Table 1 Number and frequency of parallelisms in human segmental duplications
QC filter | Number of parallelisms | Number of higher order parallelisms | Number of SNPs in parallelisms | Number of SNPs in SDs | Percentage of SD SNPs in parallelisms |
|---|---|---|---|---|---|
No filters | 48,996 | 3,227 | 78,532 | 1,216,383 | 6.46 |
High quality alignment | 41,970 | 2,683 | 68,568 | 747,278 | 9.18 |
Uniquely mapping SNPs + High quality alignment | 30,729 | 1,982 | 50,413 | 610,166 | 8.26 |
Non-CpG Sites + Uniquely mapping SNPs + High quality alignment | 15,790 | 606 | 28,747 | 554,600 | 5.18 |