HHsearch alignment for GI: 254780611 and conserved domain: PRK12523
>PRK12523 RNA polymerase sigma factor; Reviewed.
Probab=99.24 E-value=1.4e-09 Score=83.53 Aligned_cols=165 Identities=13% Similarity=0.113 Sum_probs=111.2
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 6 ~p~~~~~~~Ly~~~~~~L~~~~~r~~~~~e~AEDivQd~Flrl~~~-~~~~~~--~~~~a~Lf~iarNl~~D~~Rr~--- 79 (172)
T PRK12523 6 SPHSELVGALYRDHRGWLLAWLRRNLACRQRAEDLSQDTFVRLLGR-PELPTP--REPRAFLAAVAKGLMFDHFRRA--- 79 (172)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHC-CCCCCC--CCHHHHHHHHHHHHHHHHHHHH---
T ss_conf 9739999999999999999999999498868999999999999827-765673--4599999999999999999989---
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 80 -------------------~~~~~~----------~~~~~~-------------------------~~------------ 93 (172)
T PRK12523 80 -------------------ALEQAY----------LAELAL-------------------------VP------------ 93 (172)
T ss_pred -------------------HHHHHH----------HHHHHC-------------------------CC------------
T ss_conf -------------------988500----------888862-------------------------66------------
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 94 -~~~~~~~e~~~~~~----e~~~~l~~al~~Lp~~~R~v~~L~~~eG--ls~~EIA~~LgiS~~tVk~~l~rAl~~~~~~ 166 (172)
T PRK12523 94 -EAEQPSPEEQHLIL----EDLKAIDRLLGKLSSKARAAFLYNRLDG--MGHAEIAERLGVSVSRVRQYLAQGLRQCYIA 166 (172)
T ss_pred -CCCCCCHHHHHHHH----HHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_conf -54689979999999----9999999998649999999999999939--9999999998939999999999999999998
Q ss_pred HHHH
Q ss_conf 9974
Q gi|254780611|r 284 IQKQ 287 (302)
Q Consensus 284 l~~~ 287 (302)
T Consensus 167 l~~~ 170 (172)
T PRK12523 167 LYGE 170 (172)
T ss_pred HHCC
T ss_conf 6079