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