HHsearch alignment for GI: 254780611 and conserved domain: PRK11923
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional.
Probab=99.78 E-value=6.8e-17 Score=132.43 Aligned_cols=191 Identities=19% Similarity=0.241 Sum_probs=135.5
Q ss_pred CCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHH
Q ss_conf 99989999999999982859999999994307787565555799998889999998889989862185345689997577
Q gi|254780611|r 28 MLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMW 107 (302)
Q Consensus 28 ~Lt~eee~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~ 107 (302)
T Consensus 1 m~t~~~D~~Li~~~~-~GD~~Af~~L~~~y~~~l~~~~~~~~~d~~~AeDi~Qe~f~~~~~~~~~~~~~--~~f~~WL~~ 77 (193)
T PRK11923 1 MLTQEEDQQLVERVQ-RGDKRAFDLLVLKYQHKILGLIVRFVHDTHEAQDVAQEAFIKAYRALGNFRGD--SAFYTWLYR 77 (193)
T ss_pred CCCCCCHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCC--HHHHHHHHH
T ss_conf 998710999999999-48699999999999999999999990999999999999999998613212650--468999999
Q ss_pred HHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf 89999998532024600110230035899999999788786624478882467788861898321100000012234335
Q gi|254780611|r 108 WIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLN 187 (302)
Q Consensus 108 wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd 187 (302)
T Consensus 78 Ia~n~~~~~~~~~~r--------------------------------r~~~-~------~~~~---------------~~ 103 (193)
T PRK11923 78 IAINTAKNHLVSRGR--------------------------------RPPD-S------DVSS---------------ED 103 (193)
T ss_pred HHHHHHHHHHHHHHC--------------------------------CCCC-C------CCCH---------------HH
T ss_conf 999999999999865--------------------------------5753-3------3453---------------46
Q ss_pred HHCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHH
Q ss_conf 52023234532000001235687056556666666777999999621999999999998278888898999999778999
Q gi|254780611|r 188 ALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRE 267 (302)
Q Consensus 188 ~~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~e 267 (302)
T Consensus 104 ~~~~~~~-------~~-~~~~~~~e~~~----~~~e~~~~i~~~l~~Lp~~~R~v~~L~~~eg--ls~~EIA~~l~is~~ 169 (193)
T PRK11923 104 AEFYDGD-------HA-LKDIESPERAL----LRDEIEATVHRTIQQLPEDLRTALTLREFDG--LSYEDIASVMQCPVG 169 (193)
T ss_pred HHHCCCC-------CC-CCCCCCHHHHH----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHH
T ss_conf 6522554-------32-23448888999----9999999999999817898999999999949--999999999892999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 9999999999999999997401
Q gi|254780611|r 268 RVRQIEARAFKKVQESIQKQVE 289 (302)
Q Consensus 268 RVrQI~~~AL~kLR~~l~~~~~ 289 (302)
T Consensus 170 tVk~rl~RAr~~Lr~~L~~ll~ 191 (193)
T PRK11923 170 TVRSRIFRAREAIDKALQPLLQ 191 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999999999899873