Figure 4.

(A) Pre‐epizootic population linkage disequilibrium (r ²) calculations between the pairs of SNPs located on the same RAD locus. From eight randomly chosen individuals with less than 50% missing data, the LOESS smoothed r ² values (solid lines) and 95% SE confidence intervals (shaded areas) are shown for each SNP distance. (B) LD (r ²) calculations between pairs of SNPs located on the same RAD locus. For eight Pre‐E and Post‐E individuals, the LOESS smoothed r ² values (solid lines) and 95% SE confidence intervals (shaded areas) are shown for each SNP distance. (C) Mean LD (r ²) between SNPs on read 1 and read 2 of the same DNA fragment (paired; 375 pairs of loci) compared to two randomly chosen loci (random; 375 random pairs)