HHsearch alignment for GI: 254780552 and conserved domain: COG1197

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription].
Probab=96.20  E-value=0.043  Score=32.32  Aligned_cols=150  Identities=24%  Similarity=0.382  Sum_probs=76.9

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHH-HH-CCC------------------------
Q ss_conf             7782397999999999999866146776707997378855778999999-86-189------------------------
Q gi|254780552|r   27 LEEFTGQVEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVA-RE-LGV------------------------   80 (334)
Q Consensus        27 l~dviGQ~~~~~~l~~~i~a~~~~~~~~~h~Lf~GPpG~GKTtlA~iiA-~~-l~~------------------------   80 (334)
T Consensus       593 yeET~DQl~AI~eVk~DM~~----~kpMD-RLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFkeRF  667 (1139)
T COG1197         593 YEETPDQLKAIEEVKRDMES----GKPMD-RLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFKERF  667 (1139)
T ss_pred             CCCCHHHHHHHHHHHHHHCC----CCCCH-HEEECCCCCCHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHH
T ss_conf             85787899999999988606----98661-02565768759999999999986379749999260786899899999873


Q ss_pred             ---CC--CCCCCCCCCCHHHHHHHHHHHHCC---------------------CHHHHHHHHHCCHHHHHHHHHHHHCCCC
Q ss_conf             ---85--312576443346766666641016---------------------3788875761698999999998634751
Q gi|254780552|r   81 ---NF--RSTSGPVIAKAGDLAALLTNLEDR---------------------DVLFIDEIHRLSIIVEEILYPAMEDFQL  134 (334)
Q Consensus        81 ---~~--~~~s~~~~~~~~dl~~~~~~~~~~---------------------~vlfiDEihrl~~~~q~~Ll~~mE~~~i  134 (334)
T Consensus       668 ~~fPV~I~~LS--RF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~FkdLGLlIIDEEqRFGVk~KEkLK~L-r-~~V  743 (1139)
T COG1197         668 AGFPVRIEVLS--RFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKFKDLGLLIIDEEQRFGVKHKEKLKEL-R-ANV  743 (1139)
T ss_pred             CCCCEEEEEEC--CCCCHHHHHHHHHHHHCCCCCEEEECHHHHCCCCEEECCCEEEEECHHHCCCCHHHHHHHH-H-CCC
T ss_conf             38982588860--5578899999999985698458996317647896770476489744353271178999877-5-057


Q ss_pred             CCC-CCCCCCCCEEECCCC---CCEEEECCCCCCCCCHHHHHCCCCEEECCCCCHHHHHHHHHH
Q ss_conf             002-567876520004667---400552045543355454420120673264547999998777
Q gi|254780552|r  135 DLM-VGEGPSARSVKINLS---RFTLIAATTRVGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQR  194 (334)
Q Consensus       135 ~i~-~~~~~~a~~~~~~~~---~f~lI~ATt~~~~l~~~l~sR~~~~~~~~~~~~~el~~il~~  194 (334)
T Consensus       744 DvLTLSATPIPRTL~Msm~GiRdlSv---------I~TPP~~R~pV~T~V~~~d~~~ireAI~R  798 (1139)
T COG1197         744 DVLTLSATPIPRTLNMSLSGIRDLSV---------IATPPEDRLPVKTFVSEYDDLLIREAILR  798 (1139)
T ss_pred             CEEEEECCCCCCHHHHHHHCCHHHHH---------CCCCCCCCCCEEEEEECCCHHHHHHHHHH
T ss_conf             28974178875447777744303311---------14799877212888715882899999999