HHsearch alignment for GI: 254780611 and conserved domain: PRK05901
>PRK05901 RNA polymerase sigma factor; Provisional.
Probab=100.00 E-value=0 Score=508.18 Aligned_cols=267 Identities=25% Similarity=0.424 Sum_probs=232.9
Q ss_pred CCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHC------------------CHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 587405999999840799999899999999999828------------------59999999994307787565555799
Q gi|254780611|r 10 VNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHG------------------DLSAAHRLVTSHLRLVVKIAMGYRGY 71 (302)
Q Consensus 10 ~~~~~~~~~yl~~i~~~~~Lt~eee~~l~~~~~~~g------------------d~~Ar~~Li~~nlrlV~~iA~~y~~~ 71 (302)
T Consensus 104 ~~tdd~v~~yl~~~g~~~ll~~~~e~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~~Ar~~Li~aNLRLVvsIAkkY~~~ 182 (398)
T PRK05901 104 TATADPVKAYLKQIGKVKLLNAEEEVELAKRIEA-GLYAEELLEKRDLRWIARDGKRAKNHLLEANLRLVVSLAKRYTNR 182 (398)
T ss_pred CCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 8889719999986275548887999999999984-045676676777777530539999999997069999999764689
Q ss_pred CCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 99888999999888998986218534568999757789999998532024600110230035899999999788786624
Q gi|254780611|r 72 GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITD 151 (302)
Q Consensus 72 g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~ 151 (302)
T Consensus 183 Gl~l~DLIQEGniGLirAvekFDp~rG~rFSTYA~wWIRqaI~rai~~~~r~IRiP~h~~e--~---~~k~~r~~~~l~~ 257 (398)
T PRK05901 183 GLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVE--T---INKLGRIERELLQ 257 (398)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHCCCEEECCHHHHH--H---HHHHHHHHHHHHH
T ss_conf 9898899998689999999971977799542114999999999999966873523323999--9---9999999999999
Q ss_pred CCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 47888246778886189832110000001223433552023234532000001235687056556666666777999999
Q gi|254780611|r 152 NNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRS 231 (302)
Q Consensus 152 ~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~ 231 (302)
T Consensus 258 ~~gr~Pt~eEiA~~lg~~~~~v~~~~~~~~~~~SLd~~vg~--d~~~~l~d~i~D~~~~~p~~---~~~~~~l~~~l~~~ 332 (398)
T PRK05901 258 ELGREPTPEELAEEMDFTPEKVREIQKYAREPISLDKTIGD--EGDSQFGDFIEDSEAVSPVD---AVSFTLLQDQLQEV 332 (398)
T ss_pred HHCCCCCHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCC--CCCCCHHHHCCCCCCCCHHH---HHHHHHHHHHHHHH
T ss_conf 84899999999988199999999999972898556787789--98651866416999999999---99999999999999
Q ss_pred HHCCCHHHHHHHHHHHCC--CCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 621999999999998278--88889899999977899999999999999999999974
Q gi|254780611|r 232 MSVLNPRERRIFEARRLQ--ENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQ 287 (302)
Q Consensus 232 l~~L~~rEr~II~~ry~~--~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~~~ 287 (302)
T Consensus 333 L~~L~~REr~Ii~~RyGL~~~~~~TL~eIg~~lgvSrERVRQIE~kAL~KLR~~~~~~ 390 (398)
T PRK05901 333 LETLSEREAGVIRMRFGLTDGQPKTLDEIGQVYGVTRERIRQIESKTMRKLRHPSRSQ 390 (398)
T ss_pred HCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHH
T ss_conf 8389999999999975899989603999998979699999999999999967837887