HHsearch alignment for GI: 254780991 and conserved domain: PRK10689
>PRK10689 transcription-repair coupling factor; Provisional.
Probab=99.93 E-value=8.7e-24 Score=196.71 Aligned_cols=329 Identities=19% Similarity=0.236 Sum_probs=220.1
Q ss_pred HHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCE-EEEEEECCCCHHHHHHHHHHH---C
Q ss_conf 205740266678887421588775477518888884389999999988739733-799863376469999999997---1
Q gi|254780991|r 117 LKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKV-QLLLGVTGSGKTFTMAKVIEA---M 192 (805)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~-qlL~GVTGSGKTevya~lI~~---~ 192 (805)
T Consensus 577 ~~~G~af~~---d~~~~~-----eFe~~FpyeET~DQl~AI~eV~~DMes~~PMDRLiCGDVGfGKTEVA~RAAFkav~~ 648 (1148)
T PRK10689 577 AKEGFAFKH---DREQYQ-----LFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN 648 (1148)
T ss_pred CCCCCCCCC---CHHHHH-----HHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf 056886789---849999-----999609997876899999999877638867741567688887799999999999963
Q ss_pred CCCEEEEECCHHHHHHHHHHHHHHCCCCE--EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 99789993163468999999998678983--8998621344442101555432102210358899999999999985499
Q gi|254780991|r 193 QRPAIVMAPNKILAAQLYSEFKNFFPHNA--VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERN 270 (805)
Q Consensus 193 gr~aLvLvPei~La~QL~~rfk~~Fp~n~--V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~ 270 (805)
T Consensus 649 gkQVavlvPTTiLA~QH~~tF~~Rf~~~pv~i~~L-sRf~------------------------s~ke~~~i~~~l~~G~ 703 (1148)
T PRK10689 649 HKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEML-SRFR------------------------SAKEQTQILAEAAEGK 703 (1148)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHHHCCCCEEEEE-CCCC------------------------CHHHHHHHHHHHHCCC
T ss_conf 98089983662237999999998764157337750-3888------------------------8999999999986699
Q ss_pred CEEEECCHHHHCCCCCHHHHHCCEEEEECCCC-CCHHHHHHHHHHCCCCCCHHHHHHHHHCCCC-EEEECCCCCHHHHHH
Q ss_conf 84998277896168983477225799941981-1178753234311765633877545331872-478317888778887
Q gi|254780991|r 271 DCIVVSSVSCIYGIGSVESYSQMIVQLKIGDS-VEQKELLSSLVKQQYKRQDIGIIRGTFRVCG-DSIEIFPSHLEDVAW 348 (805)
Q Consensus 271 ~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~-~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg-~ILdsatps~Es~~~ 348 (805)
T Consensus 704 idIvIGTH~ll~-~dv~f~~LGLlIiDEEqrFGV~~KE~lk~-----------------l~~~vdvLtltATPIPRTL~m 765 (1148)
T PRK10689 704 IDILIGTHKLLQ-SDVKWKDLGLLIVDEEHRFGVRHKERIKA-----------------MRADVDILTLTATPIPRTLNM 765 (1148)
T ss_pred CCEEEHHHHHHC-CCCCCCCCCEEEECCCHHCCHHHHHHHHH-----------------CCCCCCEEEEECCCCHHHHHH
T ss_conf 877620488866-98654666437860102137999999972-----------------289987897625564469999
Q ss_pred HHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 31044420022210166640011100001000000002563678875455899899899887544332110012444477
Q gi|254780991|r 349 RVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITY 428 (805)
Q Consensus 349 Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~ 428 (805)
T Consensus 766 sl~----G~rdlS~i~---------tpP~~R~~v~T~v~~~~~~~-i--------------------------------- 798 (1148)
T PRK10689 766 AMS----GMRDLSIIA---------TPPARRLAVKTFVREYDSLV-V--------------------------------- 798 (1148)
T ss_pred HHC----CCCCEEEEC---------CCCCCCCCCEEEEECCCHHH-H---------------------------------
T ss_conf 880----773302213---------69998987089983587299-9---------------------------------
Q ss_pred HHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 77533211201451011333114465556202330265442132101234475445432456541333235766554443
Q gi|254780991|r 429 DLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCM 508 (805)
Q Consensus 429 dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~ 508 (805)
T Consensus 799 -------------------------------------------------------------------------------- 798 (1148)
T PRK10689 799 -------------------------------------------------------------------------------- 798 (1148)
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred CCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCC-
Q ss_conf 2221110100121555454446867542013220023432012446772000013310168899999986302321246-
Q gi|254780991|r 509 DNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILL- 587 (805)
Q Consensus 509 ~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~- 587 (805)
T Consensus 799 ---------------------------------------------------------------~eai~re~~rggq~~~~ 815 (1148)
T PRK10689 799 ---------------------------------------------------------------REAILREILRGGQVYYL 815 (1148)
T ss_pred ---------------------------------------------------------------HHHHHHHHHHCCEEEEE
T ss_conf ---------------------------------------------------------------99999999818808999
Q ss_pred ---CCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCC
Q ss_conf ---62147899999999863596687325764578999999997318986999845875357877711799962885674
Q gi|254780991|r 588 ---TVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGF 664 (805)
Q Consensus 588 ---~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f 664 (805)
T Consensus 816 ~~~~~~i~~~~~~~~~~~p~~~~~~--~hg~m~~~~~e~~m~~f~~~~~~~l~~ttiie~g~dip~ant~ii~~a~~~gl 893 (1148)
T PRK10689 816 YNDVENIQKAAERLAELVPEARIAI--GHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGL 893 (1148)
T ss_pred ECCHHHHHHHHHHHHHHCCCCCEEE--EECCCCHHHHHHHHHHHHCCCCCEEEECCEEECCCCCCCCCEEEEECHHHCCH
T ss_conf 5325419999999997487771899--98999989999999999759988999897876586677884799975321455
Q ss_pred CCCHHHHHHHHHHHCC-CCCCEEEEEECC
Q ss_conf 4460137766543127-998669998248
Q gi|254780991|r 665 LRSKTSLIQTIGRAAR-NVNSKVILYADT 692 (805)
Q Consensus 665 ~~~~~~~~q~~GRagR-~~~G~~il~ad~ 692 (805)
T Consensus 894 ----~ql~qlrgrvgr~~~~ayaYll~~~ 918 (1148)
T PRK10689 894 ----AQLHQLRGRVGRSHHQAYAWLLTPH 918 (1148)
T ss_pred ----HHHHHHCCCCCCCCCEEEEEEEECC
T ss_conf ----7777543655778870799998678