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.