Table 2. Single nucleotide polymorphism detection statistics (includes insertions/deletions).

Parameter	Range	Number of SNPs
Coverage (Cov)	≥1000×	11,820
	≥100×	132,859
	≥50×	242,453
	≥25×	359,054
Minor allele frequency (MAF)	≥0.4	50,612
	≥0.3	114,956
	≥0.2	204,708
	≥0.1	345,740
Coverage and minor allele frequency	≥1000× and ≥0.4	747
	≥100× and ≥0.3	20,372
	≥50× and ≥0.2	70,076
	≥25× and ≥0.1	231,948
Total number of putative SNPs detected	Cov ≥6, MAF ≥0.05, Min allele ≥31	473,620

¹ Minimum count of non-reference alleles.