HHsearch alignment for GI: 254780611 and conserved domain: PRK12538
>PRK12538 RNA polymerase sigma factor; Provisional.
Probab=99.71 E-value=3.3e-15 Score=121.14 Aligned_cols=175 Identities=15% Similarity=0.232 Sum_probs=128.0
Q ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHH
Q ss_conf 99999999999828599999999943077875655557999988899999988899898621853456899975778999
Q gi|254780611|r 32 QEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKA 111 (302)
Q Consensus 32 eee~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~ 111 (302)
T Consensus 48 d~D~eLv~R~~-~GD~~AF~~Ly~ry~~~l~~~a~r~l~d~~dAEDvvQEvFlk~w~~~~~f~~g~s-~f~tWL~~IA~N 125 (233)
T PRK12538 48 DEDEELLDRLA-TDDEAAFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSN 125 (233)
T ss_pred CCHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCCC-HHHHHHHHHHHH
T ss_conf 97899999999-6029999999999999999999999599999999999999999998844777867-399999999999
Q ss_pred HHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCC
Q ss_conf 99985320246001102300358999999997887866244788824677888618983211000000122343355202
Q gi|254780611|r 112 AMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALIN 191 (302)
Q Consensus 112 ~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~ 191 (302)
T Consensus 126 ~~id~----------------------~Rk~r------------~~~~------------------------d~~~e--- 144 (233)
T PRK12538 126 RCIDL----------------------RRKPR------------TENV------------------------DAVPE--- 144 (233)
T ss_pred HHHHH----------------------HHHHC------------CCCC------------------------CCCCC---
T ss_conf 99999----------------------97414------------5652------------------------23444---
Q ss_pred CCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHH
Q ss_conf 32345320000012356870565566666667779999996219999999999982788888989999997789999999
Q gi|254780611|r 192 SSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQ 271 (302)
Q Consensus 192 ~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQ 271 (302)
T Consensus 145 ------------~~d~~~~~~~~----l~~~e~~~~L~~aL~~Lp~~~R~vl~L~~~eg--ls~~EIA~~Lgis~~TVKs 206 (233)
T PRK12538 145 ------------VADGKPDAVSV----IERNELSDLLEAAMQRLPEQQRIAVILSYHEN--MSNGEIAEVMDTTVAAVES 206 (233)
T ss_pred ------------CCCCCCCHHHH----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHH
T ss_conf ------------45689888789----99999999999999759999999999999849--9999999998929999999
Q ss_pred HHHHHHHHHHHHHHHH
Q ss_conf 9999999999999974
Q gi|254780611|r 272 IEARAFKKVQESIQKQ 287 (302)
Q Consensus 272 I~~~AL~kLR~~l~~~ 287 (302)
T Consensus 207 rL~RAr~~LR~~L~r~ 222 (233)
T PRK12538 207 LLKRGRQQLRDLLRRH 222 (233)
T ss_pred HHHHHHHHHHHHHHHH
T ss_conf 9999999999999987