HHsearch alignment for GI: 254780289 and conserved domain: PRK12518
>PRK12518 RNA polymerase sigma factor; Provisional.
Probab=98.62 E-value=3.8e-06 Score=67.52 Aligned_cols=165 Identities=18% Similarity=0.200 Sum_probs=109.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHH
Q ss_conf 99876533211246899987555789998875223567778875443679999887438545731201028989999999
Q gi|254780289|r 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 (682)
Q Consensus 431 ~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~ 510 (682)
T Consensus 2 i~~~~~Gd~---~Af~~ly~~y~~~l~~~~~~~~~~~-~AEDi~Qd~fik~~~~~~~~~~~--~~~~~----wl~~ia~N 71 (175)
T PRK12518 2 IQRCQRGDR---QAFRQLYRRYQQKVRSTLYQLCGRE-LLDDLVQEVFLRVWKGLPKLRNP--AYFST----WLYRITWN 71 (175)
T ss_pred HHHHHHCCH---HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHHCCCCCCCC--CHHHH----HHHHHHHH
T ss_conf 898986589---9999999999999999999977998-89999999999998711127982--35999----99999999
Q ss_pred HHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEE
Q ss_conf 99722870461420588989999999998776088999789998709998999999986089875536358899860475
Q gi|254780289|r 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 (682)
Q Consensus 511 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~ 590 (682)
T Consensus 72 ~~----------------~d~~Rk~~r----------------------------------~~~~~~~~~~~~~------ 95 (175)
T PRK12518 72 VA----------------TDARRQFAK----------------------------------RPSRIQQDSSLDQ------ 95 (175)
T ss_pred HH----------------HHHHHHHHC----------------------------------CCCCCCCCCCCCC------
T ss_conf 99----------------999999870----------------------------------2432332100024------
Q ss_pred EECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 6238988998999999999999999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 (682)
Q Consensus 591 ~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~ 669 (682)
T Consensus 96 --~~~~~~~~--~~~~~~~~~~l~~~l~~Lp~~~r~vi~l~~----~~~~s~~EIA~~l~is~~tVk~~l~Ra~k~Lr~ 166 (175)
T PRK12518 96 --PSRPSDEP--DLMQLHYQDLVQQGLATLSLEHRAVLVLHD----LEDLPQKEIAEILNIPVGTVKSRLFYARRQLRK 166 (175)
T ss_pred --CCCCCCCH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf --56788976--999999999999999769999999999999----929999999999895999999999999999999