HHsearch alignment for GI: 254780327 and conserved domain: COG1197
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription].
Probab=95.59 E-value=0.091 Score=33.82 Aligned_cols=146 Identities=27% Similarity=0.282 Sum_probs=79.1
Q ss_pred HHHHHCCCEEEECCCC--CEEEEECHHHHCCCHHHHHHHHHH-HHHHHHHCCCEEEEEEHHHHHHHHHHHHHHHCCCCHH
Q ss_conf 9987199679807899--622430203422377889999999-9999974099079861116789999999986077102
Q gi|254780327|r 391 LANIYNLDVIEVPTNV--PVIRIDEHDEIYRTSEEKYAAIIA-EIIDSHKKGQPVLVGTPSIEKSEYLASQLRKHKFTKF 467 (890)
Q Consensus 391 f~~iY~l~v~~iPtnk--p~~r~d~~d~v~~t~~~k~~ai~~-~i~~~~~~grpvLvgt~sve~Se~ls~~L~~~~~~~h 467 (890)
T Consensus 761 m~GiRdlSvI~TPP~~R~pV~T-------~V~--~~d~~~ireAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~L--VPE 829 (1139)
T COG1197 761 LSGIRDLSVIATPPEDRLPVKT-------FVS--EYDDLLIREAILRELLRGGQVFYVHNRVESIEKKAERLREL--VPE 829 (1139)
T ss_pred HHCCHHHHHCCCCCCCCCCEEE-------EEE--CCCHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHH--CCC
T ss_conf 7443033111479987721288-------871--58828999999998715987999943331299999999985--984
Q ss_pred ---HHHHHHHHHHHHHHHHH--CCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf ---23102247788888753--0558704887502446655402767557888651135755300899999999877643
Q gi|254780327|r 468 ---QILNALYHEKEAYIISQ--AGIPGAVTIATNMAGRGTDIQLGGNVAMRIEHELANISDEEIRNKRIKMIQEEVQSLK 542 (890)
Q Consensus 468 ---~vLNAk~~~~Ea~Iia~--AG~~g~vTiATNMAGRGTDI~Lgg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 542 (890)
T Consensus 830 arI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIP---nANTiI--------Ie~----------------- 881 (1139)
T COG1197 830 ARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIP---NANTII--------IER----------------- 881 (1139)
T ss_pred EEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCC---CCCEEE--------EEC-----------------
T ss_conf 6888852588889999999999728888898823430476777---875588--------965-----------------
Q ss_pred HHHHHCCCCEEEEECCCCCHHHHHHHCCCCCCCCCCCCEEEEEECCC
Q ss_conf 33454076279982677532335542054345668672389984230
Q gi|254780327|r 543 EKAIVAGGLYVISTERHESRRIDNQLRGRSGRQGDPGRSKFYLSLQD 589 (890)
Q Consensus 543 ~~v~~~GGL~VigterhesrRid~QlrGRagRQGdpG~s~f~~SleD 589 (890)
T Consensus 882 A---D~fGLsQ-----------LyQLRGRVGRS~~~AYAYfl~p~~k 914 (1139)
T COG1197 882 A---DKFGLAQ-----------LYQLRGRVGRSNKQAYAYFLYPPQK 914 (1139)
T ss_pred C---CCCCHHH-----------HHHHCCCCCCCCCEEEEEEEECCCC
T ss_conf 4---3345788-----------8875165477676289999626755