Mapping
Paired-end pool-seq reads described previously (Keeling et al., 2013c) were obtained from the NCBI SRA database (Fairview (FV) - SRR073440; Kananaskis (KA) - SRR086167; Terrace (TR) -SRR073431; Whitecourt (WC) - SRR073441; Cypress Hills (CH) - SRR086168; Valhalla (VA) - SRR086169; Houston (HO) - SRR086170). Paired-end reads were trimmed using BBDuk v37.25 (Bushnell, 2020) (trimq = 20, minlength = 10) prior to mapping. Two datasets containing northern (HO, TR, WC, FV) and southern (VA, KA, CH) Canadian populations were created and mapped to the final female genome assembly using the BBMap v36.92 (Bushnell, 2020) plugin for Geneious v10.1.3 (Biomatters, Auckland, New Zealand) with default settings.