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