HHsearch alignment for GI: 254781000 and conserved domain: cd00315

>cd00315 Cyt_C5_DNA_methylase Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability.
Probab=98.13  E-value=3.9e-05  Score=52.72  Aligned_cols=123  Identities=20%  Similarity=0.259  Sum_probs=73.6

Q ss_pred             EEEEECCCCCHHHHHHHH-CCCEEEEECCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHCCCCCCCCCCHHCCC
Q ss_conf             388602464235888850-6856998447588999999978860899649997689999898862332222321010147
Q gi|254781000|r  212 DLLELYCGNGNFSLVLAR-HFDRVLAVEIAKPSVEAARYNIAANHVNNVKIVRMSSKEFTQAMRREREFNRLKDIDIHSY  290 (371)
Q Consensus       212 ~vlDLycG~G~fsl~La~-~~~~V~gvE~~~~ai~~A~~Na~~N~i~n~~f~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  290 (371)
T Consensus         2 ~v~dLFsG~GG~s~Gl~~aG~~~~~a~e~d~~a~~t~~~N~~~------~~~~~Di~~~~~~~--------------~~~   61 (275)
T cd00315           2 RVIDLFAGIGGFRLGLEKAGFEIVAANEIDKSAAETYEANFPN------KLIEGDITKIDEKD--------------FIP   61 (275)
T ss_pred             CEEEECCCCCHHHHHHHHCCCEEEEEEECCHHHHHHHHHHCCC------CCCCCCHHHCCCCC--------------CCC
T ss_conf             5999767807899999986998999996899999999988799------95258864465321--------------378


Q ss_pred             CCCEEEECCCC----------------CCHHHHHHHHHHC-CCCEEEEECCHHHHH---------HHHHHHCC-CCEEEE
Q ss_conf             87799986970----------------2634899999853-994899929989998---------86998426-967999
Q gi|254781000|r  291 RFKTIFVDPPR----------------SGLDDATVGMVQA-YPHILYISCNPDSLC---------RDLSILST-THTIER  343 (371)
Q Consensus       291 ~~d~vilDPPR----------------~G~~~~~~~~~~~-~~~ivYVSCnp~Tla---------rD~~~l~~-gy~i~~  343 (371)
T Consensus        62 ~vDll~ggpPCQ~fS~ag~~~~~~d~r~~L~~~~~~~i~~~~P~~~~~-ENV~~~~~~~~~~~~~~i~~~l~~~GY~~~~  140 (275)
T cd00315          62 DIDLLTGGFPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKKPKYFLL-ENVKGLLTHDNGNTLKVILNTLEELGYNVYW  140 (275)
T ss_pred             CCCEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEH-HHHHHHHHHCCCCHHHHHHHHHHHCCCEEEE
T ss_conf             878898689998735478638865640168999999998768858827-6376687523560789999999867982027


Q ss_pred             EEEEEC----CCCCCCE
Q ss_conf             999717----9898724
Q gi|254781000|r  344 LALFDQ----FPYTRHM  356 (371)
Q Consensus       344 ~~~~D~----FP~T~Hv  356 (371)
T Consensus       141 ~-vl~a~~~GvPQ~R~R  156 (275)
T cd00315         141 K-LLNASDYGVPQNRER  156 (275)
T ss_pred             E-EECHHHCCCCCCCCE
T ss_conf             7-867999799977618