HHsearch alignment for GI: 254780684 and conserved domain: TIGR00767
>TIGR00767 rho transcription termination factor Rho; InterPro: IPR004665 Members of this family have a related but highly variable long, highly charged insert near the amino end. The proteins differ in the specificity of RNA binding.; GO: 0003715 transcription termination factor activity, 0005524 ATP binding, 0006353 transcription termination.
Probab=99.81 E-value=1.8e-18 Score=153.67 Aligned_cols=240 Identities=25% Similarity=0.376 Sum_probs=207.1
Q ss_pred CCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHH----HHCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCE
Q ss_conf 10011124587520022358503752667889999999987----40789838993124652238899998642775532
Q gi|254780684|r 142 EKGFKTGIRVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFA----RSDCFDKVIISLVGERGREVREFIEDYLGDNLKKS 217 (438)
Q Consensus 142 ~e~L~TGIr~ID~l~pig~GQR~gIfg~~GvGKt~Ll~~i~----~~~~~dv~V~alIGeR~rev~efi~~~~~~~l~~t 217 (438)
T Consensus 154 ~~~~~~~~~~~~~~~p~g~g~~~l~~~pp~~g~~~~~~~~~~~~~~~~p~~~l~~~l~d~~p~~~~~~~~~~~g~----- 228 (420)
T TIGR00767 154 TDPEDLSTRVLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIANAITRNHPEVELIVLLIDERPEEVTDLQRSVKGE----- 228 (420)
T ss_pred CCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCHHHHHHHHHHHHH-----
T ss_conf 751146778887651036775303651775442688888887763268743799886336622567777764212-----
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHCCHHHHHH
Q ss_conf 89841577880344444456777888864267988999709899999987665404778432366324554200444443
Q gi|254780684|r 218 VVVVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFAHSIREIATNSGELPVARGYPTSVFSELPRLLERI 297 (438)
Q Consensus 218 vvv~~t~d~~~~~r~~a~~~a~~iAEyfr~~G~~Vll~~Ds~tr~a~A~reis~~~ge~P~~~gyp~~~~~~~~~l~ERa 297 (438)
T Consensus 229 -~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~~~~~~~~~~~p~~g~~l~g-g~~~~~~~~p~~~~g~~ 306 (420)
T TIGR00767 229 -VVASTFDEPPSRHVQVAELVLEKAKRLVEHKKDVVILLDSITRLARAYNTVTPPSGKVLSG-GVDANALHRPKRFFGAA 306 (420)
T ss_pred -HHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHCCCCCCCCEEEC-CCCHHHHCCCHHHHHHH
T ss_conf -3210013441012468899999888876325634774023567666541036666632215-64501201414553001
Q ss_pred HCCCCCCCCEEEEEEEEEC-CCCCCCHHHHHHHHHCCCEEEEEHHHHHCCCCCCCCCCCCCCCCCHHCCCHHHHHHHHHH
Q ss_conf 1136788523554333421-676420278999861260898704277589713114456400022120899999999999
Q gi|254780684|r 298 GPSEKEKGNITAVISVLVD-GDNHNDPIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVSRLADKAWSADEKKLVSSL 376 (438)
Q Consensus 298 g~~~~~~GSiT~~~~v~~~-~dd~~~pi~~~~~~i~DG~i~L~r~la~~g~~Paid~~~S~SR~~~~~~~~~~~~~~~~~ 376 (438)
T Consensus 307 -~~~~~gg~l~~~~~~~~~~g~~~d~~~~~~~~g~g~~~~~l~~~~~~~~~~p~~~~~~~g~~~~~~l~~~~~~~~~~~~ 385 (420)
T TIGR00767 307 -RNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNLELHLDRKLADRRLFPAIDIKKSGTRKEELLLSPEELQKLWLL 385 (420)
T ss_pred -CCCCCCCCEEEEEHHHHHCCCCHHHHHHHHHCCCCCCEEEEHHHHHHHHCCCCCCCCCCCCCHHHHCCCHHHHHHHHHH
T ss_conf -0224665222210012313651013444432277750111001333211022101234565212320377888899999
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 9999999999999
Q gi|254780684|r 377 THLIHRFEETRDI 389 (438)
Q Consensus 377 ~~~l~~y~~~~~l 389 (438)
T Consensus 386 ~~~~~~~~~~~~~ 398 (420)
T TIGR00767 386 RKVLSPLDDVEAL 398 (420)
T ss_pred HHHHCCCCHHHHH
T ss_conf 8874044505789