HHsearch alignment for GI: 254780611 and conserved domain: PRK11922
>PRK11922 RNA polymerase sigma factor; Provisional.
Probab=99.80 E-value=1.5e-17 Score=136.87 Aligned_cols=193 Identities=19% Similarity=0.246 Sum_probs=139.3
Q ss_pred CCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf 99998999999999998285999999999430778756555579999888999999888998986218534568999757
Q gi|254780611|r 27 PMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSM 106 (302)
Q Consensus 27 ~~Lt~eee~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~ 106 (302)
T Consensus 10 ~~~~~~~D~eLi~~~~-~GD~~Af~~L~~ry~~~ly~~a~~~~~~~~dAEDlvQevFlk~~~~l~~f~~~~--~f~tWL~ 86 (231)
T PRK11922 10 TPLSAADDAELVARVL-AGDEAAFEQLMRRHNRRLYRLARAILRDDAEAEDVVQEAYLRAFRALARFRGDA--SLSTWLS 86 (231)
T ss_pred CCCCCCCHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCC--CHHHHHH
T ss_conf 9999975999999999-565999999999999999999999929999999999999999998753057756--5999999
Q ss_pred HHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCH
Q ss_conf 78999999853202460011023003589999999978878662447888246778886189832110000001223433
Q gi|254780611|r 107 WWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESL 186 (302)
Q Consensus 107 ~wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SL 186 (302)
T Consensus 87 ~Ia~N~~ld~lRk~~~----------------------~~~~~-~~~-----------------------------~~~~ 114 (231)
T PRK11922 87 RIVLNEALGRLRRRRR----------------------DVIEL-RLA-----------------------------TESE 114 (231)
T ss_pred HHHHHHHHHHHHHHHC----------------------CCCCC-CCC-----------------------------CCCC
T ss_conf 9999999999998741----------------------22311-000-----------------------------1233
Q ss_pred HHHCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCH
Q ss_conf 55202323453200000123568705655666666677799999962199999999999827888889899999977899
Q gi|254780611|r 187 NALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSR 266 (302)
Q Consensus 187 d~~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~ 266 (302)
T Consensus 115 -------~~~--~~~~~~~~~~~~pe~----~~~~~E~~~~l~~al~~Lp~~~R~v~~L~~~eg--lS~~EIA~~Lgis~ 179 (231)
T PRK11922 115 -------EGE--EIEFPDADPAEDPED----AAARREIRALLERAIDALPDAFRAVFVLRVVEE--LSVEETAQALGLPE 179 (231)
T ss_pred -------CCH--HHCCCCCCCCCCHHH----HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCH
T ss_conf -------210--100233567899999----999999999999999809999999999999939--99999999989399
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 99999999999999999997401
Q gi|254780611|r 267 ERVRQIEARAFKKVQESIQKQVE 289 (302)
Q Consensus 267 eRVrQI~~~AL~kLR~~l~~~~~ 289 (302)
T Consensus 180 ~TVKsrL~RArk~LRe~La~~~~ 202 (231)
T PRK11922 180 ETVKTRLHRARRLLRESLAREIG 202 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999999999999872