HHsearch alignment for GI: 254780611 and conserved domain: PRK12512
>PRK12512 RNA polymerase sigma factor; Provisional.
Probab=99.70 E-value=6e-15 Score=119.44 Aligned_cols=174 Identities=16% Similarity=0.203 Sum_probs=124.2
Q ss_pred CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCC-C---CCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf 989999999999982859999999994307787565555799-9---988899999988899898621853456899975
Q gi|254780611|r 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY-G---LPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 (302)
Q Consensus 30 t~eee~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~-g---~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA 105 (302)
T Consensus 5 ~~~e~~~Li~~~~-~GD~~Af~~L~~~~~~~l~~~~~~~l~~~~~~~~dAeDlvQevfl~~~~~~~~~~~~--~~f~~WL 81 (184)
T PRK12512 5 REDEWTDLMRSAN-AGDAAAYRRLLKAVTPVLRAAARRGLARAGQPADQAEDIVQEILLAVHLKRHTWDPG--APFAPWL 81 (184)
T ss_pred CHHHHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCC--CCHHHHH
T ss_conf 5287999999998-278999999999999999999999988468998899999999999999872314888--8589999
Q ss_pred HHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf 77899999985320246001102300358999999997887866244788824677888618983211000000122343
Q gi|254780611|r 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 (302)
Q Consensus 106 ~~wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~S 185 (302)
T Consensus 82 ~~Iarn~~~d~~Rk~~~~~~----------------------------------------------------------~~ 103 (184)
T PRK12512 82 FAIARNKLIDALRRRGRRVF----------------------------------------------------------VD 103 (184)
T ss_pred HHHHHHHHHHHHHHHCCCCC----------------------------------------------------------CC
T ss_conf 99999999999997437778----------------------------------------------------------98
Q ss_pred HHHHCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCC
Q ss_conf 35520232345320000012356870565566666667779999996219999999999982788888989999997789
Q gi|254780611|r 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 (302)
Q Consensus 186 Ld~~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS 265 (302)
T Consensus 104 ~~~~~-----------~~~~~-~~~~-~~~--------~~~~l~~~L~~Lp~~~R~vi~L~~~~g--~s~~EIA~~lgis 160 (184)
T PRK12512 104 IDDFA-----------ETLPS-EPAA-ETL--------PAGDVGRHLETLPPRQRDVVQSIAVEG--ASIKETAAKLSMS 160 (184)
T ss_pred HHHHH-----------HCCCC-CCCC-CHH--------HHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCC
T ss_conf 34442-----------21678-8876-426--------899999999689999999999998559--7999999998919
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999999999999974
Q gi|254780611|r 266 RERVRQIEARAFKKVQESIQKQ 287 (302)
Q Consensus 266 ~eRVrQI~~~AL~kLR~~l~~~ 287 (302)
T Consensus 161 ~~tVk~~l~RA~~~Lr~~l~~e 182 (184)
T PRK12512 161 EGAVRVALHRGLAALAAKFRSE 182 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHC
T ss_conf 9999999999999999998608