HHsearch alignment for GI: 254780289 and conserved domain: PRK12520
>PRK12520 RNA polymerase sigma factor; Provisional.
Probab=98.87 E-value=2.2e-07 Score=77.25 Aligned_cols=171 Identities=17% Similarity=0.204 Sum_probs=117.8
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCCHHHH
Q ss_conf 98755578999887522356777887544367999988743854573120102898999999999722870461420588
Q gi|254780289|r 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 (682)
Q Consensus 448 l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~~~ 527 (682)
T Consensus 7 ~le~~r~~L~r~A~~~v~d~~~AEDvvQetfl~~~~~~~~f~~~--~~~~tWL~~IarN~~id~lR~~~r~~~~~~~--- 81 (191)
T PRK12520 7 QLEALRPYLLRFARLQLRDEAWAEDAVSETLLAALEKPERFAGQ--SQLKTYLVGILKHKIIDALRSGRREVRLSLD--- 81 (191)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHHHHHHHHCCCCCCCCC---
T ss_conf 99999999999999994999999999999999999817642765--4559899999999999999983675555433---
Q ss_pred HHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHH
Q ss_conf 98999999999877608899978999870999899999998608987553635889986047562389889989999999
Q gi|254780289|r 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 (682)
Q Consensus 528 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~ 607 (682)
T Consensus 82 ---------------~~~~~~~~~~~~-----------~~------~~--------~~~~~~~~--p~~~~~Pe~~l~~~ 119 (191)
T PRK12520 82 ---------------EGDEQSDDDLFD-----------AL------FT--------ADGHYREP--PSDWGDPEATLQRR 119 (191)
T ss_pred ---------------CCCCCCHHHHHH-----------HH------HC--------CCCCCCCC--CCCCCCHHHHHHHH
T ss_conf ---------------456554046777-----------76------22--------34432358--76659999999999
Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 99999999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 (682)
Q Consensus 608 ~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~ 669 (682)
T Consensus 120 e~~~~l~~aL~~Lp~~~R~v~~Lr~----~~~ls~~EIA~~l~~s~~tVk~~l~RAR~~Lr~ 177 (191)
T PRK12520 120 QFFEVLQACVERLPARTGRVFMMRE----WLELETEEICKELQITATNLWVMLYRARLRLRE 177 (191)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHH----HHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 9999999999877499999999999----938999999999894999999999999999999