HHsearch alignment for GI: 254780289 and conserved domain: PRK12532
>PRK12532 RNA polymerase sigma factor; Provisional.
Probab=98.66 E-value=4.5e-06 Score=66.92 Aligned_cols=172 Identities=14% Similarity=0.177 Sum_probs=106.9
Q ss_pred HHHHHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCCHH
Q ss_conf 9987555789998875223567-778875443679999887438545731201028989999999997228704614205
Q gi|254780289|r 447 EMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 (682)
Q Consensus 447 ~l~~anlr~v~~~~~~~~~~~~-~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~ 525 (682)
T Consensus 10 ~l~-~~r~~L~~fa~~~L~~~~d~AEDlvQEtflka~~~~~~f~~--~s~f~tWL~~IarN~~id~lR~~~r~~~~~~~~ 86 (195)
T PRK12532 10 ELI-ESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQG--RALVNSWLFAILKNKIIDALRQIGRQRKVFTAL 86 (195)
T ss_pred HHH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf 999-98999999999980898757999999999999986874589--887888999999999999999862766767532
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHH
Q ss_conf 88989999999998776088999789998709998999999986089875536358899860475623898899899999
Q gi|254780289|r 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 (682)
Q Consensus 526 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~~~ 605 (682)
T Consensus 87 -----------------------~~e~---~d----------------~~~~~~~~~~~~~~--~~~~p~~~~~pe~~~~ 122 (195)
T PRK12532 87 -----------------------DDEL---LD----------------EAFESHFSQNGHWT--PEGQPQHWNTPEKSLN 122 (195)
T ss_pred -----------------------CHHH---HH----------------HHHHHHHCCCCCCC--CCCCCCCCCCHHHHHH
T ss_conf -----------------------0233---32----------------56665420134457--5446555499999999
Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 9999999999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 (682)
Q Consensus 606 ~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~ 669 (682)
T Consensus 123 ~~e~~~~l~~~l~~Lp~~~R~vl~L~~----~egls~~EIA~~lgis~~tVks~l~RAR~~Lr~ 182 (195)
T PRK12532 123 NNEFQKILQSCLYNLPENTARVFTLKE----ILGFSSDEIQQMCGISTSNYHTIMHRARESLRQ 182 (195)
T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 899999999999859999989999999----819999999999895999999999999999999