Table 1. Number of SNPs identified using a pool of equal numbers of quality filtered reads from each of eight varieties, totaling 96 million for ApeKI libraries, and 32 million for PstI libraries.

Enzyme	Minimum MAF	No. SNPs	Non redundant loci with SNPs
PstI	1%	52,020	27,593
	5%	40,621	24,583
ApeKI	1%	780,204	368,915
	5%	643,498	354,988

SNPs were identified using a Minor Allele Frequency (MAF) of 1 or 5 percent.