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