Table 2.
On a SNP basis | On a gene basis | ||||||
Number of SNPs assayed | Number of SNPs with GenTrain score ≥ 0.25 2 | Number of segregating SNPs with GenTrain score ≥ 0.25 2 | Number of monomorphic SNPs with GenTrain score ≥ 0.25 2 | Number of genes assayed | Number of segregating genes | ||
White spruce | |||||||
Resequenced SNPs | 730 (95%) | 596 (81.6%) | 505 (69.2%) | 62 (8.5%) | |||
in silico SNPs 1 | 38 (5%) | 31 (81.6%) | 11 (28.9%) | 25 (65.8%) | |||
Total | 768 (100%) | 603 (78.5%) | 516 (67.2%) | 87 (11.3%) | 425 | 330 (77.6%) | |
Black spruce | |||||||
Resequenced SNPs | 768 (100%) | 630 (82.0%) | 592 (77.1%) | 31 (4.0%) | 348 | 311 (89.4%) |
1 in silico SNPs were detected in aligned EST derived from white spruce cDNA libraries. The resource is described in Pavy et al. [18]. For black spruce, all SNPs were obtained after resequencing from genomic DNA.
2 For SNPs with a GenTrain score ≥ 0.25, valid GenCall scores were obtained for 99.4% of samples, on average (see Results).