HHsearch alignment for GI: 254780289 and conserved domain: PRK09415
>PRK09415 RNA polymerase factor sigma C; Reviewed.
Probab=98.68 E-value=4.7e-06 Score=66.73 Aligned_cols=159 Identities=17% Similarity=0.155 Sum_probs=114.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEEC
Q ss_conf 24689998755578999887522356777887544367999988743854573120102898999999999722870461
Q gi|254780289|r 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 (682)
Q Consensus 442 ~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~ 521 (682)
T Consensus 15 e~Af~~L~~~y~~~v~~~~~~~~~d~~~AeD~~Qe~fl~~~~~~~~~~~~~--~~~---~Wl~~ia~N~~~--------- 80 (177)
T PRK09415 15 EDLIDEIMNKYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGKS--NLK---TWLYRIAINHCK--------- 80 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCC--CHH---HHHHHHHHHHHH---------
T ss_conf 999999999999999999999909999999999999999999874558855--499---999999999999---------
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHH
Q ss_conf 42058898999999999877608899978999870999899999998608987553635889986047562389889989
Q gi|254780289|r 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 (682)
Q Consensus 522 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~ 601 (682)
T Consensus 81 --------d~~R~~~~-------~~~~~~~--------------------------~~-----~----~~~~-~~~~~~~ 109 (177)
T PRK09415 81 --------DYLKSWHN-------KKVIVTE--------------------------DI-----F----TYME-SQKESVE 109 (177)
T ss_pred --------HHHHHHHC-------CCCCCCH--------------------------HH-----H----HHCC-CCCCCHH
T ss_conf --------99999871-------3556303--------------------------56-----6----4025-5579989
Q ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 99999999999999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 (682)
Q Consensus 602 ~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~ 669 (682)
T Consensus 110 ~~~~~~~~~~~l~~~l~~L~~~~r~ii~l~~----~~~~s~~EIA~~l~is~~tV~~rl~Rark~Lr~ 173 (177)
T PRK09415 110 EEVIQNAEDERLASAVMSLPIKYREVIYLFY----YEELSIKEIATVTGVNENTIKTRLKKAKELLKK 173 (177)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 9999999999999999769999999999999----809989999998892999999999999999998