Figure 1

A moving average of the fraction of complete or nearly complete LD ( r² > 0.8) versus distance between SNPs. All panels are those for CEU. See Additional file 1 for CHB, JPT, and YRI, which show the same tendency. (A) Plots of LD within DNA sequences conserved between the human and mouse genomes (in red with Xs), non-conserved regions (regions other than conserved ones; shown in red with circles), genic regions (in blue with Xs), and non-genic regions (in blue with circles). (B) Plots of LD within intersections of non-genic regions with conserved (in red with Xs) and non-conserved (in red with circles) regions, and of genic regions with conserved (in blue with Xs) and non-conserved (in blue with circles) regions. (C) Plots of LD within intersected regions of centromeric regions (the 10% definition, we only show plots in the 10% definition because of the same tendency in the 5% definition) with conserved (in red with Xs) and non-conserved (in red with circles) regions, of telomeric regions with conserved (in blue with Xs) and non-conserved (in blue with circles) regions, and of the residual regions (neither centromeric nor telomeric) with conserved (in green with Xs) and non-conserved (in green with circles) regions. (D) LD fractions for SNP pairs within highly conserved and less highly conserved regions (black and green), highly and less highly conserved non-coding regions (blue and light blue), and regions enriched (>20% in the bases) with highly and less highly conserved coding regions (red and pink). We selected only regions where the proportion of repeats was <20%, and since after this adjustment we found outliers of LD related to extreme GC-content, we further selected regions where the GC-content was 45–65%.