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Vt

737 bytes added, 15:13, 14 February 2016
Profile VNTRs
no coding 17911 (0.32%) #number of VNTRs in coding regions determined by GENCODE v7
no redundant 1312209 (23.18%) #number of VNTRs involved in overlapping with one another<br>
trf_lobstr (1638516) #TRF based reference set used in lobSTR, motif lengths 1 to 6. A-B 3269285 #TRs specific to vntrs.sites.bcf A-B~ 1666185 #TRs in vntrs.sites.bcf that overlap partially with at least one TR in TRF(lobSTR) but does not overlap exactly with another TR. A&B1 725404 #TRs in vntrs.sites.bcf that overlap exactly with at least one TR in TRF(lobSTR) A&B2 723195 #TRs in TRF(lobSTR) that overlap exactly with at least one TR in vntrs.sites.bcf B-A~ 710075 #TRs in TRF(lobSTR) that overlap partially with at least one TR in vntrs.sites.bcf but does not overlap exactly with another TR. B-A 205246 #TRs specific to TRF(lobSTR) #note that the first 3 rows should sum up to the number of TRs in vntrs.sites.bcf #and the 4th to 6th rows should sum up to the number of TRs in TRF( lobSTR) #This basically allows us to see the m to n overlapping in overlapping TRs<br>
trf_repeatseq (1624553) #TRF based reference set used in repeatseq, motif lengths 1 to 6.
A-B 3291652
1,102
edits

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