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