDVIADPARL  296

Query  281  DPLRAE  286
              L  E
Sbjct  297  AELDVE  302


>gi|111223115|ref|YP_713909.1| RNA polymerase ECF-subfamily sigma factor [Frankia alni ACN14a]
 gi|111150647|emb|CAJ62348.1| putative RNA polymerase ECF-subfamily sigma factor [Frankia alni 
ACN14a]
Length=328

 Score =  154 bits (389),  Expect = 2e-35, Method: Compositional matrix adjust.
 Identities = 105/295 (36%), Positives = 151/295 (52%), Gaps = 20/295 (6%)

Query  7    VSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLC  66
            ++A + AHR  L  +A+RM+G +  A+D VQEA+ RL RA    + +  GWL  V  R+C
Sbjct  38   LAARFEAHRGQLRAVAYRMLGSLTEADDAVQEAWLRLSRADSDAVTNLGGWLTTVVGRVC  97

Query  67   LDHIKSASTRRERP-QDIAAWHDGDAS-VSSVDPADRVTLDDEVRLALLIMLERLGPAER  124
            LD ++S + RRE P  D+    D   S    VDPA +  + D V LALL++LE LGPAER
Sbjct  98   LDMLRSRTARREDPLDDVVRLPDPVVSHADGVDPAQQALIADAVGLALLVVLETLGPAER  157

Query  125  VVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFI  184
            + FVLH++F +P+  IA  +G   +  RQLA RARR++  +   + V+  + R V  AF+
Sbjct  158  LAFVLHDMFAVPFDDIAPIVGRSPAATRQLASRARRRVQGAPATSEVDLVRQRAVVDAFL  217

Query  185  EACSNGDLDTLLEVLDPGV------------AGEIDARKGVVVVGADRVGPTILRHWSHP  232
             A   GD D L+ VLDP V            A    + +G   V A  +        + P
Sbjct  218  AAARGGDFDALVAVLDPDVVLRADRGAAGMGAAGSGSTRGAHAVAARALSFRRFGRAARP  277

Query  233  ATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAEL  287
            A V     +    A   F       V+  +I  G+IT+I +L  P  L  L  +L
Sbjct  278  ALVNGTAGLVTMNAGRPF------AVMGFTISGGRITEIDILADPDRLRTLDLDL  326


>gi|302535941|ref|ZP_07288283.1| sigma factor [Streptomyces sp. C]
 gi|302444836|gb|EFL16652.1| sigma factor [Streptomyces sp. C]
Length=315

 Score =  154 bits (388),  Expect = 2e-35, Method: Compositional matrix adjust.
 Identities = 99/281 (36%), Positives = 152/281 (55%), Gaps = 10/281 (3%)

Query  13   AHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHIKS  72
            AHR  L  +A+ M+G    AED++QE + R ++  +G ++D R +L+ VT+R  L+ +++
Sbjct  32   AHRNLLFTVAYEMLGSASDAEDVLQETWLRWVKVDLGQVEDRRAYLVRVTTRQSLNRLRA  91

Query  73   ASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLHEI  132
             S R+E    +  W   +  +++ D A  V L + V +A++++LE L P ER VFVL E 
Sbjct  92   MSRRKE--SYVGEWLP-EPLLTAPDVAQDVELAESVSMAMMLVLETLSPTERAVFVLREA  148

Query  133  FGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNGDL  192
            F + Y +IA  +    +  RQ+AHRARR ++  R   +V  +Q R V  +F  A  +GDL
Sbjct  149  FDVGYDEIAAAVDKTPAAVRQIAHRARRHVDARRPRQTVSASQTRAVMESFRRALDSGDL  208

Query  193  DTLLEVLDP-----GVAGEIDARKGVVVVGADRVGPTILRHWSHPATVLVAQP--VCGQP  245
              LL+VL P     G  G I       V GAD+VG  I+      A      P  V G P
Sbjct  209  QGLLDVLAPDVVLVGDGGGIKQAALRPVTGADKVGRFIIGGVGKRADRFAITPTVVNGSP  268

