Table 1.
Distribution of ASDPs
| ASDP category | Count | Percentage |
|---|---|---|
| SNV | 187,080 | 80.5% |
| Deletion | 15,955 | 6.9% |
| Deletion (1 nt) | 6,368 | 2.7% |
| Deletion (2 nt) | 2,413 | 1.0% |
| Deletion (3–50 nt) | 7,174 | 3.1% |
| Insertion | 15,286 | 6.6% |
| Insertion (1 nt) | 6,423 | 2.8% |
| Insertion (2 nt) | 2,224 | 1.0% |
| Insertion (3–50 nt) | 6,639 | 2.9% |
| Block substitution | 14,012 | 6.0% |
| Block substitution (2 nt) | 11,659 | 5.0% |
| Block substitution (3 nt) | 1,653 | 0.7% |
| Block substitution (4–50 nt) | 700 | 0.3% |
A total of 232,333 high-quality ASDPs were characterized by our algorithm of which 80.5% corresponded to SNVs when comparing the alternate locus with the corresponding primary assembly. About 7% each were deletions and insertions and 6% were block substitutions with equal numbers of nucleotides.
ASDP alignable scaffold-discrepant position, SNV single nucleotide variant