HHsearch alignment for GI: 254780611 and conserved domain: PRK12530
>PRK12530 RNA polymerase sigma factor; Provisional.
Probab=99.43 E-value=2.3e-11 Score=95.46 Aligned_cols=173 Identities=16% Similarity=0.184 Sum_probs=110.1
Q ss_pred HHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHH
Q ss_conf 99430778756555579999888999999888998986218534568999757789999998532024600110230035
Q gi|254780611|r 54 VTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQK 133 (302)
Q Consensus 54 i~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~~~~r 133 (302)
T Consensus 15 ~e~yr~~L~~fa~~~l~d~~~AEDlvQEtFlka~~~~~~f~~~--~~f~tWL~~Ia~N~~id~lRk~~r~~~~~------ 86 (191)
T PRK12530 15 LEEIRLQMLKFATLQLKDADLAEDVVQEAFTSALKNIDSFKGQ--SALKTWIFAILKNKIIDYIRQRKRFVNES------ 86 (191)
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHHHHHHHHCCCCCCC------
T ss_conf 9999999999999993999999999999999999868863787--72999999999999999999846667721------
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCCCC-CCCCCCH
Q ss_conf 899999999788786624478882467788861898321100000012234335520232345320000012-3568705
Q gi|254780611|r 134 RLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLV-YDHDGQE 212 (302)
Q Consensus 134 ~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~l~-~~~~~~~ 212 (302)
T Consensus 87 ---------------------------~~~------~~~~---------~~~~---~---d~~~~~~~~~~~~~~~~~~e 118 (191)
T PRK12530 87 ---------------------------ELI------EEES---------PNSF---F---DEKGHWKPETYEPSELQDVE 118 (191)
T ss_pred ---------------------------CCC------CCCC---------CHHH---H---CCCCCCCCCCCCCCCCCCHH
T ss_conf ---------------------------001------2224---------1001---0---11122343336830216899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 6556666666777999999621999999999998278888898999999778999999999999999999999740
Q gi|254780611|r 213 QVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQV 288 (302)
Q Consensus 213 ~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~~~~ 288 (302)
T Consensus 119 ----~~~~~~e~~~~l~~~l~~LP~~~R~v~~Lr~~~~--ls~~EIA~~l~is~~tVksrL~RAR~~Lr~~L~~~~ 188 (191)
T PRK12530 119 ----QTVYSEEFWLIFEICLNKLPAQQARVFMMREFLE--LSSEQICQECHITTSNLHVLLYRARLQLQACLSKKW 188 (191)
T ss_pred ----HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf ----9999999999999999869999999999999929--999999999896999999999999999999999845