Query  246  AVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAE  286
            A+LA ++  L GV+A  +E G+I  I+ +  P  L  + AE
Sbjct  269  ALLAHLDGELDGVMAFHVEDGRIAGIYFVRNPEKLGAVAAE  309


>gi|254381494|ref|ZP_04996858.1| RNA polymerase ECF-subfamily sigma factor [Streptomyces sp. Mg1]
 gi|194340403|gb|EDX21369.1| RNA polymerase ECF-subfamily sigma factor [Streptomyces sp. Mg1]
Length=301

 Score =  153 bits (387),  Expect = 2e-35, Method: Compositional matrix adjust.
 Identities = 101/296 (35%), Positives = 148/296 (50%), Gaps = 30/296 (10%)

Query  13   AHRAYLVDLAFRMVGDIGVAEDMVQEAFSR---LLRAPVGDIDDERGWLIVVTSRLCLDH  69
              R  L++LA+R++G +  AED VQE +SR   + R     I+    WL  V SR+CLD 
Sbjct  4    GERRQLINLAYRLLGSLADAEDAVQETYSRWYAMSRKQQEAIESPGAWLTTVASRVCLDV  63

Query  70   IKSASTRRERPQDIAAW-----------------HDGDASVSSVDPADRVTLDDEVRLAL  112
            + SA  RRER   +  W                  DG  S  S DPADR+TLD+ V LA 
Sbjct  64   LGSARARRERY--VGTWIPEPLPNRSERVVGRADDDGTGSADSADPADRITLDESVSLAF  121

Query  113  LIMLERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESR--IAAS  170
            L++LE + PAERV F+LH++F  P+ ++A  +G   + CRQLA   RR+I   R   A +
Sbjct  122  LVVLESMTPAERVAFILHDVFRYPFAEVAEIVGRSPAACRQLASSGRRRIRAERATAAPA  181

Query  171  VEPAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVV-----GADRVGPTI  225
              PA    + R F EA  N D++ L+ +LDPG     D    V  V     GA+ +   +
Sbjct  182  GGPAGQAGLVRNFKEAWENKDIEALVGLLDPGAIMTADGGGMVGTVLHPVEGAEDIAAYL  241

Query  226  LR-HWSHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
            +      P   L  + V G+P ++A        V A+ +  G++++I  +  P  L
Sbjct  242  IHIAGKAPGLTLAERTVNGRPGLVALYGGVAVTVAAIDLTDGRVSRIWAVRNPEKL  297


>gi|312196886|ref|YP_004016947.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Frankia sp. 
EuI1c]
 gi|311228222|gb|ADP81077.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Frankia sp. 
EuI1c]
Length=319

 Score =  153 bits (387),  Expect = 2e-35, Method: Compositional matrix adjust.
 Identities = 109/300 (37%), Positives = 166/300 (56%), Gaps = 32/300 (10%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD-IDDERGWLIV  60
            +  + ++ A++A R  LV +A+ ++G  G AED+V + + RL+     + I D   W +V
Sbjct  3    ADEEALAVAFQAARPRLVRVAYAILGSRGDAEDVVADCWLRLVAHHREEPIRDPEAWAVV  62

Query  61   VTSRLCLDHIKSASTRRERPQDIAAWHDGDASVSSV-----DPADRVTLDDEVRLALLIM  115
              SR+ +D ++SA  RRER   +  W   +  +++V     DPADRVTLDDEV  ALL++
Sbjct  63   TVSRMAVDVLRSARVRRER--YVGPWLP-EPVLTTVAPDQGDPADRVTLDDEVSYALLVV  119

Query  116  LERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQ  175
            LE L PAER  FVLH++FGLP+ ++A  +G   ++ RQLA RARR +++      V+PA+
Sbjct  120  LETLTPAERTAFVLHDLFGLPFPEVADIVGRTPASVRQLASRARRHVHDRAGRPVVDPAE  179

