HHsearch alignment for GI: 254780611 and conserved domain: PRK12533
>PRK12533 RNA polymerase sigma factor; Provisional.
Probab=99.56 E-value=9.1e-13 Score=104.86 Aligned_cols=186 Identities=13% Similarity=0.136 Sum_probs=122.2
Q ss_pred HCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 28599999999943077875655557999988899999988899898621853456899975778999999853202460
Q gi|254780611|r 44 HGDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSL 123 (302)
Q Consensus 44 ~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~ 123 (302)
T Consensus 17 A~r~eaF~~Lv~rh~~~lyr~a~r~~gn~~dAEDlvQEtFlra~r~l~~frg~---~~~tWL~rIa~N~~~~-------- 85 (217)
T PRK12533 17 AARGERFRALVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSCRGD---NARPWLLAIVRHTWYS-------- 85 (217)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHHH--------
T ss_conf 21899999999999999999999996999999999999999999867762344---2489999999999999--------
Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCC
Q ss_conf 01102300358999999997887866244788824677888618983211000000122343355202323453200000
Q gi|254780611|r 124 VKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDW 203 (302)
Q Consensus 124 IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~ 203 (302)
T Consensus 86 --------------~~Rrr~~~~-----~~~-------------------------------~~~~~~~--~--~~~-~~ 110 (217)
T PRK12533 86 --------------EWRRRANAH-----EVA-------------------------------YPDTLDD--A--DSP-DD 110 (217)
T ss_pred --------------HHHHHHCCC-----CCC-------------------------------CCCCCCC--C--CCC-CC
T ss_conf --------------999741123-----344-------------------------------2111344--3--234-33
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 12356870565566666667779999996219999999999982788888989999997789999999999999999999
Q gi|254780611|r 204 LVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQES 283 (302)
Q Consensus 204 l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~ 283 (302)
T Consensus 111 ~~~~~~~pe~~~----~~~e~~~~l~~AL~~Lp~~~R~vl~Lr~~eg--lS~~EIAeiLgip~gTVKSRL~RAR~~Lr~~ 184 (217)
T PRK12533 111 WQPAVEDPLALL----LRGEDVRLVNAALAKLPVEYREVLVLRELED--MSYREIAAIADVPVGTVMSRLARARRRLAAL 184 (217)
T ss_pred CCCCCCCHHHHH----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_conf 467879999999----9889999999999809998868999999809--9999999998949999999999999999997
Q ss_pred HHHHHCCCCCCCCCCCCC
Q ss_conf 997401224677645899
Q gi|254780611|r 284 IQKQVELSSSPPLLQKPR 301 (302)
Q Consensus 284 l~~~~~~~~~~~~~~~~~ 301 (302)
T Consensus 185 L~~~~~~~~~~~~~~~~~ 202 (217)
T PRK12533 185 LGGAAQAAPGPRAGGRAR 202 (217)
T ss_pred CCCCCCCCCCCCCCCCCC
T ss_conf 223455678999998777