Sample information.

The sample tab has metadata about each sample, including information on sex, river, and year-class (latitude and longitude locations are approximate). The StatsAllFilters tab shows metrics from the.vcf file after filtering for LD (see methods). Stats1stFilter has the same information, but from the.vcf file after only preliminary filtering (see methods). The eigenGWAS tab contains the DAPC values used in the eigenGWAS analysis (see methods). The Mitochondrion tab shows metadata used to generate the mitochondria figures. The GPS tab shows the coordinates used in the sample map. The Admixture tab has the values output from the admixture analysis. For each tab with LG, these sheets have manually genotyped areas and calculations of HWE. The PrivateAlleles tab has metrics output from Stacks. The SharedAlleles tab has a matrix of shared alleles between individuals in long format and statistics on the right. The Y-Chrom tab has information about the sdY haplotypes. The GWAS tab has metadata used in the GWAS analysis. The GHp tab displays the alignments of the growth hormone pseudogene and sdY gene to the odd and even genome. (XLSX)