HHsearch alignment for GI: 254780128 and conserved domain: cd00221

>cd00221 Vsr Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches.
Probab=92.91  E-value=0.93  Score=26.51  Aligned_cols=75  Identities=15%  Similarity=0.107  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEEEEECCCCCEEEEEE--------ECCCCCCCHHHHHHH----------
Q ss_conf             99999999999997898999981188898743999906982999999--------768988688999999----------
Q gi|254780128|r   11 EKDVEKRLVTGAKKLDCWVRKASFVGRRGCPDRLIITPNGGLWWIEV--------KKPTGRLSHQQMSEI----------   72 (103)
Q Consensus        11 E~~ie~~l~~~lk~~G~~~~K~~~~g~~GvPDli~~~~~g~~~fIEv--------K~~~gkls~~Q~~~~----------   72 (103)
T Consensus        17 ~TkpE~~vrk~L~~~G~Ry-r~~~k~lpG~PDi-v~~~~k~aIFvdGCFWHgh~~~~-~~~pk~n~~fW~~Ki~~N~~RD   93 (115)
T cd00221          17 DTKPERAVRSALWELGYRF-RKQDKDLPGKPDI-VVPGYRLAIFVDGCFWHGHPCHK-RKPPPKNTEFWLEKIERNVERD   93 (115)
T ss_pred             CCHHHHHHHHHHHHCCCEE-EECCCCCCCCCCE-EECCCCEEEEECCEEECCCCCCC-CCCCCCCHHHHHHHHHHHHHHH
T ss_conf             9869999999999889989-9668877999999-73576289993240433888757-8889853899999999999989


Q ss_pred             ----HHHHHCCCEEEEECCH
Q ss_conf             ----9999789889998598
Q gi|254780128|r   73 ----EELRRRGQRVKVLVSM   88 (103)
Q Consensus        73 ----~~l~~~G~~~~Vv~s~   88 (103)
T Consensus        94 ~~~~~~L~~~GW~v~~vWEc  113 (115)
T cd00221          94 RRVQAALERLGWRVLRVWEC  113 (115)
T ss_pred             HHHHHHHHHCCCEEEEEEEC
T ss_conf             99999999889989999830