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