HHsearch alignment for GI: 254780289 and conserved domain: PRK07122

>PRK07122 RNA polymerase sigma factor SigF; Reviewed.
Probab=100.00  E-value=0  Score=478.33  Aligned_cols=236  Identities=24%  Similarity=0.382  Sum_probs=216.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHH
Q ss_conf             88999999876533211246899987555789998875223567778875443679999887438545731201028989
Q gi|254780289|r  425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV  504 (682)
Q Consensus       425 ~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i  504 (682)
T Consensus        21 ~~~~~~~~~~~~~~~~~~~aR~~lI~~nLrLV~~iA~ry~~rGl~~~DLiQeG~iGLi~A~ekFDp~rG~rFsTYA~~wI  100 (263)
T PRK07122         21 PEMFRELAGLPAGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVEAGSDFVSFAVPTI  100 (263)
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
T ss_conf             99999998568999899999999999909999999987216898888999999999999999719877998599999999


Q ss_pred             HHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHH--HCCCCCCCCCCCC
Q ss_conf             99999999722870461420588989999999998776088999789998709998999999986--0898755363588
Q gi|254780289|r  505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI--TKEPISLETPIGD  582 (682)
Q Consensus       505 ~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~sl~~~~~~  582 (682)
T Consensus       101 rgaI~r~lr~~~~~IRlP~~~~~~~~ki~~~~~~l~~~~gr~Pt~~EiA~~lg~~~~~v~~~l~~~~~~~~~SlD~~~~~  180 (263)
T PRK07122        101 MGEVRRHFRDNSWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLVAGSSYNTLSIDSGGGS  180 (263)
T ss_pred             HHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             99999999982875465799999989999999999998688999999998969399999999987335898778788888


Q ss_pred             CCCC--EEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHH
Q ss_conf             9986--04756238988998999999999999999973299889999999818798674688999899667899999999
Q gi|254780289|r  583 EDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE  660 (682)
Q Consensus       583 ~~~~--~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~  660 (682)
T Consensus       181 ~~~~~~~l~d~~~d~~-----~~~e~~~~~~~L~~~l~~L~eREr~Vi~lry~----e~~Tl~EIa~~lGiSreRVrQIe  251 (263)
T PRK07122        181 GDDDARAIADTLGDVD-----AGLDHIENREALRPLLAALPERERTVLVLRFF----ESMTQTQIAERVGISQMHVSRLL  251 (263)
T ss_pred             CCCCCCHHHHHCCCCC-----HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHC----CCCCHHHHHHHHCCCHHHHHHHH
T ss_conf             8865203546416976-----42899999999999997599999999999956----99989999999897999999999


Q ss_pred             HHHHHHHCC
Q ss_conf             999998329
Q gi|254780289|r  661 AKAIRKLKH  669 (682)
Q Consensus       661 ~~a~~~l~~  669 (682)
T Consensus       252 ~~AL~KLR~  260 (263)
T PRK07122        252 AKSLARLRD  260 (263)
T ss_pred             HHHHHHHHH
T ss_conf             999999999