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Table 4 Results of SNP validation using SNaPshot™ and GoldenGate™ chemistries including a comparison of the genotype calls

From: Genome-wide SNP identification in multiple morphotypes of allohexaploid tall fescue (Festuca arundinacea Schreb)

SNP class and sub-class (GoldenGate clustering) Number of SNPs % genotypes with concordant allele calls
SNaPshot GoldenGate Compared between genotyping systems1
Polymorphic 70 62 38 80.45
  3 clusters  (1 sub-genome amplified) N/A 17 12 87.01
  3 clusters  (3 sub-genomes amplified) N/A 11 5 86.00
  2 clusters N/A 20 13 80.15
  5 clusters N/A 2 1 48.65
  Dispersed N/A 12 7 71.71
Diagnostic 4 3 1 97.67
Monomorphic 15 16 7 39.11
Failed 7 14 5 N/A
Total 96 96 51 76.43
  1. 1 SNPs are classed according to the GoldenGate™ results.