HHsearch alignment for GI: 254780289 and conserved domain: PRK12516
>PRK12516 RNA polymerase sigma factor; Provisional.
Probab=98.25 E-value=0.00013 Score=55.48 Aligned_cols=155 Identities=14% Similarity=0.119 Sum_probs=103.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf 12468999875557899988752235677788754436799998874385457312010289899999999972287046
Q gi|254780289|r 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 (682)
Q Consensus 441 ~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r 520 (682)
T Consensus 11 ~~~~F~~l~~~~~p~L~~~a~~l~~~~~dAEDlvQetflk~~~~~~~~~~~--~~~~a---WL~~IarN~~~-------- 77 (190)
T PRK12516 11 GTPPFKRELLASLPSLRAFAVSLIGQHDRADDLVQDTIMKAWAKQESFEVG--TNMKA---WLFTILRNEFY-------- 77 (190)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHH---HHHHHHHHHHH--------
T ss_conf 872099999998999999999990999999999999999999998635656--77999---99999999999--------
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCH
Q ss_conf 14205889899999999987760889997899987099989999999860898755363588998604756238988998
Q gi|254780289|r 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 (682)
Q Consensus 521 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~ 600 (682)
T Consensus 78 ---------d~~Rk~--------~r~~~--------------------------~~d~~--------~~----e~~~~~~ 102 (190)
T PRK12516 78 ---------TQMRKR--------GREVQ--------------------------DTDGM--------FS----EQLAVHP 102 (190)
T ss_pred ---------HHHHHC--------CCCCC--------------------------CCCCC--------CC----CCCCCCC
T ss_conf ---------999961--------68666--------------------------53222--------33----3346895
Q ss_pred HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 999999999999999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 (682)
Q Consensus 601 ~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~ 669 (682)
T Consensus 103 ~~~--~~~~~~~l~~al~~Lp~~~R~vl~L~~----~egls~~EIAe~Lgis~~TVksrl~RAr~~Lr~ 165 (190)
T PRK12516 103 SQY--GTLDLQDFRAALDQLPDDQREAIILIG----ASGFAYEEAAEICGCAVGTIKSRVSRARARLQE 165 (190)
T ss_pred CCC--CHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 420--207799999999819999989999899----829999999999894999999999999999999