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