All SNV sites | Phased from | Reference | Comparable | Agreed | Accuracy | Fraction of |
---|
 | bulk data | haplotype | sites |  |  | completion |
---|
2,652,381 | 2,319,027a | 1,861,941b | 1,824,401 | 1,818,042 | 0.997 | 0.980 |
 | 2,151,642c |  | 1,815,197 | 1,809,886 | 0.997 | 0.975 |
 | 2,319,027a | 2,183,123d | 2,122,256 | 2,114,548 | 0.996 | 0.969 |
 | 2,151,642c |  | 2,096,982 | 2,091,821 | 0.998 | 0.958 |
Indel variants | Â | Â | Â | Â | Â | Â |
on Chr.21 | Â | Â | Â | Â | Â | Â |
9,285 | 7663e | 3618f | 3553 | 3535 | 0.995 | 0.982 |
 | 4702c |  | 3183 | 3177 | 0.998 | 0.880 |
 | 7663e | 4581g | 4478 | 4426 | 0.988 | 0.978 |
 | 4702c |  | 3835 | 3827 | 0.998 | 0.837 |
- aAll phased variants without any filtering
- bVariants detected in the linked-reads data that are also contained in the GIAB release. Total number of phased SNVs in the GIAB release, 1,867,590
- cFiltered by haplotype linkage: ≥1 link connecting ref, alt, HapA, and HapB, and minor linkage ≤2 or minor linkage/total linkage ≤0.1
- dPhased variants determined from phased de novo assembly of parental chromosomes that are also detected in the linked-reads data. Total number of phased variants from diploid de novo assembly, 2,312,059
- eVariants phased by molecular linkage to phased SNVs in the scaffold haplotype solution
- fIntersection with phased indel variants in the GIAB data with exactly matching variant genotypes. Total number of phased indels in the GIAB release, 4090
- gIntersection with phased indels derived from de novo assembly of parental chromosomes with exactly matching variant genotypes. Total number of phased indels from diploid assembly, 7128