HHsearch alignment for GI: 254780611 and conserved domain: PRK09649
>PRK09649 RNA polymerase sigma factor SigC; Reviewed.
Probab=99.55 E-value=1.2e-12 Score=104.07 Aligned_cols=176 Identities=12% Similarity=0.147 Sum_probs=117.4
Q ss_pred CCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf 99899999999999828599999999943077875655557999988899999988899898621853456899975778
Q gi|254780611|r 29 LEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWW 108 (302)
Q Consensus 29 Lt~eee~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~w 108 (302)
T Consensus 6 ~dd~~l~aLv~~a~-~GD~~Af~~L~~~~~~~v~r~~~-~l~d~~~AeDl~QEtFlka~~~l~~f~~~--s~f~tWL~~I 81 (185)
T PRK09649 6 SDDEAVTALALSAA-KGNGRALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAI 81 (185)
T ss_pred CCHHHHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHH-HHCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHH
T ss_conf 46099999999999-44799999999999999999999-93899899999999999999988762887--6189999999
Q ss_pred HHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 99999985320246001102300358999999997887866244788824677888618983211000000122343355
Q gi|254780611|r 109 IKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNA 188 (302)
Q Consensus 109 Ir~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~ 188 (302)
T Consensus 82 A~N~~~d----------------------~~Rk~~~~----------~~~~------~~~~~e~---------------- 107 (185)
T PRK09649 82 ARHVVAD----------------------HIRHVRSR----------PRTT------RGARPEH---------------- 107 (185)
T ss_pred HHHHHHH----------------------HHHHHHCC----------CCCC------CCCCHHH----------------
T ss_conf 9999999----------------------99987437----------7643------4457231----------------
Q ss_pred HCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHH
Q ss_conf 20232345320000012356870565566666667779999996219999999999982788888989999997789999
Q gi|254780611|r 189 LINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRER 268 (302)
Q Consensus 189 ~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eR 268 (302)
T Consensus 108 ---------------~~~~~~-~~~~~e-------~~~~l~~al~~Lp~~~R~vl~L~~~eg--ls~~EIA~~lg~~~gT 162 (185)
T PRK09649 108 ---------------LIDGDR-HARGFE-------DLVEVTTMIADLTTDQREALLLTQLLG--LSYADAAAVCGCPVGT 162 (185)
T ss_pred ---------------CCCCCC-CCCCHH-------HHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHH
T ss_conf ---------------158431-102378-------899999999849999999999899729--9999999998939999
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999999999974
Q gi|254780611|r 269 VRQIEARAFKKVQESIQKQ 287 (302)
Q Consensus 269 VrQI~~~AL~kLR~~l~~~ 287 (302)
T Consensus 163 VKsRl~RAR~~L~a~le~~ 181 (185)
T PRK09649 163 IRSRVARARDALLADAEPD 181 (185)
T ss_pred HHHHHHHHHHHHHHHCCCC
T ss_conf 9999999999999766855