HHsearch alignment for GI: 254780289 and conserved domain: PRK09641
>PRK09641 RNA polymerase sigma factor SigW; Provisional.
Probab=99.18 E-value=7.5e-09 Score=88.84 Aligned_cols=180 Identities=16% Similarity=0.246 Sum_probs=131.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHH
Q ss_conf 88999999876533211246899987555789998875223567778875443679999887438545731201028989
Q gi|254780289|r 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 (682)
Q Consensus 425 ~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i 504 (682)
T Consensus 3 ~~i~~Li~~~~~GD~---~Af~~L~~~y~~~l~~~~~~~~~~~~~AeD~vQe~flk~~~~~~~~~~~~~--~~~---WL~ 74 (187)
T PRK09641 3 TLIKKRIKQVKKGDQ---NAFADIVDLYKDKIYQLCYRMLGNRHEAEDIAQEAFIRAYVNIDSFDINRK--FST---WLY 74 (187)
T ss_pred HHHHHHHHHHHHCCH---HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC--HHH---HHH
T ss_conf 899999999993889---999999999999999999999099999999999999999984612574134--999---999
Q ss_pred HHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 99999999722870461420588989999999998776088999789998709998999999986089875536358899
Q gi|254780289|r 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 (682)
Q Consensus 505 ~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~ 584 (682)
T Consensus 75 ~Ia~N~~~-d~----------------~Rk~~-----------------------------------~~~~~~~~~~~~~ 102 (187)
T PRK09641 75 RIATNLTI-DR----------------LRKKK-----------------------------------PDYYLDAEVAGTE 102 (187)
T ss_pred HHHHHHHH-HH----------------HHHHC-----------------------------------CCCCHHHHHCCCC
T ss_conf 99999999-99----------------99726-----------------------------------5343126540310
Q ss_pred CCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 86047562389889989999999999999999732998899999998187986746889998996678999999999999
Q gi|254780289|r 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 (682)
Q Consensus 585 ~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~ 664 (682)
T Consensus 103 ~~~~~~~~~~-~~~~~~~~~~~~e~~~~l~~al~~Lp~~~r~v~~L~~----~~~~s~~EIA~~l~is~~tVk~~l~RAr 177 (187)
T PRK09641 103 GLTMYSQLAA-DEALPEDQVESLELQETIQEEILQLPDKYRTVIVLKY----IEELSLKEISEILDLPVGTVKTRIHRGR 177 (187)
T ss_pred CCHHHHHCCC-CCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 0004430356-6798478999999999999999828988889999999----8299899999998939999999999999
Q ss_pred HHHCC
Q ss_conf 98329
Q gi|254780289|r 665 RKLKH 669 (682)
Q Consensus 665 ~~l~~ 669 (682)
T Consensus 178 ~~Lr~ 182 (187)
T PRK09641 178 EALRK 182 (187)
T ss_pred HHHHH
T ss_conf 99999