HHsearch alignment for GI: 254780289 and conserved domain: PRK12524

>PRK12524 RNA polymerase sigma factor; Provisional.
Probab=98.85  E-value=8.4e-07  Score=72.64  Aligned_cols=169  Identities=16%  Similarity=0.235  Sum_probs=124.8

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 ~~Lv~~~~~GD~---~Af~~L~~ry~~~l~~~a~~~l~d~~~AEDlvQe~Fl~~~~~~~~~~~~~~-~~~t---WL~~Ia   86 (196)
T PRK12524         14 EALLVLFANGDP---AAARALTLRLAPRALAVATRVLGNRAEAEDVTQEAMLRLWRIAPDWRQGEA-RVST---WLYRVV   86 (196)
T ss_pred             HHHHHHHHHCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCC-HHHH---HHHHHH
T ss_conf             999999992889---999999999999999999999199999999999999999997466156520-7999---999999


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        87 ~N~~~d-----------------~~R~~~--------~--------------------------~~~~~~------~~~~  109 (196)
T PRK12524         87 CNLCTD-----------------RLRRQR--------R--------------------------ASVDLD------DAPE  109 (196)
T ss_pred             HHHHHH-----------------HHHHHH--------C--------------------------CCCCCC------CCCC
T ss_conf             999999-----------------999850--------5--------------------------677611------2433


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       110 ----~~-~~~~~~e~~~~~~~~~~~l~~al~~Lp~~~R~vi~L~~----~eg~s~~EIA~~lgis~~tVk~~l~Rark~L  180 (196)
T PRK12524        110 ----PA-DAAPGAEEALQEGDRMRALDAALAALPERQRQAVVLRH----IEGLSNPEIAEVMQIGVEAVESLTARGKRAL  180 (196)
T ss_pred             ----CC-CCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf             ----24-56898879999899999999999859999999989999----8089999999998929999999999999999


Q ss_pred             CC
Q ss_conf             29
Q gi|254780289|r  668 KH  669 (682)
Q Consensus       668 ~~  669 (682)
T Consensus       181 r~  182 (196)
T PRK12524        181 AA  182 (196)
T ss_pred             HH
T ss_conf             99