HHsearch alignment for GI: 254780611 and conserved domain: PRK12516
>PRK12516 RNA polymerase sigma factor; Provisional.
Probab=99.47 E-value=9.3e-12 Score=98.12 Aligned_cols=168 Identities=10% Similarity=0.085 Sum_probs=117.5
Q ss_pred HCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 28599999999943077875655557999988899999988899898621853456899975778999999853202460
Q gi|254780611|r 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 (302)
Q Consensus 44 ~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~ 123 (302)
T Consensus 9 ~~~~~~F~~l~~~~~p~L~~~a~~l~~~~~dAEDlvQetflk~~~~~~~~~~~--~~~~aWL~~IarN~~~d~~Rk~~r- 85 (190)
T PRK12516 9 VEGTPPFKRELLASLPSLRAFAVSLIGQHDRADDLVQDTIMKAWAKQESFEVG--TNMKAWLFTILRNEFYTQMRKRGR- 85 (190)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHHHHHHHCCC-
T ss_conf 99872099999998999999999990999999999999999999998635656--779999999999999999996168-
Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCC
Q ss_conf 01102300358999999997887866244788824677888618983211000000122343355202323453200000
Q gi|254780611|r 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 (302)
Q Consensus 124 IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~ 203 (302)
T Consensus 86 ---------------------~~----------~~~-----------------d~~~~e~------~~------------ 99 (190)
T PRK12516 86 ---------------------EV----------QDT-----------------DGMFSEQ------LA------------ 99 (190)
T ss_pred ---------------------CC----------CCC-----------------CCCCCCC------CC------------
T ss_conf ---------------------66----------653-----------------2223333------46------------
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 12356870565566666667779999996219999999999982788888989999997789999999999999999999
Q gi|254780611|r 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 (302)
Q Consensus 204 l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~ 283 (302)
T Consensus 100 ---~~~~~~----~~~~----~~~l~~al~~Lp~~~R~vl~L~~~eg--ls~~EIAe~Lgis~~TVksrl~RAr~~Lr~~ 166 (190)
T PRK12516 100 ---VHPSQY----GTLD----LQDFRAALDQLPDDQREAIILIGASG--FAYEEAAEICGCAVGTIKSRVSRARARLQEI 166 (190)
T ss_pred ---CCCCCC----CHHH----HHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_conf ---895420----2077----99999999819999989999899829--9999999998949999999999999999999
Q ss_pred HHHHHCCCCC
Q ss_conf 9974012246
Q gi|254780611|r 284 IQKQVELSSS 293 (302)
Q Consensus 284 l~~~~~~~~~ 293 (302)
T Consensus 167 L~~~g~~~~g 176 (190)
T PRK12516 167 LQIEGEADYG 176 (190)
T ss_pred HHHCCCCCCC
T ss_conf 9845998789