MER11D Long Terminal Repeat for HERVK11 endogenous retrovirus
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MER11D is a retroviral LTR that has been proliferated by the HERVK-related retrovirus HERVK11. Generates 6 bp TSDs. MER11D is a very young subfamily of MER11 LTRs, 98% similarity to the consensus sequence. MER11D consensus sequence is only 64% similar to MER11A,B,C consensus sequences, which are also young subfamilies (~90% similarity). Note that MER stands for MEdium Reiteration frequency interspersed repeat. As such, MERs as a group are a grab bag of DNA transposons and retrotransposons.
Medium reiteration frequency repetitive sequences in the human genome.
Kaplan DJ, Jurka J, Solus JF, Duncan CH;
Nucleic Acids Res 1991;19:4731-4738 Pubmed
Number of matches to this model that meet the "Gathering" threshold and more stringent "Trusted" threshold. For each threshold, two numbers are shown: (1) the number of matches to this model after removing redundant hits to other models ("non-redundant"), and (2) the total number of matches above threshold, including those with better scoring matches to other models ("all hits").
The model is 897 positions long. The average length of non-redundant hits to the model is 652.1. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : MER11D [Requires Repbase registration]