Figure 5. Relationship of LD block size and structure to window size from HapMap data.

Figure 5 illustrates that as distance from the gene increases, the likelihood that a SNP is in LD with an intra-genic SNP decreases. Importantly, the likelihood of a SNP being in moderate LD (r²>0.70) more than10 kb from the boundary of the gene is only approximately 35%, with the likelihood of being in high LD even lower.