HHsearch alignment for GI: 254780611 and conserved domain: PRK09643
>PRK09643 RNA polymerase sigma factor SigM; Reviewed.
Probab=99.71 E-value=4.7e-15 Score=120.13 Aligned_cols=177 Identities=15% Similarity=0.142 Sum_probs=128.6
Q ss_pred HHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 99999999828599999999943077875655557999988899999988899898621853456899975778999999
Q gi|254780611|r 35 YVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQ 114 (302)
Q Consensus 35 ~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~ 114 (302)
T Consensus 15 ~eLi~~~~-~GD~~Af~~L~~ry~~~l~~~a~~~~~~~~~AeDvvQe~flk~~~~~~~~~~~--~~f~~WL~~Ia~N~~~ 91 (197)
T PRK09643 15 AELLAAHV-AGDRYAFGELFRRHHRQLWRLARRTSGTREDAADALQDAMLSAHRGAGSFRGD--AAVSSWLHRIVVNACL 91 (197)
T ss_pred HHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCC--CHHHHHHHHHHHHHHH
T ss_conf 99999999-27799999999999999999999991999999999999999999988633886--3499999999999999
Q ss_pred HHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCC
Q ss_conf 85320246001102300358999999997887866244788824677888618983211000000122343355202323
Q gi|254780611|r 115 EYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSD 194 (302)
Q Consensus 115 ~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d 194 (302)
T Consensus 92 d~----------------------~Rk~~~~-----------~-------------------------~~~~~~~~---- 109 (197)
T PRK09643 92 DR----------------------LRRAKAR-----------P-------------------------TVPLEDVY---- 109 (197)
T ss_pred HH----------------------HHHHCCC-----------C-------------------------CCCCCCCC----
T ss_conf 99----------------------9985146-----------7-------------------------78866567----
Q ss_pred CCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHH
Q ss_conf 45320000012356870565566666667779999996219999999999982788888989999997789999999999
Q gi|254780611|r 195 KNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEA 274 (302)
Q Consensus 195 ~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~ 274 (302)
T Consensus 110 --------------~~~~~~~~~----~e~~~~l~~al~~Lp~~~R~vl~L~~~eg--~s~~EIA~~lgis~~tVKsrl~ 169 (197)
T PRK09643 110 --------------PVADRETAR----VETAIAVQRALMRLPVEQRAALVAVDMQG--YSVADTARMLGVAEGTVKSRCA 169 (197)
T ss_pred --------------CCCCCHHHH----HHHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHH
T ss_conf --------------786520313----89999999999769998879999999819--9999999998939999999999
Q ss_pred HHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 9999999999974012246776
Q gi|254780611|r 275 RAFKKVQESIQKQVELSSSPPL 296 (302)
Q Consensus 275 ~AL~kLR~~l~~~~~~~~~~~~ 296 (302)
T Consensus 170 RAr~~Lr~~L~~l~~~g~~~~~ 191 (197)
T PRK09643 170 RGRARLAELLGYLRAGGNASPG 191 (197)
T ss_pred HHHHHHHHHHHHHHCCCCCCCC
T ss_conf 9999999999988457899998