HHsearch alignment for GI: 254780611 and conserved domain: PRK12528
>PRK12528 RNA polymerase sigma factor; Provisional.
Probab=99.07 E-value=1.2e-08 Score=77.21 Aligned_cols=162 Identities=12% Similarity=0.080 Sum_probs=108.6
Q ss_pred HHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 82859999999994307787565555799998889999998889989862185345689997577899999985320246
Q gi|254780611|r 43 EHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWS 122 (302)
Q Consensus 43 ~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~ 122 (302)
T Consensus 5 ~~~~~~~~e~ly~~~~~~L~~~~~r~~g~~~~AEDivQd~Flrl~~~~~~~~~~---~~~ayL~~iA~n~~id~~R~~~- 80 (167)
T PRK12528 5 DSAHAATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQII---EPRAFLTTIAKRVLCNHYRRQD- 80 (167)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCC---CHHHHHHHHHHHHHHHHHHHHH-
T ss_conf 655789999999999999999999993988579999999999999656544656---7999999999999999999999-
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 81 ---------------------~~~~~~----------~~~~------------------------~-~~----------- 93 (167)
T PRK12528 81 ---------------------LERAYL----------EALA------------------------Q-LP----------- 93 (167)
T ss_pred ---------------------HHHHHH----------HHHH------------------------C-CC-----------
T ss_conf ---------------------899899----------8876------------------------3-65-----------
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 --~~~~~~~e~~~~~~----e~~~~l~~~l~~LP~~~R~vf~L~r~~g--ls~~EIA~~LgiS~~tVk~~l~rA~~~c~~ 165 (167)
T PRK12528 94 --ERVAPSEEERAIIL----ETLVELDRLLDGLPPLVKRAFLLAQVDG--LGYGEIATELGISLATVKRYLNKAAMRCYF 165 (167)
T ss_pred --CCCCCCHHHHHHHH----HHHHHHHHHHHCCCHHHHHHHHHHHHHC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf --32469857899999----9999999998709999999999999829--899999999797999999999999999997
Q ss_pred H
Q ss_conf 9
Q gi|254780611|r 283 S 283 (302)
Q Consensus 283 ~ 283 (302)
T Consensus 166 ~ 166 (167)
T PRK12528 166 A 166 (167)
T ss_pred H
T ss_conf 6