HHsearch alignment for GI: 254780289 and conserved domain: PRK12517
>PRK12517 RNA polymerase sigma factor; Provisional.
Probab=98.51 E-value=2.7e-05 Score=60.79 Aligned_cols=155 Identities=18% Similarity=0.168 Sum_probs=108.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEE
Q ss_conf 11246899987555789998875223567778875443679999887438545731201028989999999997228704
Q gi|254780289|r 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 (682)
Q Consensus 440 e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~ 519 (682)
T Consensus 20 ~~~~AFe~L~~~y~~~ly~~a~~~~~d~~~AeDl~QEtFlk~~~~~~~~~~~~~~~-----tWL~~I~--~~-------- 84 (188)
T PRK12517 20 SKQRRYEALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDEKAAK-----AWLITIL--RR-------- 84 (188)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHH-----HHHHHHH--HH--------
T ss_conf 35999999999999999999999949999999999999999999887647963189-----9999999--99--------
Q ss_pred ECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCC
Q ss_conf 61420588989999999998776088999789998709998999999986089875536358899860475623898899
Q gi|254780289|r 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 (682)
Q Consensus 520 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~ 599 (682)
T Consensus 85 -------~~~~r~~---r~-------~~------------------------~~~~~~~-----------~~~~~~~~~~ 112 (188)
T PRK12517 85 -------ENARRFE---RK-------QF------------------------DLVDIED-----------DSIEDDLSSS 112 (188)
T ss_pred -------HHHHHHH---HC-------CC------------------------CCCCCCC-----------CCCCCCCCCC
T ss_conf -------9889998---61-------57------------------------7565220-----------0024666788
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 8999999999999999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 (682)
Q Consensus 600 ~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~ 669 (682)
T Consensus 113 ~e~~~~~----~~l~~~l~~Lp~~~R~vi~L~~----~eg~s~~EIA~~Lgis~~tVksrl~RAr~~Lr~ 174 (188)
T PRK12517 113 SEEEMEQ----YWLRRQIAKLDPEYREPLLLQV----IGGFSGEEIAEILDLNKNTVMTRLFRARNQLKE 174 (188)
T ss_pred CHHHHHH----HHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 1689999----9999999769999999999999----839999999999893999999999999999999