HHsearch alignment for GI: 254780289 and conserved domain: PRK12526

>PRK12526 RNA polymerase sigma factor; Provisional.
Probab=98.70  E-value=2e-06  Score=69.77  Aligned_cols=174  Identities=14%  Similarity=0.162  Sum_probs=117.7

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        26 ~~Lv~~A~~GD---~~AF~~Ly~~y~~~l~~~~~r~l~d~~~AEDvvQetFlkvw~~~~~~~~~~~-~f~tW----L~~I   97 (206)
T PRK12526         26 QWLILVAISRD---KQAFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTW----VYTV   97 (206)
T ss_pred             HHHHHHHHHCC---HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCC-HHHHH----HHHH
T ss_conf             99999999658---9999999999999999999999199999999999999999983876586425-29999----9999


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        98 arN~~~d~----------------lRk~~~~---------------------------------~~~~~----~~-d~~~  123 (206)
T PRK12526         98 MRNAAFDM----------------LRKIKAK---------------------------------KEQNL----GD-DIWP  123 (206)
T ss_pred             HHHHHHHH----------------HHHHHCC---------------------------------CCCCC----CC-HHCH
T ss_conf             99999999----------------9865312---------------------------------22232----10-0000


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       124 ~~~~~~~-~~-~~~~~~~~~~~~~~l~~~l~~LP~~~R~vi~L~~----~egls~~EIA~~l~is~~TVksrl~rAlk~L  197 (206)
T PRK12526        124 IEQALAE-SQ-SESEEFSDHLMDKQILSYIEKLPEAQQTVVKGVY----FQELSQEQLAQQLNVPLGTVKSRLRLALAKL  197 (206)
T ss_pred             HHHCCCC-CC-CCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf             4430145-78-8357899899999999999868999888989999----8599999999998939999999999999999


Q ss_pred             CC
Q ss_conf             29
Q gi|254780289|r  668 KH  669 (682)
Q Consensus       668 ~~  669 (682)
T Consensus       198 R~  199 (206)
T PRK12526        198 KV  199 (206)
T ss_pred             HH
T ss_conf             99