Supplemental Data Table 1. A summarised list of the DArT loci including meta data and genotype information for the sampled black marlin individuals.

The dataset includes the characterisation of 3732 Single Nucelotide Polymorphisms (SNPs) in double digested restriction-site associated DNA. The DNA is from black marlin (Istiompax indica) tissue samples collected from throughout the Indian and Pacific Ocean. These SNPs were filtered based on their characteristics to identify a subset of suitable SNPs for population genetic analysis.
The characteristics included in the table include:
AlleleID: Unique identifier for the sequence in which the SNP marker occurs
AlleleSequence: the sequence of the Reference allele. In 2 rows format: the sequence of the Reference allele is in the Ref row, the sequence of the SNP allele in the SNP row
AvgCountRef: The sum of the tag read counts for all samples, divided by the number of samples with non-zero tag read counts, for the Reference allele row
AvgCountSnp: The sum of the tag read counts for all samples, divided by the number of samples with non-zero tag read counts, for the SNP allele row
AvgPIC: The average of the polymorphism information content (PIC) of the Reference and SNP allele rows
CallRate: The proportion of samples for which the genotype call is either "1" or "0", rather than "-"
CloneID: Unique identifier for the sequence in which the SNP marker occurs
FreqHets: The proportion of samples which score as heterozygous.
FreqHomRef: The proportion of samples which score as homozygous for the Reference allele
FreqHomSnp: The proportion of samples which score as homozygous for the SNP allele
OneRatioRef: The proportion of samples for which the genotype score is "1", in the Reference allele row
OneRatioSnp: The proportion of samples for which the genotype score is "1", in the SNP allele row
PICRef: The polymorphism information content (PIC) for the Reference allele row
PICSnp: The polymorphism information content (PIC) for the SNP allele row
RepAvg: The proportion of technical replicate assay pairs for which the marker score is consistent
SNP In 2 rows format: this column is blank in the Reference row, and contains the base position and base variant details in the SNP row. In 1 row format: contains the base position and base variant details
SnpPosition: The position (zero indexed) in the sequence tag at which the defined SNP variant base occurs
TrimmedSequence: Same as the full sequence, but with removed adapters in short marker tags

The location of origin for each sample is also listed above the sample numbers and rows highlighted in bold font are positive selected SNPs.