HHsearch alignment for GI: 254780601 and conserved domain: COG4096

>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms].
Probab=99.49  E-value=8.3e-12  Score=98.57  Aligned_cols=299  Identities=18%  Similarity=0.225  Sum_probs=178.6

Q ss_pred             CCCCCHHHHHHHHHHH----CCCC-EEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCHHHHHHHHHHH
Q ss_conf             9878989999999997----5996-9999289874689999999998610421225568827999849989999999999
Q gi|254780601|r   20 YVNLTSVQEAILNPDL----REKD-VLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGREL   94 (573)
Q Consensus        20 ~~~pt~iQ~~~ip~~l----~g~d-~i~~a~TGsGKT~af~lp~l~~l~~~~~~~~~~~~~~~lil~PTrELa~Qv~~~~   94 (573)
T Consensus       163 ~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrT-Aiaii~rL~r~~~~------KRVLFLaDR~~Lv~QA~~af  235 (875)
T COG4096         163 AIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRT-AIAIIDRLIKSGWV------KRVLFLADRNALVDQAYGAF  235 (875)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCEE-HHHHHHHHHHCCHH------HEEEEEECHHHHHHHHHHHH
T ss_conf             336227889999999999866874489997058885231-99999999961414------30567612678999999999


Q ss_pred             HHHHHHC-CCEEEEEECCCCHHHHHHHHCCCCEEEEECCCCHHHHHHCC-----CCCCCCCEEEEEECCCCCCC------
Q ss_conf             9985446-98799998899879999961289759982231013321000-----12246431899961311001------
Q gi|254780601|r   95 EWLYAKT-GVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGK-----GLNISHLKAVVLDEADEMLD------  162 (573)
Q Consensus        95 ~~l~~~~-~~~v~~~~gg~~~~~q~~~l~~~~~iiv~TPgrl~d~~~~~-----~l~l~~v~~lVlDEaD~ml~------  162 (573)
T Consensus       236 ~~~~P~~~~~n~i~~~~~----------~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi~~~~~~I  305 (875)
T COG4096         236 EDFLPFGTKMNKIEDKKG----------DTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGIYSEWSSI  305 (875)
T ss_pred             HHHCCCCCCEEEECCCCC----------CCCEEEEEEEHHHHHHHHHCCCCCCCCCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             963988640123201467----------8630588760377875640654565567888312899606666678766789


Q ss_pred             CHHHHHHHHHHHHCCCC----CCEEEEECCCCCCC----HHHHHHHCCCCCCCCCCCC---------------CCCCCCC
Q ss_conf             00123578887521433----42256311112220----0111121012333323332---------------3256652
Q gi|254780601|r  163 LGFRDDIEFILDSSPKK----RRMLMFSATISPAI----TTLAKNYQKDAVRVNIASE---------------NRQHSDI  219 (573)
Q Consensus       163 ~gf~~~i~~i~~~~p~~----~q~~l~SAT~~~~i----~~l~~~~~~~p~~i~~~~~---------------~~~~~~i  219 (573)
T Consensus       306 ~dYFdA~~~gLTATP~~~~d~~T~~~F~-g~Pt~~YsleeAV~DG~Lvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i  384 (875)
T COG4096         306 LDYFDAATQGLTATPKETIDRSTYGFFN-GEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAI  384 (875)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCCC-CCCCEEECHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCCCHHHHHHCCCC
T ss_conf             8899998876125762111323101337-970224128888521545788633766431566747675523233313436


Q ss_pred             --CHHCCCCCCCHHH-------HH----HHHCCCC--C--CCCEEEEECCCHHHHHHHHHHHHHC-----CCCCCCCCCC
Q ss_conf             --0000000000024-------55----4200102--3--5641677513023345655555422-----6663010489
Q gi|254780601|r  220 --DYRAVLVALSDRD-------NA----IVNILRY--H--GAKNAIVFCSTRASVSRFTKVLAEH-----LFQVVALSGE  277 (573)
Q Consensus       220 --~~~~~~v~~~~k~-------~~----l~~ll~~--~--~~~~~ivF~~t~~~~~~l~~~L~~~-----g~~~~~lhg~  277 (573)
T Consensus       385 ~~dd~~~~~~d~dr~~v~~~~~~~V~r~~~e~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d  464 (875)
T COG4096         385 DEDDQNFEARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGD  464 (875)
T ss_pred             CCCCCCCCCCCCCHHEECCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCEEEEEECC
T ss_conf             86544633355320000312478999999998425668886684589962707899999999874801067459998444


Q ss_pred             CCHHHHHHHHHHHHC--CCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCC
Q ss_conf             999999999866544--8814998538650014578873389705887478999860301037
Q gi|254780601|r  278 LSQQERSNALQMMRD--GRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRA  338 (573)
Q Consensus       278 ~~q~~R~~~~~~fr~--g~~~vLV~TDvaaRGiDi~~v~~Vin~d~P~~~~~yvHR~GRtgRa  338 (573)
T Consensus       465 ~~~~q~--~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r~V~SktkF~QMvGRGTRl  525 (875)
T COG4096         465 AEQAQA--LIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRL  525 (875)
T ss_pred             CHHHHH--HHHHHHHCCCCCCEEEEHHHHHCCCCCHHEEEEEEHHHHHHHHHHHHHHCCCCCC
T ss_conf             065689--9998874378983587612454278762204564314446689999986676543