HHsearch alignment for GI: 254780611 and conserved domain: PRK12525
>PRK12525 RNA polymerase sigma factor; Provisional.
Probab=99.02 E-value=4.1e-08 Score=73.74 Aligned_cols=164 Identities=15% Similarity=0.102 Sum_probs=97.4
Q ss_pred HCCHHHH-HHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 2859999-999994307787565555799998889999998889989862185345689997577899999985320246
Q gi|254780611|r 44 HGDLSAA-HRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 (302)
Q Consensus 44 ~gd~~Ar-~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~ 122 (302)
T Consensus 4 ~~~~~~~l~~Lf~~~y~~L~~~~~r~lg~~~~AeDivQe~Flr~~~~~~~~~~---~~~~a~L~~iArnl~~d~------ 74 (168)
T PRK12525 4 GSIKNTLIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPASI---REPRALLTTIARRLMYEG------ 74 (168)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCC---CCHHHHHHHHHHHHHHHH------
T ss_conf 31898999999999999999999999498857999999999999867774554---588999999999999999------
Q ss_pred CHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHC
Q ss_conf 00110230035899999999788786624478882467788861898321100000012234335520232345320000
Q gi|254780611|r 123 LVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQD 202 (302)
Q Consensus 123 ~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d 202 (302)
T Consensus 75 ----------------~Rr~~~~~~----------~~~------------------------~~~----~~~~------- 93 (168)
T PRK12525 75 ----------------WRRQDLERA----------YLQ------------------------SLA----EAPE------- 93 (168)
T ss_pred ----------------HHHHHHHHH----------HHH------------------------HHH----CCCC-------
T ss_conf ----------------999999998----------888------------------------885----1666-------
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Q ss_conf 01235687056556666666777999999621999999999998278888898999999778999999999999999999
Q gi|254780611|r 203 WLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQE 282 (302)
Q Consensus 203 ~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~ 282 (302)
T Consensus 94 ---~~~~~pe~~~~~~----e~~~~l~~al~~LP~~~R~vflL~~~eG--lsy~EIAe~LgIS~~tV~~~l~rAl~~c~~ 164 (168)
T PRK12525 94 ---AVQPSPEEQWMVI----ETLLAIDRLLDGLSGKARAAFLMSQLEG--LTYVEIGERLGVSLSRIHQYMVEAFKCCYQ 164 (168)
T ss_pred ---CCCCCHHHHHHHH----HHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf ---5689867899999----9999999998639999999999999929--999999999897999999999999999999
Q ss_pred HHHH
Q ss_conf 9997
Q gi|254780611|r 283 SIQK 286 (302)
Q Consensus 283 ~l~~ 286 (302)
T Consensus 165 ~lq~ 168 (168)
T PRK12525 165 GFQE 168 (168)
T ss_pred HHHC
T ss_conf 8409