HHsearch alignment for GI: 254780289 and conserved domain: COG1595
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription].
Probab=98.66 E-value=5.3e-06 Score=66.36 Aligned_cols=164 Identities=18% Similarity=0.201 Sum_probs=111.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCE
Q ss_conf 21124689998755578999887522356777887544367999988743854573120102898999999999722870
Q gi|254780289|r 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 (682)
Q Consensus 439 ~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~ 518 (682)
T Consensus 11 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~--~~~~~~~~wl---~~Ia~n~~i------ 79 (182)
T COG1595 11 RGDRAAFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF--RGRSSFKAWL---YRIARNLAI------ 79 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHHC--CCCCCHHHHH---HHHHHHHHH------
T ss_conf 75178899999999999999999996884309999999999999733311--6788789999---999999999------
Q ss_pred EECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCC
Q ss_conf 46142058898999999999877608899978999870999899999998608987553635889986047562389889
Q gi|254780289|r 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 (682)
Q Consensus 519 ~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~ 598 (682)
T Consensus 80 -----------D~~R~~~r~~~~---------------------------------~~~~~----~-~---~~~~~~~~~ 107 (182)
T COG1595 80 -----------DRLRKRKRRRAR---------------------------------VEEAD----L-L---PEEADPAPD 107 (182)
T ss_pred -----------HHHHHHHHHCCH---------------------------------HHHCC----C-C---CCCCCCCCH
T ss_conf -----------999976101320---------------------------------01000----2-4---543456702
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCH
Q ss_conf 989999999999999999732998899999998187986746889998996678999999999999983296
Q gi|254780289|r 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 (682)
Q Consensus 599 ~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~~ 670 (682)
T Consensus 108 ~~-~~~~~~~~~~~l~~al~~Lp~~~R~~~~l~~----~~gls~~EIA~~l~i~~~tVks~l~ra~~~l~~~ 174 (182)
T COG1595 108 LA-ELLLAEEELERLRRALARLPPRQREAFLLRY----LEGLSYEEIAEILGISVGTVKSRLHRARKKLREQ 174 (182)
T ss_pred HH-HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_conf 67-8887678999999999839999999999999----8599999999895999999999999999999998