HHsearch alignment for GI: 254780611 and conserved domain: PRK07122
>PRK07122 RNA polymerase sigma factor SigF; Reviewed.
Probab=100.00 E-value=0 Score=431.58 Aligned_cols=249 Identities=20% Similarity=0.261 Sum_probs=206.7
Q ss_pred HHHHHHHHHHHCCCCCCHHHHHHHHHHHH--HHCC---HHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 05999999840799999899999999999--8285---999999999430778756555579999888999999888998
Q gi|254780611|r 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYR--EHGD---LSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQ 88 (302)
Q Consensus 14 ~~~~~yl~~i~~~~~Lt~eee~~l~~~~~--~~gd---~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~ 88 (302)
T Consensus 8 ~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~aR~~lI~~nLrLV~~iA~ry~~rGl~~~DLiQeG~iGLi~ 79 (263)
T PRK07122 8 GGSARRPDEYADVPE--------MFRELAGLPAGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVN 79 (263)
T ss_pred CCCCCCCCCHHHHHH--------HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf 999998430335999--------999998568999899999999999909999999987216898888999999999999
Q ss_pred HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCC
Q ss_conf 98621853456899975778999999853202460011023003589999999978878662447888246778886189
Q gi|254780611|r 89 AVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNV 168 (302)
Q Consensus 89 Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgi 168 (302)
T Consensus 80 A~ekFDp~rG~rFsTYA~~wIrgaI~r~lr~~~~~IRlP~~~~-----~~~~ki~~~~~~l~~~~gr~Pt~~EiA~~lg~ 154 (263)
T PRK07122 80 AVNRFDVEAGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLK-----ELHLRLGRATAELSQRLGRAPTASELAAELGM 154 (263)
T ss_pred HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHH-----HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCC
T ss_conf 9997198779985999999999999999998287546579999-----99899999999999986889999999989693
Q ss_pred CCCCCCCCCCC--CCCCCCHHHHCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf 83211000000--1223433552023234532000001235687056556666666777999999621999999999998
Q gi|254780611|r 169 SESEVISMNCR--LAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEAR 246 (302)
Q Consensus 169 s~~~v~~l~~~--~~~~~SLd~~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~r 246 (302)
T Consensus 155 ~~~~v~~~l~~~~~~~~~SlD~~~~~~~~~~~~l~d~~~d~~~----~~----e~~~~~~~L~~~l~~L~eREr~Vi~lr 226 (263)
T PRK07122 155 DREEVVEGLVAGSSYNTLSIDSGGGSGDDDARAIADTLGDVDA----GL----DHIENREALRPLLAALPERERTVLVLR 226 (263)
T ss_pred CHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCH----HH----HHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf 9999999998733589877878888888652035464169764----28----999999999999975999999999999
Q ss_pred HCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 278888898999999778999999999999999999999
Q gi|254780611|r 247 RLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 (302)
Q Consensus 247 y~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~ 285 (302)
T Consensus 227 y~--e~~Tl~EIa~~lGiSreRVrQIe~~AL~KLR~~Le 263 (263)
T PRK07122 227 FF--ESMTQTQIAERVGISQMHVSRLLAKSLARLRDQLE 263 (263)
T ss_pred HC--CCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHC
T ss_conf 56--99989999999897999999999999999999749