HHsearch alignment for GI: 254780611 and conserved domain: PRK06811
>PRK06811 RNA polymerase factor sigma-70; Validated.
Probab=99.76 E-value=3.7e-16 Score=127.52 Aligned_cols=174 Identities=18% Similarity=0.253 Sum_probs=125.2
Q ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf 999999999828599999999943077875655557999---98889999998889989862185345689997577899
Q gi|254780611|r 34 EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYG---LPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIK 110 (302)
Q Consensus 34 e~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g---~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr 110 (302)
T Consensus 3 d~~Li~~~~-~GD~~Af~~l~~~y~~~v~~~~~~~l~~~~~~~~aeD~vQevFi~~~~~~~~~~~~~~-~f~~WL~~Ia~ 80 (185)
T PRK06811 3 EDNFIKELK-KKNEKALEFIIDTYGNLIKKIVHKVLGTDQYKQLIEECVNDIFLSIWNNIDKFDEEKG-SFKNWIAAISK 80 (185)
T ss_pred HHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCHHCCCCCC-CHHHHHHHHHH
T ss_conf 999999998-2789999999999999999999999677688989999999999999983700388645-29999999999
Q ss_pred HHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHC
Q ss_conf 99998532024600110230035899999999788786624478882467788861898321100000012234335520
Q gi|254780611|r 111 AAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALI 190 (302)
Q Consensus 111 ~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i 190 (302)
T Consensus 81 n~~~d~~Rk~~r----------------------~~~------------------------------------~~~~~~~ 102 (185)
T PRK06811 81 YKAIDYKRKLTK----------------------NNN------------------------------------IDSDEFI 102 (185)
T ss_pred HHHHHHHHHHCC----------------------CCC------------------------------------CCHHHHC
T ss_conf 999999997426----------------------566------------------------------------6456521
Q ss_pred CCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHH
Q ss_conf 23234532000001235687056556666666777999999621999999999998278888898999999778999999
Q gi|254780611|r 191 NSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVR 270 (302)
Q Consensus 191 ~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVr 270 (302)
T Consensus 103 --------------~~~~~~~e~~~~----~~e~~~~l~~~l~~L~~~~r~v~~l~~~~~--~s~~EIA~~l~is~~tVk 162 (185)
T PRK06811 103 --------------LISEESIENEII----LKENKEEIIKLINDLKKLDREIFIKRYLLG--ESIEEIAKKLGLTRSAID 162 (185)
T ss_pred --------------CCCCCCHHHHHH----HHHHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHH
T ss_conf --------------355588788999----999999999998489999999999999949--999999999892999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q ss_conf 99999999999999974
Q gi|254780611|r 271 QIEARAFKKVQESIQKQ 287 (302)
Q Consensus 271 QI~~~AL~kLR~~l~~~ 287 (302)
T Consensus 163 ~rl~Rar~~Lr~~L~~~ 179 (185)
T PRK06811 163 NRLSRGRKKLKNKLNIL 179 (185)
T ss_pred HHHHHHHHHHHHHHHHH
T ss_conf 99999999999998898