HHsearch alignment for GI: 254780289 and conserved domain: PRK12513

>PRK12513 RNA polymerase sigma factor; Provisional.
Probab=99.04  E-value=9.4e-08  Score=80.16  Aligned_cols=172  Identities=15%  Similarity=0.205  Sum_probs=126.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHH
Q ss_conf             99999876533211246899987555789998875223567778875443679999887438545731201028989999
Q gi|254780289|r  428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA  507 (682)
Q Consensus       428 K~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~  507 (682)
T Consensus        14 ~eL~~~~~~GD~~---Af~~L~~~y~~~l~~~~~~~~~d~~~AeDl~Qevfl~~~~~~~~~~~~--~~~~~wL~~ia~n~   88 (194)
T PRK12513         14 EALMLRYRAGDAA---AFEALYARHRTGLYRFLLRLARDPALADDIFQETWLRVIRARSQWQPR--ARFRTWLYQIARNR   88 (194)
T ss_pred             HHHHHHHHHCCHH---HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHH
T ss_conf             9999999946299---999999999999999999996999999999989999999887616975--45999999999999


Q ss_pred             HHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCE
Q ss_conf             99999722870461420588989999999998776088999789998709998999999986089875536358899860
Q gi|254780289|r  508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH  587 (682)
Q Consensus       508 i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~  587 (682)
T Consensus        89 ~~~~~R~~~~--------------------~-------~~~------------------------~~~~~--------~-  108 (194)
T PRK12513         89 LIDHWRKHGA--------------------R-------QAP------------------------SLDAD--------E-  108 (194)
T ss_pred             HHHHHHHHHC--------------------C-------CCC------------------------CCCHH--------H-
T ss_conf             9999998744--------------------3-------775------------------------31103--------6-


Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             47562389889989999999999999999732998899999998187986746889998996678999999999999983
Q gi|254780289|r  588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL  667 (682)
Q Consensus       588 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l  667 (682)
T Consensus       109 ~~~~~~-~~~~~~e~~~~~~e~~~~l~~~l~~Lp~~~r~il~L~~----~~g~s~~EIA~~l~is~~tVk~~l~rA~~~L  183 (194)
T PRK12513        109 LAHALA-DDGAGPEQQLSLFRDRRRLQAALETLPDEQREVFLLRE----HGDLSLEEIAQLTGVPLETVKSRLRYALQKL  183 (194)
T ss_pred             HHHCCC-CCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf             650367-78899999999999999999999729989999999999----8499999999998949999999999999999


Q ss_pred             CC
Q ss_conf             29
Q gi|254780289|r  668 KH  669 (682)
Q Consensus       668 ~~  669 (682)
T Consensus       184 r~  185 (194)
T PRK12513        184 RE  185 (194)
T ss_pred             HH
T ss_conf             99