Query  176  HRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVV-----VVGADRVGPTILRHWS  230
            HR V  AF  A  +GDL TL+ VLDP V    D    V      + GAD+V   +L    
Sbjct  180  HRRVVEAFAAAAGSGDLGTLIAVLDPEVVLVSDGGGFVTAARRPIHGADKVARFVLG---  236

Query  231  HPATVLVAQPVCGQPAVLAFVNRA----------LAGVLALSIEAGKITKIHVLVQPSTL  280
                 ++A+   G    L  VN A          L  V+AL++  G++ ++ ++V P  L
Sbjct  237  -----VLAKGQLGSEIELVRVNGAPGFAVHEAGRLVAVVALTVAGGRVARLDLVVAPDKL  291


>gi|284046577|ref|YP_003396917.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Conexibacter 
woesei DSM 14684]
 gi|283950798|gb|ADB53542.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Conexibacter 
woesei DSM 14684]
Length=280

 Score =  153 bits (387),  Expect = 3e-35, Method: Compositional matrix adjust.
 Identities = 104/277 (38%), Positives = 143/277 (52%), Gaps = 21/277 (7%)

Query  15   RAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHIKSAS  74
            R  L+ LA+  +GD+G AED+VQEA+ RL R     I++  GWL  V +RL LD ++SA 
Sbjct  11   RPRLLRLAYSELGDLGEAEDVVQEAWLRLERVDAETIENLDGWLTTVVARLALDRLRSAR  70

Query  75   TRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLHEIFG  134
             RRE    +  W      V S DPADRVTLD+ V  ALL +LE+L PAER  FVLHE+F 
Sbjct  71   ARRE--MYVGPWLP--EPVVSEDPADRVTLDESVSYALLTVLEQLSPAERTAFVLHEVFD  126

Query  135  LPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNGDLDT  194
            +P+  +A  +G      RQLA RARR +   R   +    +H    RAF +A + GDL  
Sbjct  127  VPFGDVAEVVGRTPEAVRQLASRARRHVQRERPRFAASRDEHDRAVRAFAQAVTEGDLGD  186

Query  195  LLEVLDPGVAGEID-------ARKGVVVVGADRVGPTILRHWSHPATVLVAQPV----CG  243
            L+ VLDP V    D       ARK   + G+ RV     R W+  +     +P+     G
Sbjct  187  LVAVLDPDVVWTSDGGGHATAARKP--LFGSSRVA----RAWAALSRKSAQEPIETELNG  240

Query  244  QPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
            +  ++          L   +  G+IT+I  +  P  L
Sbjct  241  RLGLVLPSGDGQRAALLFVVSDGRITRIDAIRNPEKL  277


>gi|302547996|ref|ZP_07300338.1| RNA polymerase sigma-70 factor, ECF subfamily [Streptomyces hygroscopicus 
ATCC 53653]
 gi|302465614|gb|EFL28707.1| RNA polymerase sigma-70 factor, ECF subfamily [Streptomyces himastatinicus 
ATCC 53653]
Length=290

 Score =  152 bits (385),  Expect = 5e-35, Method: Compositional matrix adjust.
 Identities = 103/282 (37%), Positives = 148/282 (53%), Gaps = 14/282 (4%)

Query  9    AAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLD  68
            A +   R  L  +A+R+ G +  A+D VQE + R    P  ++ D R +L  V SR+C D
Sbjct  5    AEFEQQRDRLWAVAYRITGSVADADDAVQETWLRWQALPGDEVADPRAYLTTVVSRICYD  64

Query  69   HIKSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFV  128
             + SA  RRE    I  W   +  V+   P DRVTLD+ V LALL +LERL PAER  F+
Sbjct  65   LLGSARVRRE--AYIGPWLP-EPVVAGDGPEDRVTLDESVGLALLTVLERLTPAERTAFI  121

