HHsearch alignment for GI: 254780289 and conserved domain: PRK11924

>PRK11924 RNA polymerase sigma factor; Provisional.
Probab=98.91  E-value=2.8e-07  Score=76.46  Aligned_cols=170  Identities=17%  Similarity=0.207  Sum_probs=122.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHH
Q ss_conf             99998765332112468999875557899988752235677788754436799998874385457312010289899999
Q gi|254780289|r  429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI  508 (682)
Q Consensus       429 ~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i  508 (682)
T Consensus         2 ~l~~~a~~Gd~---~Af~~ly~~y~~~l~~~~~~~~~d~~~AeDi~Qe~fi~l~~~~~~~~~~~~~~--~----wL~~ia   72 (180)
T PRK11924          2 QLPAVAASGDK---EAFSELFLPHAPDLLRYARRQLGNRALAEDAVQEAFLRAWRKADLFNGKGSAR--T----WLLTIA   72 (180)
T ss_pred             HHHHHHHHCCH---HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCHH--H----HHHHHH
T ss_conf             88899995599---99999999999999999999929999999999999999988632235434799--9----999999


Q ss_pred             HHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEE
Q ss_conf             99997228704614205889899999999987760889997899987099989999999860898755363588998604
Q gi|254780289|r  509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL  588 (682)
Q Consensus       509 ~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~  588 (682)
T Consensus        73 rn~~~d~~r----------------k~~~~-------------------------------~~~~~~~~~~---------   96 (180)
T PRK11924         73 RNKCYDMLR----------------RRRRE-------------------------------RKEAAEDEDL---------   96 (180)
T ss_pred             HHHHHHHHH----------------HHHHH-------------------------------CCCCCCHHHC---------
T ss_conf             999999999----------------97201-------------------------------0223311001---------


Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHC
Q ss_conf             75623898899899999999999999997329988999999981879867468899989966789999999999999832
Q gi|254780289|r  589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK  668 (682)
Q Consensus       589 ~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~  668 (682)
T Consensus        97 ~~~--~~~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~il~l~~----~~g~s~~eIA~~lgis~~tv~~~l~Ra~~~Lr  170 (180)
T PRK11924         97 APL--SAEFETPEAALLAKDDLARIDRCLDALPEKQREVFLLRY----VEGLSYQEIADQLGVPLGTVKSRLRRARQKLR  170 (180)
T ss_pred             CCC--CCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH----HHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
T ss_conf             333--446698589999999999999999859999999999999----96859999999989499999999999999999


Q ss_pred             C
Q ss_conf             9
Q gi|254780289|r  669 H  669 (682)
Q Consensus       669 ~  669 (682)
T Consensus       171 ~  171 (180)
T PRK11924        171 E  171 (180)
T ss_pred             H
T ss_conf             9