HHsearch alignment for GI: 254780945 and conserved domain: PRK10689
>PRK10689 transcription-repair coupling factor; Provisional.
Probab=100.00 E-value=0 Score=1045.40 Aligned_cols=414 Identities=36% Similarity=0.526 Sum_probs=388.0
Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf 77655554320357678775789999863024679889999999998410013430788621442236999999733444
Q gi|254780945|r 240 LLLMRKQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE 319 (700)
Q Consensus 240 l~~~r~~~~~~~~~~~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~ 319 (700)
T Consensus 568 Ll~lYA~R~~~~G~af~~d~~~~~eFe~~FpyeET~DQl~AI~eV~~DMes~~PMDRLiCGDVGfGKTEVA~RAAFkav~ 647 (1148)
T PRK10689 568 LLDIYAQRAAKEGFAFKHDREQYQLFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE 647 (1148)
T ss_pred HHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 99999987205688678984999999960999787689999999987763886774156768888779999999999996
Q ss_pred HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEE
Q ss_conf 30545886127999999998621101457865899624642256676877621347548641112013345544441788
Q gi|254780945|r 320 AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVI 399 (700)
Q Consensus 320 ~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvV 399 (700)
T Consensus 648 ~gkQVavlvPTTiLA~QH~~tF~~Rf~~~pv~i~~LsRf~s~ke~~~i~~~l~~G~idIvIGTH~ll~~dv~f~~LGLlI 727 (1148)
T PRK10689 648 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSDVKWKDLGLLI 727 (1148)
T ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHCCCCCEEEHHHHHHCCCCCCCCCCEEE
T ss_conf 39808998366223799999999876415733775038888999999999986699877620488866986546664378
Q ss_pred ECCCCCCCHHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHH
Q ss_conf 52101335688998740256776101010132278999975201011110235576662079997020026899997631
Q gi|254780945|r 400 VDEQHRFGVQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVL 479 (700)
Q Consensus 400 iDEQHRFGV~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l 479 (700)
T Consensus 728 iDEEqrFGV~~KE~lk~l~~~vdvLtltATPIPRTL~msl~G~rdlS~i~tpP~~R~~v~T~v~~~~~~-~i~eai~re~ 806 (1148)
T PRK10689 728 VDEEHRFGVRHKERIKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYDSL-VVREAILREI 806 (1148)
T ss_pred ECCCHHCCHHHHHHHHHCCCCCCEEEEECCCCHHHHHHHHCCCCCEEEECCCCCCCCCCEEEEECCCHH-HHHHHHHHHH
T ss_conf 601021379999999722899878976255644699998807733022136999898708998358729-9999999999
Q ss_pred CCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCC
Q ss_conf 0387389997120122111210146666666866371-031201469989999999997559869999800341046888
Q gi|254780945|r 480 SEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVV 558 (700)
Q Consensus 480 ~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvp 558 (700)
T Consensus 807 ~rggq~~~~~~~~~--------~i~~~~~~~~~~~p~~~~~~~hg~m~~~~~e~~m~~f~~~~~~~l~~ttiie~g~dip 878 (1148)
T PRK10689 807 LRGGQVYYLYNDVE--------NIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIP 878 (1148)
T ss_pred HHCCEEEEEECCHH--------HHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCEEECCCCCC
T ss_conf 81880899953254--------1999999999748777189998999989999999999759988999897876586677
Q ss_pred CCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECC--CCCHHHHHHHHHHHHHCH---HHHHHHHHHHHCCCCCC
Q ss_conf 7658998585254746887730116678983599997088--899879999999984142---58999999852063000
Q gi|254780945|r 559 DASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHP--PLSKNSYTRLSVLKNTED---GFLIAEEDLKQRKEGEI 633 (700)
Q Consensus 559 na~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~--~~~~~~~~Rl~~l~~~~d---Gf~iAe~Dl~lRG~G~~ 633 (700)
T Consensus 879 ~ant~ii~~a~~~gl~ql~qlrgrvgr~~~~ayaYll~~~~~~lt~~A~kRL~ai~~~~~lGsGf~iA~~DLeIRGaG~l 958 (1148)
T PRK10689 879 TANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASLEDLGAGFALATHDLEIRGAGEL 958 (1148)
T ss_pred CCCEEEEECHHHCCHHHHHHHCCCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCC
T ss_conf 88479997532145577775436557788707999986787778989999999999706776439999987722778567
Q ss_pred CCCHHCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 2600069874400038875999999999999
Q gi|254780945|r 634 LGIKQSGMPKFLIAQPELHDSLLEIARKDAK 664 (700)
Q Consensus 634 ~G~~QsG~~~~~~~d~~~d~~ll~~a~~~a~ 664 (700)
T Consensus 959 LG~~QsG~i~~vG~~lY--~~mL~~av~~lk 987 (1148)
T PRK10689 959 LGEEQSGSMETIGFSLY--MELLENAVDALK 987 (1148)
T ss_pred CCCCCCCCHHHCCHHHH--HHHHHHHHHHHH
T ss_conf 88645631555069999--999999999986