HHsearch alignment for GI: 254780289 and conserved domain: PRK13919
>PRK13919 putative RNA polymerase sigma E protein; Provisional.
Probab=99.07 E-value=1.7e-08 Score=86.02 Aligned_cols=172 Identities=20% Similarity=0.283 Sum_probs=117.3
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 11 ~eLi~~~~~GD~---~Af~~L~~ry~~~l~~~~~~~~~d~~~AEDivQe~flki~~~~~~~~~~~~-~~~~w---L~~ia 83 (187)
T PRK13919 11 EALLALVARGDE---EAFRALFRRYAGSFLALARRMGLDGAAAEDVVQEAMIRVWQKAKEFDPRRG-SARAF---LLTLG 83 (187)
T ss_pred HHHHHHHHHCCH---HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCC-CHHHH---HHHHH
T ss_conf 999999994779---999999999999999999999099999999999999999999987687646-49999---99999
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 84 ~n~~~-----------------d~~Rk----------------------------------~~~~~~~~~~~~~-~~~~~ 111 (187)
T PRK13919 84 HHAAV-----------------DEVRR----------------------------------RAARPLPLEPDPE-REEEA 111 (187)
T ss_pred HHHHH-----------------HHHHH----------------------------------HHCCCCCCCCCCH-HHHHH
T ss_conf 99999-----------------99997----------------------------------6267787776610-11332
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 112 ~-~------~~~~~~~~e~~~~~~~l~~al~~L~~~~r~vi~L~~----~~g~s~~EIA~~L~is~~TVk~~l~rA~k~L 180 (187)
T PRK13919 112 F-D------LPGPGLDEEGHLDRTRLGRALKALSPEERRVIEVLY----YQGYTHREAARLLGLPLGTLKTWARRALSKL 180 (187)
T ss_pred C-C------CCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf 0-4------688640278789999999999849999999999999----8599999999998939999999999999999
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 (187)
T PRK13919 181 KE 182 (187)
T ss_pred HH
T ss_conf 99