HHsearch alignment for GI: 254780619 and conserved domain: COG1197
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription].
Probab=100.00 E-value=2.1e-38 Score=312.75 Aligned_cols=345 Identities=25% Similarity=0.324 Sum_probs=264.1
Q ss_pred CCCC-CCCHHHHHHHHHHHHHHCCC-CCEEEEECCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHCCC-
Q ss_conf 4666-68837899999998752048-96199844753157999999999985146847997152100134455543038-
Q gi|254780619|r 194 FSLP-ILDKNQQDVVEQVVPLCTKG-FAVSLISGVTGSGKTEVYLEIVAAVLHLGKQVLILLPEISLTSAILERFQKRF- 270 (731)
Q Consensus 194 ~~~~-~Lt~eQ~~a~~~i~~~~~~~-f~~~LL~GvTGSGKTEVYl~li~~~L~~GkqvLiLvPEI~Lt~Q~~~rl~~rF- 270 (731)
T Consensus 589 ~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFkeRF~ 668 (1139)
T COG1197 589 ASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFKERFA 668 (1139)
T ss_pred HCCCCCCCHHHHHHHHHHHHHHCCCCCCHHEEECCCCCCHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHC
T ss_conf 54998578789999999998860698661025657687599999999999863797499992607868998999998733
Q ss_pred --CCEEEEEECCCCCHHHHHHHHHHHCCCCEEEEECCHHHH--HHHCCCEEEEEEECCCCCCHHCCCCCCCHHHHHHHHH
Q ss_conf --976899623557235667899997199739994001211--0010001367740553210000244322489999975
Q gi|254780619|r 271 --GVKPAEWHSSLSTSMREKIWRQVARGAISVIVGVRSALF--LPFKKLGLIVIDEEHDISYKQEEGILYNARDMSIVRG 346 (731)
Q Consensus 271 --~~~v~v~HS~ls~~eR~~~w~~i~~G~~~IVIGtRSAif--~P~~nLglIIvDEEHd~sykq~~~pry~aRdvA~~Ra 346 (731)
T Consensus 669 ~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~FkdLGLlIIDEEq----------RFGVk~KEkLK~ 738 (1139)
T COG1197 669 GFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKFKDLGLLIIDEEQ----------RFGVKHKEKLKE 738 (1139)
T ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEECHHHHCCCCEEECCCEEEEECHH----------HCCCCHHHHHHH
T ss_conf 8982588860557889999999998569845899631764789677047648974435----------327117899987
Q ss_pred HHCCCCEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEE
Q ss_conf 11032100002454324677532123444124322367654332110222233222454798999999886226551799
Q gi|254780619|r 347 KIESFPVVLVSATPSIESRVNGISRRYHSVHLSTRYRNSALPHLQVIDMRGQTIAQGKSLSPEMIDGIRHTLARNEQTLL 426 (731)
Q Consensus 347 ~~~~~~lilgSATPSles~~~~~~g~~~~~~l~~R~~~~~~P~i~ivDm~~~~~~~~~~lS~~l~~~i~~~l~~g~qvll 426 (731)
T Consensus 739 Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~-R~pV~T~V------~~~d---~~~ireAI~REl~RgGQvfY 808 (1139)
T COG1197 739 LRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPED-RLPVKTFV------SEYD---DLLIREAILRELLRGGQVFY 808 (1139)
T ss_pred HHCCCCEEEEECCCCCCHHHHHHHCCHHHHHCCCCCCC-CCCEEEEE------ECCC---HHHHHHHHHHHHHCCCEEEE
T ss_conf 75057289741788754477777443033111479987-72128887------1588---28999999998715987999
Q ss_pred EECCCCEEHHCCCCCCCCCCCCCCCCCEEEEECCCCCCEECHHHCCCCCCCCCCCCCCCCEECCCCCCHHHHHHHHHHCC
Q ss_conf 74222000000235654343101465201211357832000021024465556667874110013542899888852048
Q gi|254780619|r 427 FLNRRGYAPLTLCQVCGNRLKCLHCSCWLVEHRSKKKLYCHQCGHSAIYSQSCVVCGSSGKMIACGFGIERIAEEVCEYF 506 (731)
Q Consensus 427 ~lnRrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~~l~~~G~Gte~~~e~l~~~f 506 (731)
T Consensus 809 v~Nr---------------------------------------------------------V----~~Ie~~~~~L~~LV 827 (1139)
T COG1197 809 VHNR---------------------------------------------------------V----ESIEKKAERLRELV 827 (1139)
T ss_pred EECC---------------------------------------------------------C----CCHHHHHHHHHHHC
T ss_conf 9433---------------------------------------------------------3----12999999999859
Q ss_pred CCCHHHHCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 52000102321135867899999862125765798704430231134520123300034431024557899999875431
Q gi|254780619|r 507 PLARISILSSDLEGGGGRLQLQLSAIAKGEIDIIIGTQLVAKGHNFPRMSLVGVVDGDLGLTNADLRSSERTFQLLSQVT 586 (731)
Q Consensus 507 p~~~v~~~d~d~~~~~~~~~~~~~~~~~~~~~ilvgTq~i~kg~~fp~v~lv~il~aD~~l~~pd~ra~E~~~qll~qv~ 586 (731)
T Consensus 828 PEarI~vaHGQM--~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiIIe~AD~fGL-----------sQLyQLR 894 (1139)
T COG1197 828 PEARIAVAHGQM--RERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERADKFGL-----------AQLYQLR 894 (1139)
T ss_pred CCEEEEEEECCC--CHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCEEEEECCCCCCH-----------HHHHHHC
T ss_conf 846888852588--889999999999728888898823430476777875588965433457-----------8888751
Q ss_pred HCCCCCCCCCEEEEEECCCCCH-------HHHHHHHC----CHHHHHHHHHHHHHHCC
Q ss_conf 1025667886899993298648-------88999958----97999999999999818
Q gi|254780619|r 587 GRAGRFGLKSLGLIQAYQPTHP-------VMQALVSG----DADSFYESEIRARESVN 633 (731)
Q Consensus 587 gRagr~~~~g~v~iQt~~p~~~-------~~~~~~~~----d~~~f~~~el~~R~~~~ 633 (731)
T Consensus 895 GRVGRS~~~AYAYfl~-p~~k~lT~~A~kRL~aI~~~~~LGaGf~lA~~DLeIRGaGN 951 (1139)
T COG1197 895 GRVGRSNKQAYAYFLY-PPQKALTEDAEKRLEAIASFTELGAGFKLAMHDLEIRGAGN 951 (1139)
T ss_pred CCCCCCCCEEEEEEEE-CCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHCCHHCCCCCC
T ss_conf 6547767628999962-67554587899999999723323751788752010045413