Query  129  LHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACS  188
            LH++F +P+ +IA  +G      RQLA R R+++       SV+  +HR    AF+ A  
Sbjct  122  LHDVFSVPFPEIAEVVGRSPEAVRQLASRGRKRVRAEAPRRSVDRGEHRRAVDAFLSAVM  181

Query  189  NGDLDTLLEVLDPGVAGEIDARKGVV-----VVGAD---RVGPTILRHWSHPATVLVAQP  240
             GDLD LLE+LDP V    D    VV     ++G +   R    + R +   +  ++ + 
Sbjct  182  GGDLDGLLEILDPEVVWRSDGGGKVVASRVPILGNEQVARFAQRLGRGFDELSMAVLRRD  241

Query  241  VCGQPAVLAFVNRA--LAGVLALSIEAGKITKIHVLVQPSTL  280
            V G P  L  V+ A   + V A ++  G+IT I V+V P  L
Sbjct  242  VNGAPG-LVIVDPAGERSVVFAFTVHHGRITAIDVVVNPDKL  282


>gi|329935018|ref|ZP_08285032.1| RNA polymerase sigma-70 factor [Streptomyces griseoaurantiacus 
M045]
 gi|329305263|gb|EGG49120.1| RNA polymerase sigma-70 factor [Streptomyces griseoaurantiacus 
M045]
Length=310

 Score =  152 bits (384),  Expect = 5e-35, Method: Compositional matrix adjust.
 Identities = 107/291 (37%), Positives = 148/291 (51%), Gaps = 26/291 (8%)

Query  13   AHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD---IDDERGWLIVVTSRLCLDH  69
            A R  L+ LAFRM G +  AED+VQE + R  R   G+   I     WL  V SR+ LD 
Sbjct  17   AERPRLLSLAFRMTGTLADAEDVVQETYIRWYRLEAGEREAIAVPAAWLTRVASRISLDL  76

Query  70   IKSASTRRER------PQDIAAWHDGDASV------SSVDPADRVTLDDEVRLALLIMLE  117
            + SA  RRE       P+ + A     A+       S+ DP DRVTLDD V +ALL +LE
Sbjct  77   LGSARARRETYVGQWLPEPVPAGLFAGAATAPASGRSAADPLDRVTLDDAVGMALLTVLE  136

Query  118  RLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHR  177
             + PAERV FVLH++FG+P+ +IA  +G  A+  RQLA  ARR + + R    V   +H 
Sbjct  137  AMTPAERVTFVLHDVFGVPFGEIAGVVGRSAAATRQLATSARRHVRQGR-RTRVPARRHD  195

Query  178  VVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRV--GPTILRHW------  229
             V RAF EA   G ++ LL VL P V   +D   G  V  A RV  GP  +  W      
Sbjct  196  EVVRAFREAAVGGRMEDLLRVLAPDVELRVDG--GGFVNAAPRVVRGPDHVARWLMGVRR  253

Query  230  SHPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTL  280
              P+     +        +   +R   G+L   +E G++T++ +++ P  L
Sbjct  254  KEPSLRFERRDTADGLGYMLRADRHRYGMLTFGVEEGRVTRVWLMLNPEKL  304


>gi|302562298|ref|ZP_07314640.1| RNA polymerase sigma-70 factor [Streptomyces griseoflavus Tu4000]
 gi|302479916|gb|EFL43009.1| RNA polymerase sigma-70 factor [Streptomyces griseoflavus Tu4000]
Length=300

 Score =  152 bits (384),  Expect = 6e-35, Method: Compositional matrix adjust.
 Identities = 96/284 (34%), Positives = 153/284 (54%), Gaps = 10/284 (3%)

Query  11   WRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHI  70
            +  HR +L  +A+RM+G +  AED VQE + RL RA    ID+  GWL  VT R+CLD +
Sbjct  15   FEEHRGHLGAVAYRMLGSLTEAEDAVQETWLRLGRADTAAIDNLGGWLTTVTGRICLDLL  74

