HHsearch alignment for GI: 254780289 and conserved domain: PRK12531
>PRK12531 RNA polymerase sigma factor; Provisional.
Probab=98.88 E-value=5.1e-07 Score=74.38 Aligned_cols=178 Identities=17% Similarity=0.174 Sum_probs=122.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHH
Q ss_conf 26889999998765332112468999875557899988752235677788754436799998874385457312010289
Q gi|254780289|r 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 (682)
Q Consensus 423 ~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~ 502 (682)
T Consensus 10 ~~~~~~eLi~r~~~GD~~---Af~~Ly~~y~~~l~~~~~~~~~d~~~AeDlvQe~Flk~~~~~~~~~~~~s-~f~tWl~~ 85 (194)
T PRK12531 10 GRQEWLECMEKVKSRDKQ---AFALVFSYYAPKLKQFAMKHVGNEQVAMEMVQETMSTVWQKAHLFDGQKS-ALSTWIYT 85 (194)
T ss_pred CCHHHHHHHHHHHHCCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCC-CHHHHHHH
T ss_conf 516699999999958899---99999999999999999999399999999999999999998886676536-09999999
Q ss_pred HHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 89999999997228704614205889899999999987760889997899987099989999999860898755363588
Q gi|254780289|r 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 (682)
Q Consensus 503 ~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~ 582 (682)
T Consensus 86 Ia~N~~~d~lRk~~---------------------------~~~~-------------------------~~~~~~~~~- 112 (194)
T PRK12531 86 IIRNLCFDLLRKQK---------------------------GKDL-------------------------HIHADDIWP- 112 (194)
T ss_pred HHHHHHHHHHHHHC---------------------------CCCC-------------------------CCCHHHCCC-
T ss_conf 99999999999740---------------------------4343-------------------------432111142-
Q ss_pred CCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHH
Q ss_conf 99860475623898899899999999999999997329988999999981879867468899989966789999999999
Q gi|254780289|r 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 (682)
Q Consensus 583 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~ 662 (682)
T Consensus 113 ~-~~~~~~~~---~~~~~e----~~~~~~~~~~~l~~Lp~~~R~vi~L~~----~e~~s~~EIAe~l~is~~TVKsrl~r 180 (194)
T PRK12531 113 S-DYYPPDLV---DHYSPE----QDMLKEQVMKFLDRLPKAQRDVLQAVY----LEELPHQQVAEMFDIPLGTVKSRLRL 180 (194)
T ss_pred C-CCCCCCCC---CCCCHH----HHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHH
T ss_conf 2-24783000---125879----999999999999869999999999998----86999999999989299999999999
Q ss_pred HHHHHCC
Q ss_conf 9998329
Q gi|254780289|r 663 AIRKLKH 669 (682)
Q Consensus 663 a~~~l~~ 669 (682)
T Consensus 181 A~k~LR~ 187 (194)
T PRK12531 181 AVEKLRH 187 (194)
T ss_pred HHHHHHH
T ss_conf 9999999