A survey of 3,432 WTCCC CNVs [8] shows that their minor allele frequency distribution differs markedly from the distribution of reproducible trait-associated SNPs as represented in the NGHRI catalog (See Figure S2). Of these, nearly 80% with minor allele frequency at least 10% are well tagged (r2≥0.8). Roughly 89% of the tagged CNVs (r2≥0.8) are less than 10 kb in length, and 26% are less than 1 kb long (See ). Table S2 shows the median length (in log10) of the WTCCC CNVs.
