HHsearch alignment for GI: 254780991 and conserved domain: COG1197

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription].
Probab=99.91  E-value=5.9e-22  Score=182.99  Aligned_cols=331  Identities=22%  Similarity=0.255  Sum_probs=221.9

Q ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCE-EEEEEECCCCHHHHHHHHHHHC--
Q ss_conf             3205740266678887421588775477518888884389999999988739733-7998633764699999999971--
Q gi|254780991|r  116 LLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKV-QLLLGVTGSGKTFTMAKVIEAM--  192 (805)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~-qlL~GVTGSGKTevya~lI~~~--  192 (805)
T Consensus       570 ~~~~G~af~~d~---~~q~-----~F~~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~  641 (1139)
T COG1197         570 QAKKGFAFPPDT---EWQE-----EFEASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM  641 (1139)
T ss_pred             HHCCCCCCCCCH---HHHH-----HHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHEEECCCCCCHHHHHHHHHHHHHC
T ss_conf             305687879985---8999-----99854998578789999999998860698661025657687599999999999863


Q ss_pred             -CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE-ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf             -9978999316346899999999867898389986-21344442101555432102210358899999999999985499
Q gi|254780991|r  193 -QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV-SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERN  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       642 ~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~------------------------s~kE~~~il~~la~G~  697 (1139)
T COG1197         642 DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFR------------------------SAKEQKEILKGLAEGK  697 (1139)
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCCCEEEEEECCCC------------------------CHHHHHHHHHHHHCCC
T ss_conf             7974999926078689989999987338982588860557------------------------8899999999985698


Q ss_pred             CEEEECCHHHHCCCCCHHHHHCCEEEEECCC-CCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHH
Q ss_conf             8499827789616898347722579994198-111787532343117656338775453318724783178887788873
Q gi|254780991|r  271 DCIVVSSVSCIYGIGSVESYSQMIVQLKIGD-SVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWR  349 (805)
Q Consensus       271 ~~IVVgsrSAIfgl~~P~~~lglIIvdEehd-~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~R  349 (805)
T Consensus       698 vDIvIGTHrLL~-kdv~FkdLGLlIIDEEqRFGVk~KEkLK~Lr----------------~~VDvLTLSATPIPRTL---  757 (1139)
T COG1197         698 VDIVIGTHRLLS-KDVKFKDLGLLIIDEEQRFGVKHKEKLKELR----------------ANVDVLTLSATPIPRTL---  757 (1139)
T ss_pred             CCEEEECHHHHC-CCCEEECCCEEEEECHHHCCCCHHHHHHHHH----------------CCCCEEEEECCCCCCHH---
T ss_conf             458996317647-8967704764897443532711789998775----------------05728974178875447---


Q ss_pred             HCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             10444200222101666400111000010000000025636788754558998998998875443321100124444777
Q gi|254780991|r  350 VSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYD  429 (805)
Q Consensus       350 ie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~d  429 (805)
T Consensus       758 -~Msm~Gi---RdlSvI~------TPP~~R~pV~T~V~~~d~~~i-----------------------------------  792 (1139)
T COG1197         758 -NMSLSGI---RDLSVIA------TPPEDRLPVKTFVSEYDDLLI-----------------------------------  792 (1139)
T ss_pred             -HHHHHCC---HHHHHCC------CCCCCCCCEEEEEECCCHHHH-----------------------------------
T ss_conf             -7777443---0331114------799877212888715882899-----------------------------------


Q ss_pred             HHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             75332112014510113331144655562023302654421321012344754454324565413332357665544432
Q gi|254780991|r  430 LEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMD  509 (805)
Q Consensus       430 le~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~  509 (805)
                                                                                                      
T Consensus       793 --------------------------------------------------------------------------------  792 (1139)
T COG1197         793 --------------------------------------------------------------------------------  792 (1139)
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCC--
Q ss_conf             221110100121555454446867542013220023432012446772000013310168899999986302321246--
Q gi|254780991|r  510 NRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILL--  587 (805)
Q Consensus       510 n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~--  587 (805)
T Consensus       793 --------------------------------------------------------------reAI~REl~RgGQvfYv~  810 (1139)
T COG1197         793 --------------------------------------------------------------REAILRELLRGGQVFYVH  810 (1139)
T ss_pred             --------------------------------------------------------------HHHHHHHHHCCCEEEEEE
T ss_conf             --------------------------------------------------------------999999871598799994


Q ss_pred             --CCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCC
Q ss_conf             --621478999999998635966873257645789999999973189869998458753578777117999628856744
Q gi|254780991|r  588 --TVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFL  665 (805)
Q Consensus       588 --~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~  665 (805)
T Consensus       811 NrV~~Ie~~~~~L~~LVPEarI--~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiIIe~AD~fGL-  887 (1139)
T COG1197         811 NRVESIEKKAERLRELVPEARI--AVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERADKFGL-  887 (1139)
T ss_pred             CCCCCHHHHHHHHHHHCCCEEE--EEEECCCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCEEEEECCCCCCH-
T ss_conf             3331299999999985984688--8852588889999999999728888898823430476777875588965433457-


Q ss_pred             CCHHHHHHHHHHHCC-CCCCEEEEEEC
Q ss_conf             460137766543127-99866999824
Q gi|254780991|r  666 RSKTSLIQTIGRAAR-NVNSKVILYAD  691 (805)
Q Consensus       666 ~~~~~~~q~~GRagR-~~~G~~il~ad  691 (805)
T Consensus       888 ---sQLyQLRGRVGRS~~~AYAYfl~p  911 (1139)
T COG1197         888 ---AQLYQLRGRVGRSNKQAYAYFLYP  911 (1139)
T ss_pred             ---HHHHHHCCCCCCCCCEEEEEEEEC
T ss_conf             ---888875165477676289999626