HHsearch alignment for GI: 254780601 and conserved domain: COG1197
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription].
Probab=99.92 E-value=1.3e-21 Score=164.62 Aligned_cols=325 Identities=21% Similarity=0.258 Sum_probs=223.7
Q ss_pred HHHHHHH-HHCCCCCCCHHHHHHHHHHHCC------CCEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEC
Q ss_conf 8999999-9787987898999999999759------96999928987468999999999861042122556882799984
Q gi|254780601|r 9 QVIGEAL-SERGYVNLTSVQEAILNPDLRE------KDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIA 81 (573)
Q Consensus 9 ~~l~~~l-~~~g~~~pt~iQ~~~ip~~l~g------~d~i~~a~TGsGKT~af~lp~l~~l~~~~~~~~~~~~~~~lil~ 81 (573)
T Consensus 581 ~~~q~~F~~~FPye-ET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV---------~~GKQVAvLV 650 (1139)
T COG1197 581 TEWQEEFEASFPYE-ETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAV---------MDGKQVAVLV 650 (1139)
T ss_pred HHHHHHHHHCCCCC-CCHHHHHHHHHHHHHHCCCCCCHHEEECCCCCCHHHHHHHHHHHHH---------CCCCEEEEEC
T ss_conf 58999998549985-7878999999999886069866102565768759999999999986---------3797499992
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHH---HHCCC-CEEEEECCCCHHHHHHCCCCCCCCCEEEEEECC
Q ss_conf 99899999999999985446987999988998799999---61289-759982231013321000122464318999613
Q gi|254780601|r 82 PTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERR---DLQNG-AHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEA 157 (573)
Q Consensus 82 PTrELa~Qv~~~~~~l~~~~~~~v~~~~gg~~~~~q~~---~l~~~-~~iiv~TPgrl~d~~~~~~l~l~~v~~lVlDEa 157 (573)
T Consensus 651 PTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTH-----rLL~kdv~FkdLGLlIIDEE 725 (1139)
T COG1197 651 PTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTH-----RLLSKDVKFKDLGLLIIDEE 725 (1139)
T ss_pred CCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEECH-----HHHCCCCEEECCCEEEEECH
T ss_conf 6078689989999987338982588860557889999999998569845899631-----76478967704764897443
Q ss_pred CCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCHHCCCCCCCHH---HHH
Q ss_conf 11001001235788875214334225631111222001111210123333233323256652000000000002---455
Q gi|254780601|r 158 DEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDR---DNA 234 (573)
Q Consensus 158 D~ml~~gf~~~i~~i~~~~p~~~q~~l~SAT~~~~i~~l~~~~~~~p~~i~~~~~~~~~~~i~~~~~~v~~~~k---~~~ 234 (573)
T Consensus 726 qR-----FGVk~KEkLK~Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~p--V~-T~--V~~~d~~~ireA 795 (1139)
T COG1197 726 QR-----FGVKHKEKLKELRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLP--VK-TF--VSEYDDLLIREA 795 (1139)
T ss_pred HH-----CCCCHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCHHHHHCCCCCCCCCC--EE-EE--EECCCHHHHHHH
T ss_conf 53-----2711789998775057289741788754477777443033111479987721--28-88--715882899999
Q ss_pred HHHCCCCCCCCEEEEECCCHHHHHHHHHHHHHC--CCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCC
Q ss_conf 420010235641677513023345655555422--666301048999999999986654488149985386500145788
Q gi|254780601|r 235 IVNILRYHGAKNAIVFCSTRASVSRFTKVLAEH--LFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPD 312 (573)
Q Consensus 235 l~~ll~~~~~~~~ivF~~t~~~~~~l~~~L~~~--g~~~~~lhg~~~q~~R~~~~~~fr~g~~~vLV~TDvaaRGiDi~~ 312 (573)
T Consensus 796 I~R--El~RgGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPn 873 (1139)
T COG1197 796 ILR--ELLRGGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPN 873 (1139)
T ss_pred HHH--HHHCCCEEEEEECCCCCHHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCC
T ss_conf 999--871598799994333129999999998598468888525888899999999997288888988234304767778
Q ss_pred CCEEEEECCCC--CHHHHHHHHCCCCCCCCCCEEEEEECH------HHHHHHHHHHH
Q ss_conf 73389705887--478999860301037888602564059------99999999999
Q gi|254780601|r 313 LELVIHAELSS--NPENLLHRSGRTGRAGRKGMSVFVIPQ------NMQRRAERLFR 361 (573)
Q Consensus 313 v~~Vin~d~P~--~~~~yvHR~GRtgRag~~G~ai~l~~~------~e~~~~~~i~~ 361 (573)
T Consensus 874 ANTiIIe~AD~fGLsQLyQLR-GRVGRS~~~AYAYfl~p~~k~lT~~A~kRL~aI~~ 929 (1139)
T COG1197 874 ANTIIIERADKFGLAQLYQLR-GRVGRSNKQAYAYFLYPPQKALTEDAEKRLEAIAS 929 (1139)
T ss_pred CCEEEEECCCCCCHHHHHHHC-CCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf 755889654334578888751-65477676289999626755458789999999972