Figure 2. Density plot of axis 1 eigenvalues from the Principal
Components Analysis. Plots are based on candidate SNP genotypes from
each of the 28 pooled whole genome resequencing libraries representing
virus affected (red) and unaffected (black) fishing stocks.
Figure 3. (a) Regression analysis indicating a positive linear
relationship between number of candidate SNPs (BF > 50) and
scaffold length. Outlier scaffolds with a greater frequency of candidate
SNPs relative to scaffold length are plotted in red. (b)Heatmaps of outlier scaffolds generated with the package LDBlockShow
(Dong, et al., 2021) depicting the pairwise linkage disequilibrium
measure of D ’ (refer to colour key) between each SNP with a BF ≥
50. In addition, black triangle sections represent detected haplotype
blocks; genomic regions of low recombination.