HHsearch alignment for GI: 254780611 and conserved domain: PRK09644

>PRK09644 RNA polymerase sigma factor SigM; Provisional.
Probab=99.46  E-value=7.7e-12  Score=98.64  Aligned_cols=157  Identities=11%  Similarity=0.147  Sum_probs=110.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCC
Q ss_conf             99999943077875655557999988899999988899898621853456899975778999999853202460011023
Q gi|254780611|r   50 AHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTT  129 (302)
Q Consensus        50 r~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~  129 (302)
T Consensus         3 ~E~ly~~y~~~l~~~~~~~~~d~~~AeDl~Qe~flk~~~~~~~~~~~---~~~~WL~~Ia~n~~~d~~Rk~~r~~~----   75 (165)
T PRK09644          3 IEEIYKMYINDVYRYLFSLTKSHHLAEDLLQETFYRAYIYLEDYDNQ---KVKPWLFKVAYHTFIDFVRKEKKVVF----   75 (165)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCC---CHHHHHHHHHHHHHHHHHHHHCCCCC----
T ss_conf             99999999999999999990999999999999999999988766813---18999999999999999997447577----


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCCCCCCCC
Q ss_conf             00358999999997887866244788824677888618983211000000122343355202323453200000123568
Q gi|254780611|r  130 ANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHD  209 (302)
Q Consensus       130 ~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~l~~~~~  209 (302)
T Consensus        76 --------------------------------------~~~~-------------~~~~---------------~~--~~   87 (165)
T PRK09644         76 --------------------------------------VGTD-------------EIET---------------IQ--AE   87 (165)
T ss_pred             --------------------------------------CCHH-------------HHCC---------------CC--CC
T ss_conf             --------------------------------------6521-------------1001---------------13--58


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             705655666666677799999962199999999999827888889899999977899999999999999999999974
Q gi|254780611|r  210 GQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ  287 (302)
Q Consensus       210 ~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~~~  287 (302)
T Consensus        88 ~~~~~~----~~~e~~~~l~~~l~~Lp~~~r~v~~L~~~~~--~s~~EIA~~l~is~~tVk~rl~RAr~~Lr~~L~~e  159 (165)
T PRK09644         88 STEEYA----VAKNSYEKLIQIIHTLPVIEAQAILLCDVHE--LTYEEAASVLDLKENTYKSHLFRGRKRLKALLKEE  159 (165)
T ss_pred             CHHHHH----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             801499----9899999999998729999999999999988--89999999989399999999999999999999987