HHsearch alignment for GI: 254780289 and conserved domain: PRK12528
>PRK12528 RNA polymerase sigma factor; Provisional.
Probab=97.66 E-value=0.0049 Score=42.95 Aligned_cols=154 Identities=14% Similarity=0.133 Sum_probs=98.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCC
Q ss_conf 68999875557899988752235677788754436799998874385457312010289899999999972287046142
Q gi|254780289|r 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 (682)
Q Consensus 444 AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~ 523 (682)
T Consensus 11 ~~e~ly~~~~~~L~~~~~r~~g~~~~AEDivQd~Flrl~~~~~~~~~------~~~~a-yL~~iA~n~~id~~R------ 77 (167)
T PRK12528 11 TVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQI------IEPRA-FLTTIAKRVLCNHYR------ 77 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCC------CCHHH-HHHHHHHHHHHHHHH------
T ss_conf 99999999999999999999398857999999999999965654465------67999-999999999999999------
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHH
Q ss_conf 05889899999999987760889997899987099989999999860898755363588998604756238988998999
Q gi|254780289|r 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 (682)
Q Consensus 524 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~ 603 (682)
T Consensus 78 ----------~~~~~~~-------~~~~~-----------------~~--------------------~~~~~~~~~e~~ 103 (167)
T PRK12528 78 ----------RQDLERA-------YLEAL-----------------AQ--------------------LPERVAPSEEER 103 (167)
T ss_pred ----------HHHHHHH-------HHHHH-----------------HC--------------------CCCCCCCCHHHH
T ss_conf ----------9998998-------99887-----------------63--------------------653246985789
Q ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHC
Q ss_conf 99999999999997329988999999981879867468899989966789999999999999832
Q gi|254780289|r 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 (682)
Q Consensus 604 ~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~ 668 (682)
T Consensus 104 ~~~~e~~~~l~~~l~~LP~~~R~vf~L~r----~~gls~~EIA~~LgiS~~tVk~~l~rA~~~c~ 164 (167)
T PRK12528 104 AIILETLVELDRLLDGLPPLVKRAFLLAQ----VDGLGYGEIATELGISLATVKRYLNKAAMRCY 164 (167)
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
T ss_conf 99999999999998709999999999999----82989999999979799999999999999999