HHsearch alignment for GI: 254780611 and conserved domain: PRK12547
>PRK12547 RNA polymerase sigma factor; Provisional.
Probab=99.39 E-value=7.7e-11 Score=91.96 Aligned_cols=160 Identities=12% Similarity=0.139 Sum_probs=111.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf 59999999994307787565555799998889999998889989862185345689997577899999985320246001
Q gi|254780611|r 46 DLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 (302)
Q Consensus 46 d~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IR 125 (302)
T Consensus 4 ~~~~F~~l~~~~~p~L~~~a~~l~~~~~~AeDlvQe~flk~~~~~~~~~~~--~~~~~Wl~~IarN~~~d~~-------- 73 (164)
T PRK12547 4 TSKNFKQELLAALPSLRAFAVSLSSKHDKADDLVQDTLMKAWAKQDSFQPG--TNLKAWLFTILRNEFYSQM-------- 73 (164)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHHHHH--------
T ss_conf 799999999998999999999994999999999999999999988876998--8699999999999999999--------
Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCCCC
Q ss_conf 10230035899999999788786624478882467788861898321100000012234335520232345320000012
Q gi|254780611|r 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV 205 (302)
Q Consensus 126 iP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~l~ 205 (302)
T Consensus 74 --------------Rk~~r~~--------~--~------------~-----~~~~~------~------~--------~- 91 (164)
T PRK12547 74 --------------RKRGREV--------Q--D------------S-----DGVFT------A------R--------L- 91 (164)
T ss_pred --------------HHHCCCC--------C--C------------C-----CCCCC------C------C--------C-
T ss_conf --------------9727877--------6--5------------2-----10110------1------2--------5-
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 35687056556666666777999999621999999999998278888898999999778999999999999999999999
Q gi|254780611|r 206 YDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 (302)
Q Consensus 206 ~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~ 285 (302)
T Consensus 92 ~~~~~~~----~~~~----~~~l~~al~~Lp~~~r~v~~L~~~~g--~s~~EIA~~lgis~~tVksrl~rAr~~Lr~~Lk 161 (164)
T PRK12547 92 AVHPAQY----GSLD----LQDFRKALNLLPADQREAIILIGASG--FSYEEAAEICGCAVGTIKSRVSRARNRLQELLK 161 (164)
T ss_pred CCCCHHH----HHHH----HHHHHHHHHHCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 6894024----3689----99999999858999999999899849--999999999893999999999999999999987
Q ss_pred HH
Q ss_conf 74
Q gi|254780611|r 286 KQ 287 (302)
Q Consensus 286 ~~ 287 (302)
T Consensus 162 ~~ 163 (164)
T PRK12547 162 ID 163 (164)
T ss_pred HC
T ss_conf 67