Query  71   KSASTRRERPQDIAAWHDG--DASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFV  128
            ++ +TRRE+P D     D       +  DP       D V +A+L++LE+L P ER+ FV
Sbjct  75   RARTTRREQPMDETFVPDPVIGPLTAQADPEQEALRADSVGVAMLVVLEKLEPDERLAFV  134

Query  129  LHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACS  188
            LH++F +P+  IA  +   A+  RQLA RARR++ ++   +  +  + +    AF+ A  
Sbjct  135  LHDMFAVPFDDIAPVVERNAAATRQLASRARRRVRDTVPPSDPDLGRQKEALDAFMAAAR  194

Query  189  NGDLDTLLEVLDPGVAGEIDAR---KGV----VVVGADRVGPTILRHWSHPATVLVAQPV  241
             GD + L+ VL P V    DA    +G+    ++ GA  V  + L    + A   +   V
Sbjct  195  GGDFEALVAVLHPDVVLRADAGALVRGITASKILRGARTVAESALMFARYTAAARMVL-V  253

Query  242  CGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRA  285
                 +L+ V+  +  V++ ++E G+IT +++L  P  LD L A
Sbjct  254  NDGAGLLSVVDGRIRSVMSFTVENGRITAVYILADPDRLDHLEA  297


>gi|328883906|emb|CCA57145.1| putative RNA polymerase sigma factor [Streptomyces venezuelae 
ATCC 10712]
Length=319

 Score =  152 bits (383),  Expect = 7e-35, Method: Compositional matrix adjust.
 Identities = 96/280 (35%), Positives = 151/280 (54%), Gaps = 10/280 (3%)

Query  11   WRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSRLCLDHI  70
            + A R +L  +A+RM+G +  AED VQEA+ +L R+ V  +++  GWL  V  R+CLD +
Sbjct  31   FEADRGHLRAVAYRMLGSLSEAEDAVQEAWFKLNRSDVSAVENLSGWLTTVVGRVCLDML  90

Query  71   KSASTRRERPQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIMLERLGPAERVVFVLH  130
            +S  +RRE P +            + DP     + + V LALL++LE LGPAER+ FVLH
Sbjct  91   RSRGSRREDPLEYYVPDPVVRVAGATDPEHTAEVTESVGLALLVVLETLGPAERLAFVLH  150

Query  131  EIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAFIEACSNG  190
            ++F + + +IA  +    +  RQLA RARR++ ++  A   +  + R +  AF+ A + G
Sbjct  151  DMFAVSFDEIARIVDRTPAATRQLASRARRRVQDATPAPGPDARRQREIADAFLAAANGG  210

Query  191  DLDTLLEVLDPGVAGEIDARKGVVVV-----GADRVGPTILRH--WSHPATVLVAQPVCG  243
            D + LL VLDP V    D  + +  V     GA+ V    L +  +   A  +V   V G
Sbjct  211  DFEGLLAVLDPDVVLRADGGRTLAAVSKLVRGAEAVISQALMYARFRQAALPVV---VNG  267

Query  244  QPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPL  283
             PAVL+ V+     ++A +I   +I ++ +L  P  L  L
Sbjct  268  APAVLSVVDGRPGALMAFTIAGDRIVELQILADPERLAAL  307


>gi|271968368|ref|YP_003342564.1| ECF subfamily RNA polymerase sigma-24 subunit [Streptosporangium 
roseum DSM 43021]
 gi|270511543|gb|ACZ89821.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Streptosporangium 
roseum DSM 43021]
Length=292

 Score =  152 bits (383),  Expect = 8e-35, Method: Compositional matrix adjust.
 Identities = 112/287 (40%), Positives = 151/287 (53%), Gaps = 16/287 (5%)

Query  2    SQHDPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVV  61
            S  DPV+ A+ A R  L  +A+RM+G    AED+VQEA+ RL R     I +  GWL  V
Sbjct  5    SPTDPVAEAFEAQRDRLRAVAYRMLGSHADAEDVVQEAWLRLSRQDTATIHNLAGWLTTV  64

