Skip to main content

Advertisement

Table 4 Comparison of several SNP identification criteria and ADT design scores in scorable and unscorable SNPs

From: Genome-wide SNP discovery in walnut with an AGSNP pipeline updated for SNP discovery in allogamous organisms

SNP Number of SNPs ADT design score Average quality score of reference SNP quality score of reference SNP mapping quality score Read mapping depth Folded variant frequency
Scorable 5,420 0.973 ± 0.052(a) 54.6 ± 9.8 59.1 ± 6.8 34.0 ± 1.8 24.9 ± 15.7 0.35 ± 0.10
Unscorable 580 0.977 ± 0.047 54.5 ± 9.5 59.2 ± 6.9 34.0 ± 1.8 23.1 ± 14.1 0.35 ± 0.10
P value of t test   0.0677 0.9177 0.7894 0.8213 0.0086** 0.9896
  1. (a) average ± standard deviation; ** represents statistical significance at a 0.01 probability level.