Per individual read depth for all RAD markers with greater than or equal to 20x coverage

RAW reads for each individual were mapped back to the catalogue of RAD marker consensus sequences using Stampy. SAMtools was then used to generate a pileup from which read depth was extracted. RAD markers with less than 20x coverage were considered absent

Per individual haplotypes for all RAD markers

Haplotypes produced by Stacks for all assembled RAD markers

Consensus sequences for all RAD markers

Fasta file containing consensus sequences for all RAD markers de novo assembled by stacks