Table 7 |
|||||
| High-quality SNPs identified from the walnut genome after applying the new filters of read mapping depth (≤ 25), SNP mapping quality score (≥ 30), and folded variantfrequency (statistically not different from 0.5) | |||||
| BES | No of BESs | No of BESs with SNPs | Total SNPs | Number of contigs with SNPs | Predicted true SNP rate(a) |
| Genic | 29,223 | 6,317 | 8,237 | 629 | 87.1% |
| Non-genic | 19,438 | 3,996 | 5,202 | 601 | 90.0% |
| Total | 48,661 | 10,313 | 13,439 | 677 | 88.2% |
(a) Estimated based on the logistic regression model in 2,765 validated SNPs (Table 6).
You et al. BMC Genomics 2012 13:354 doi:10.1186/1471-2164-13-354
