HHsearch alignment for GI: 254780611 and conserved domain: PRK12532
>PRK12532 RNA polymerase sigma factor; Provisional.
Probab=99.56 E-value=1.1e-12 Score=104.25 Aligned_cols=178 Identities=13% Similarity=0.126 Sum_probs=111.4
Q ss_pred HHHHHHHHHHHHHHH-HHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCCC
Q ss_conf 999943077875655-5579999888999999888998986218534568999757789999998532024600110230
Q gi|254780611|r 52 RLVTSHLRLVVKIAM-GYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTA 130 (302)
Q Consensus 52 ~Li~~nlrlV~~iA~-~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~~ 130 (302)
T Consensus 10 ~l~~~r~~L~-~fa~~~L~~~~d~AEDlvQEtflka~~~~~~f~~--~s~f~tWL~~IarN~~id~lR~~~r~~~~~~~~ 86 (195)
T PRK12532 10 ELIESRKLLL-HFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQG--RALVNSWLFAILKNKIIDALRQIGRQRKVFTAL 86 (195)
T ss_pred HHHHHHHHHH-HHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf 9999899999-9999980898757999999999999986874589--887888999999999999999862766767532
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCCCCCCCCC
Q ss_conf 03589999999978878662447888246778886189832110000001223433552023234532000001235687
Q gi|254780611|r 131 NQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDG 210 (302)
Q Consensus 131 ~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~l~~~~~~ 210 (302)
T Consensus 87 ------------------------~----~e~~-------------------d~~~~~~~~~--~~~~-~~~~~p~~~~~ 116 (195)
T PRK12532 87 ------------------------D----DELL-------------------DEAFESHFSQ--NGHW-TPEGQPQHWNT 116 (195)
T ss_pred ------------------------C----HHHH-------------------HHHHHHHHCC--CCCC-CCCCCCCCCCC
T ss_conf ------------------------0----2333-------------------2566654201--3445-75446555499
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 056556666666777999999621999999999998278888898999999778999999999999999999999740
Q gi|254780611|r 211 QEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 (302)
Q Consensus 211 ~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~~~~ 288 (302)
T Consensus 117 pe~----~~~~~e~~~~l~~~l~~Lp~~~R~vl~L~~~eg--ls~~EIA~~lgis~~tVks~l~RAR~~Lr~~Le~k~ 188 (195)
T PRK12532 117 PEK----SLNNNEFQKILQSCLYNLPENTARVFTLKEILG--FSSDEIQQMCGISTSNYHTIMHRARESLRQCLQIKW 188 (195)
T ss_pred HHH----HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 999----999899999999999859999989999999819--999999999895999999999999999999998827