HHsearch alignment for GI: 254780611 and conserved domain: PRK05602
>PRK05602 RNA polymerase sigma factor; Reviewed.
Probab=99.75 E-value=4.5e-16 Score=126.92 Aligned_cols=177 Identities=18% Similarity=0.228 Sum_probs=127.5
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 5 ~sD~eLi~~~~-~Gd~~Af~~L~~~y~~~l~~~~~~~~~d~~~AeDivQe~fl~~~~~~~~~~~~~~-~~~~wL~~ia~n 82 (186)
T PRK05602 5 DPDAELMARVG-AGDASAFRVLVARKLPRLLALATRMLGDPAEAEDVAQETFLRIWNQAPSWRPGEA-RFDTWLHRVVLN 82 (186)
T ss_pred CCHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCH-HHHHHHHHHHHH
T ss_conf 42999999999-2889999999999999999999999299999999999999999987222588620-399999999999
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 83 ~~~d~----------------------~Rk~~-~~----------~------------~~~-------------~~~--- 101 (186)
T PRK05602 83 LCYDR----------------------LRRRR-EV----------P------------VED-------------APE--- 101 (186)
T ss_pred HHHHH----------------------HHHHH-CC----------C------------CCC-------------CCC---
T ss_conf 99999----------------------98714-15----------7------------322-------------200---
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 102 ------------~~~~~~~~~~~~----~~~e~~~~l~~al~~Lp~~~R~v~~L~~~~g--~s~~EIA~~l~is~~tVk~ 163 (186)
T PRK05602 102 ------------VPDPAPGPDERL----EARQRARRVEQALAALPERQREAIVLQYYQG--LSNIEAARVMGLSVDALES 163 (186)
T ss_pred ------------CCCCCCCHHHHH----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHH
T ss_conf ------------034689877899----9999999999999759987889999998638--9999999998939999999
Q ss_pred HHHHHHHHHHHHHHHHHC
Q ss_conf 999999999999997401
Q gi|254780611|r 272 IEARAFKKVQESIQKQVE 289 (302)
Q Consensus 272 I~~~AL~kLR~~l~~~~~ 289 (302)
T Consensus 164 ~l~RAr~~Lr~~L~e~~~ 181 (186)
T PRK05602 164 LLARARRALRAQLAELPP 181 (186)
T ss_pred HHHHHHHHHHHHHHCCCC
T ss_conf 999999999999766797