HHsearch alignment for GI: 254780289 and conserved domain: PRK12530

>PRK12530 RNA polymerase sigma factor; Provisional.
Probab=98.51  E-value=1.9e-05  Score=61.90  Aligned_cols=160  Identities=16%  Similarity=0.140  Sum_probs=101.7

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHH
Q ss_conf             89998875223567778875443679999887438545731201028989999999997228704614205889899999
Q gi|254780289|r  455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR  534 (682)
Q Consensus       455 ~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~  534 (682)
T Consensus        21 ~L~~fa~~~l~d~~~AEDlvQEtFlka~~~~~~f~~~~--~f~---tWL~~Ia~N~~id-----------------~lRk   78 (191)
T PRK12530         21 QMLKFATLQLKDADLAEDVVQEAFTSALKNIDSFKGQS--ALK---TWIFAILKNKIID-----------------YIRQ   78 (191)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCC--CHH---HHHHHHHHHHHHH-----------------HHHH
T ss_conf             99999999939999999999999999998688637877--299---9999999999999-----------------9998


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCC--CCCCCCEEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             9999877608899978999870999899999998608987553635--88998604756238988998999999999999
Q gi|254780289|r  535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET  612 (682)
Q Consensus       535 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~--~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~  612 (682)
T Consensus        79 --------~~r~~~~~~~~---------------------~~~~~~~~~d~~~~~~~~~~~~~~~~~~e~~~~~~e~~~~  129 (191)
T PRK12530         79 --------RKRFVNESELI---------------------EEESPNSFFDEKGHWKPETYEPSELQDVEQTVYSEEFWLI  129 (191)
T ss_pred             --------HCCCCCCCCCC---------------------CCCCCHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             --------46667721001---------------------2224100101112234333683021689999999999999


Q ss_pred             HHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf             999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r  613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH  669 (682)
Q Consensus       613 ~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~  669 (682)
T Consensus       130 l~~~l~~LP~~~R~v~~Lr~----~~~ls~~EIA~~l~is~~tVksrL~RAR~~Lr~  182 (191)
T PRK12530        130 FEICLNKLPAQQARVFMMRE----FLELSSEQICQECHITTSNLHVLLYRARLQLQA  182 (191)
T ss_pred             HHHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf             99999869999999999999----929999999999896999999999999999999