Query  62   TSRLCLDHIKSASTRRER------PQDIAAWHDGDASVSSVDPADRVTLDDEVRLALLIM  115
              R+ LD ++S  T  E       P+ +    DG A      P D V L D V LALL++
Sbjct  65   VGRISLDVLRSRQTHPEASYDDRLPELVVTVDDGPA------PEDDVALADSVGLALLVV  118

Query  116  LERLGPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQ  175
            LE LGPAER+ FVLH++F +P+ +I   +G  A   + LA RARRK+  +   A V   Q
Sbjct  119  LESLGPAERLAFVLHDLFAVPFDEIGQILGRSADAAKMLASRARRKVRGTERPAVVGREQ  178

Query  176  HRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVV-VGADRVGPTILRHWSHPAT  234
              VV +AF+ A   GD + LL VLDP V   ID   GVVV +GA  V     R  +  A 
Sbjct  179  REVV-QAFLAAARRGDFEGLLRVLDPEVRLTIDTPDGVVVTLGATEVAAGA-RLSAGAAV  236

Query  235  VLVAQPVCGQPAVLAFVNRALA-GVLALSIEAGKITKIHVLVQPSTL  280
               A  V G P ++A+        V A +I  G+I  I +++ P+ L
Sbjct  237  RGRAVLVNGLPGIVAWREDGTPLSVAAFTIADGRIAGIAIVIDPAKL  283


>gi|320012102|gb|ADW06952.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Streptomyces 
flavogriseus ATCC 33331]
Length=302

 Score =  152 bits (383),  Expect = 9e-35, Method: Compositional matrix adjust.
 Identities = 104/298 (35%), Positives = 161/298 (55%), Gaps = 19/298 (6%)

Query  5    DPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGDIDDERGWLIVVTSR  64
            D  S  + AHR +L  +A+RM+G +  AED+VQEA+ R   A   D+ + R +L+ VT+R
Sbjct  4    DTASDLFEAHRPFLTGVAYRMLGRVADAEDVVQEAWLRWSSAGREDVREPRAFLVRVTTR  63

Query  65   LCLDHIKSASTRRERPQDIAAWHDGDASVSSVDPA-----DRVTLDDEVRLALLIMLERL  119
            L +D ++   +RRE    +  W   +  V+   PA     +R  L D V LA+L++LE L
Sbjct  64   LAIDRLRHLRSRRE--AYVGPWLP-EPVVTEFGPAVPDSAERAVLADSVSLAVLVVLETL  120

Query  120  GPAERVVFVLHEIFGLPYQQIATTIGSQASTCRQLAHRARRKINESRIAASVEPAQHRVV  179
             P ER VFVL E FG PY +I  T+    +  RQLA RA+R + E +    V+PA  R +
Sbjct  121  SPLERAVFVLREAFGFPYAEIGATLDRSEAAVRQLAGRAKRHVEERKPRYEVDPAVRRDL  180

Query  180  TRAFIEACSNGDLDTLLEVLDPGV------AGEIDARKGVVVVGADRVGPTIL---RHWS  230
            T  F+ A S GDL+ LL +L P +       G+  A + ++   +D+VG  +L   + WS
Sbjct  181  TERFLAAASGGDLEKLLALLAPDIRLVSDSGGKAKAPRRIIET-SDKVGRFLLAVAQDWS  239

Query  231  HPATVLVAQPVCGQPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELG  288
              A   V + + G PA++  V+  +  V  + IE G I  ++++  P  L  +R + G
Sbjct  240  TAAEARVLE-LNGGPALVFSVDGQVDTVFQVEIEDGVIRCVYIIRNPDKLAGVRLDRG  296



Lambda     K      H
   0.322    0.136    0.403 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 

Effective search space used: 473963892608


  Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
    Posted date:  Sep 5, 2011  4:36 AM
  Number of letters in database: 5,219,829,388
  Number of sequences in database:  15,229,318



Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40