HHsearch alignment for GI: 254780611 and conserved domain: PRK12545
>PRK12545 RNA polymerase sigma factor; Provisional.
Probab=99.54 E-value=8.1e-13 Score=105.20 Aligned_cols=177 Identities=10% Similarity=0.153 Sum_probs=112.8
Q ss_pred HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHHH
Q ss_conf 94307787565555799998889999998889989862185345689997577899999985320246001102300358
Q gi|254780611|r 55 TSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKR 134 (302)
Q Consensus 55 ~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~~~~r~ 134 (302)
T Consensus 15 ~~~r~~L~r~A~~~l~d~~~AEDlvQEtflka~~~~~~F~g~--ss~~TWL~~Ia~N~~id~lRkr~r~~~~~~------ 86 (201)
T PRK12545 15 AQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQ--SAHKTWVFGILRNKLIDTLRARRRTINLSA------ 86 (201)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCC--CHHHHHHHHHHHHHHHHHHHHHCCCCCCCC------
T ss_conf 999999999999990999899999999999999854045875--238999999999999999996157788553------
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCCCCCCCCCCHHH
Q ss_conf 99999999788786624478882467788861898321100000012234335520232345320000012356870565
Q gi|254780611|r 135 LFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQV 214 (302)
Q Consensus 135 l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~l~~~~~~~~~~ 214 (302)
T Consensus 87 ---------------------------~----d----------~~~d~e~~~d~~~~~--d~----g~w~~~~~p~~~~~ 119 (201)
T PRK12545 87 ---------------------------L----D----------AELDGESLLDRELFK--DN----GHWAAHAKPRPWPK 119 (201)
T ss_pred ---------------------------C----C----------CCCCCCCCCHHHHHC--CC----CCCCCCCCCCCCCC
T ss_conf ---------------------------4----4----------454632111055403--44----54323357888999
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 56666666777999999621999999999998278888898999999778999999999999999999999740
Q gi|254780611|r 215 LIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 (302)
Q Consensus 215 ~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~~~~ 288 (302)
T Consensus 120 Pe~~l~~~e~~~~l~~aL~~LP~~~R~v~~Lr~~eg--ls~~EIA~~L~is~~tVksrL~RAR~~LR~~L~ek~ 191 (201)
T PRK12545 120 PETILQQQQFWTLFETCLDHLPEQIGRVFMMREFLD--FEIDDICTELTLTANHCSVLLYRARTRLRTCLSEKG 191 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 899999999999999999959999988989999928--989999999896999999999999999999999818