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