HHsearch alignment for GI: 254780289 and conserved domain: PRK12546
>PRK12546 RNA polymerase sigma factor; Provisional.
Probab=98.34 E-value=5.8e-05 Score=58.12 Aligned_cols=153 Identities=16% Similarity=0.134 Sum_probs=100.7
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 7 ~~~~~~l~e-H~p~L~~fa~r~~~~~~~AEDlvQEtflk~~~~l~~~~~~~--~~~t---WL~~IarN~~~--------- 71 (188)
T PRK12546 7 RDPRDELVE-HLPALRAFAISLTRNVAAADDLVQDTVVKAWTNFDKFQEGT--NLRA---WLFTILRNTFY--------- 71 (188)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCC--CHHH---HHHHHHHHHHH---------
T ss_conf 629999999-99999999999919999999999999999999787647653--1388---99999999999---------
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 72 --------d----~~Rk----~~r~~--------------------------~~~~~~~~---~----~~~~~---~~~~ 99 (188)
T PRK12546 72 --------S----DRRK----HKREV--------------------------EDPEGVHA---A----SLAVK---PAHD 99 (188)
T ss_pred --------H----HHHH----HCCCC--------------------------CCCCCCCC---C----CCCCC---CCCH
T ss_conf --------9----9997----44777--------------------------76421112---3----34689---8700
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 100 ~~~----~~~~l~~aL~~LP~~~R~vl~L~~----~egls~~EIAe~Lgis~gTVKsRL~RAR~~Lr~ 159 (188)
T PRK12546 100 GRL----AMSDFRAAFAQLPDEQREALILVG----ASGFSYEEAAEMCGVAVGTVKSRANRARARLAE 159 (188)
T ss_pred HHH----HHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 689----999999999869999988958799----829899999999893999999999999999999