HHsearch alignment for GI: 254780289 and conserved domain: PRK09649
>PRK09649 RNA polymerase sigma factor SigC; Reviewed.
Probab=98.26 E-value=0.00011 Score=55.84 Aligned_cols=171 Identities=18% Similarity=0.132 Sum_probs=112.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHH
Q ss_conf 12688999999876533211246899987555789998875223567778875443679999887438545731201028
Q gi|254780289|r 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 (682)
Q Consensus 422 l~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~ 501 (682)
T Consensus 6 ~dd~~l~aLv~~a~~GD~~---Af~~L~~~~~~~v~r~~~-~l~d~~~AeDl~QEtFlka~~~l~~f~~~s--~f~---t 76 (185)
T PRK09649 6 SDDEAVTALALSAAKGNGR---ALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSARS--SAR---T 76 (185)
T ss_pred CCHHHHHHHHHHHHHCCHH---HHHHHHHHHHHHHHHHHH-HHCCHHHHHHHHHHHHHHHHHHHHHCCCCC--CHH---H
T ss_conf 4609999999999944799---999999999999999999-938998999999999999999887628876--189---9
Q ss_pred HHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 98999999999722870461420588989999999998776088999789998709998999999986089875536358
Q gi|254780289|r 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 (682)
Q Consensus 502 ~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~ 581 (682)
T Consensus 77 WL~~IA~N~~~d-----------------~~Rk~~--------~~~~~-------------------------~~----~ 102 (185)
T PRK09649 77 WLLAIARHVVAD-----------------HIRHVR--------SRPRT-------------------------TR----G 102 (185)
T ss_pred HHHHHHHHHHHH-----------------HHHHHH--------CCCCC-------------------------CC----C
T ss_conf 999999999999-----------------999874--------37764-------------------------34----4
Q ss_pred CCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHH
Q ss_conf 89986047562389889989999999999999999732998899999998187986746889998996678999999999
Q gi|254780289|r 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 (682)
Q Consensus 582 ~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~ 661 (682)
T Consensus 103 ~~~e~-~~~--~~~~~~~~e~-------~~~l~~al~~Lp~~~R~vl~L~~----~egls~~EIA~~lg~~~gTVKsRl~ 168 (185)
T PRK09649 103 ARPEH-LID--GDRHARGFED-------LVEVTTMIADLTTDQREALLLTQ----LLGLSYADAAAVCGCPVGTIRSRVA 168 (185)
T ss_pred CCHHH-CCC--CCCCCCCHHH-------HHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHH
T ss_conf 57231-158--4311023788-------99999999849999999999899----7299999999998939999999999
Q ss_pred HHHHHHCC
Q ss_conf 99998329
Q gi|254780289|r 662 KAIRKLKH 669 (682)
Q Consensus 662 ~a~~~l~~ 669 (682)
T Consensus 169 RAR~~L~a 176 (185)
T PRK09649 169 RARDALLA 176 (185)
T ss_pred HHHHHHHH
T ss_conf 99999997