HHsearch alignment for GI: 254780611 and conserved domain: PRK12526

>PRK12526 RNA polymerase sigma factor; Provisional.
Probab=99.73  E-value=2.3e-15  Score=122.25  Aligned_cols=186  Identities=13%  Similarity=0.157  Sum_probs=130.1

Q ss_pred             CCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHH
Q ss_conf             99989999999999982859999999994307787565555799998889999998889989862185345689997577
Q gi|254780611|r   28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW  107 (302)
Q Consensus        28 ~Lt~eee~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~  107 (302)
T Consensus        19 ~~p~~~~~~Lv~~A~-~GD~~AF~~Ly~~y~~~l~~~~~r~l~d~~~AEDvvQetFlkvw~~~~~~~~~~~-~f~tWL~~   96 (206)
T PRK12526         19 QVPTELSQWLILVAI-SRDKQAFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTWVYT   96 (206)
T ss_pred             CCCHHHHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCC-HHHHHHHH
T ss_conf             673689999999999-6589999999999999999999999199999999999999999983876586425-29999999


Q ss_pred             HHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf             89999998532024600110230035899999999788786624478882467788861898321100000012234335
Q gi|254780611|r  108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN  187 (302)
Q Consensus       108 wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd  187 (302)
T Consensus        97 IarN~~~d~lRk~----------------------~~~~~~------------------~~~-~d~----------~~~~  125 (206)
T PRK12526         97 VMRNAAFDMLRKI----------------------KAKKEQ------------------NLG-DDI----------WPIE  125 (206)
T ss_pred             HHHHHHHHHHHHH----------------------HCCCCC------------------CCC-CHH----------CHHH
T ss_conf             9999999999865----------------------312222------------------321-000----------0044


Q ss_pred             HHCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHH
Q ss_conf             52023234532000001235687056556666666777999999621999999999998278888898999999778999
Q gi|254780611|r  188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE  267 (302)
Q Consensus       188 ~~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~e  267 (302)
T Consensus       126 --------------~~~~~-~~~~~~~~~~~----~~~~~l~~~l~~LP~~~R~vi~L~~~eg--ls~~EIA~~l~is~~  184 (206)
T PRK12526        126 --------------QALAE-SQSESEEFSDH----LMDKQILSYIEKLPEAQQTVVKGVYFQE--LSQEQLAQQLNVPLG  184 (206)
T ss_pred             --------------HCCCC-CCCCHHHHHHH----HHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHH
T ss_conf             --------------30145-78835789989----9999999999868999888989999859--999999999893999


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999974
Q gi|254780611|r  268 RVRQIEARAFKKVQESIQKQ  287 (302)
Q Consensus       268 RVrQI~~~AL~kLR~~l~~~  287 (302)
T Consensus       185 TVksrl~rAlk~LR~~L~e~  204 (206)
T PRK12526        185 TVKSRLRLALAKLKVQMGEQ  204 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999999987303