HHsearch alignment for GI: 254780289 and conserved domain: PRK12545
>PRK12545 RNA polymerase sigma factor; Provisional.
Probab=98.61 E-value=7.7e-06 Score=65.08 Aligned_cols=176 Identities=14% Similarity=0.114 Sum_probs=115.1
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCCHHH
Q ss_conf 99875557899988752235677788754436799998874385457312010289899999999972287046142058
Q gi|254780289|r 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 (682)
Q Consensus 447 ~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~~ 526 (682)
T Consensus 12 ~~~~~~r~~L~r~A~~~l~d~~~AEDlvQEtflka~~~~~~F~g~ss~-----~TWL~~Ia~N~~id------------- 73 (201)
T PRK12545 12 AYLAQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQSAH-----KTWVFGILRNKLID------------- 73 (201)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHH-----HHHHHHHHHHHHHH-------------
T ss_conf 999999999999999990999899999999999999854045875238-----99999999999999-------------
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHH
Q ss_conf 89899999999987760889997899987099989999999860898755363588998604756238988998999999
Q gi|254780289|r 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 (682)
Q Consensus 527 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~ 606 (682)
T Consensus 74 ----~lRkr--------~r~~~~~~~d~~~--------------d~e~~~d~~~~~d~-g~w~~~~~p~~~~~Pe~~l~~ 126 (201)
T PRK12545 74 ----TLRAR--------RRTINLSALDAEL--------------DGESLLDRELFKDN-GHWAAHAKPRPWPKPETILQQ 126 (201)
T ss_pred ----HHHHH--------CCCCCCCCCCCCC--------------CCCCCCHHHHHCCC-CCCCCCCCCCCCCCHHHHHHH
T ss_conf ----99961--------5778855344454--------------63211105540344-543233578889998999999
Q ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCHH
Q ss_conf 99999999997329988999999981879867468899989966789999999999999832967
Q gi|254780289|r 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 (682)
Q Consensus 607 ~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~~~ 671 (682)
T Consensus 127 ~e~~~~l~~aL~~LP~~~R~v~~Lr~----~egls~~EIA~~L~is~~tVksrL~RAR~~LR~~L 187 (201)
T PRK12545 127 QQFWTLFETCLDHLPEQIGRVFMMRE----FLDFEIDDICTELTLTANHCSVLLYRARTRLRTCL 187 (201)
T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHH----HHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999959999988989999----92898999999989699999999999999999999