na | Genotype concordance (%) | Allele concordance (%) | Concordance by genotype (%) | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
True = 0 | True = 1 | True = 2 | |||||||||||
0|0b | 1|0 | 2|0 | 0|1 | 1|1 | 2|1 | 0|2 | 1|2 | 2|2 | |||||
Best-guess | |||||||||||||
1× | 30,875 | 62.6 | 81.1 | 99.45 | – | 0.55 | 51.35 | – | 48.65 | 0.70 | – | 99.30 | |
2× | 35,688 | 79.9 | 90.0 | 98.60 | 1.40 | 0.00 | 26.20 | 48.26 | 25.54 | 0.04 | 1.61 | 98.35 | |
3× | 28,357 | 88.6 | 94.3 | 98.36 | 1.64 | 0.00 | 13.80 | 72.20 | 14.00 | 0.00 | 2.22 | 97.78 | |
4× | 17,849 | 92.7 | 96.4 | 98.05 | 1.95 | 0.00 | 8.22 | 84.01 | 7.77 | 0.00 | 2.63 | 97.37 | |
5× | 9619 | 95.3 | 97.6 | 97.40 | 2.60 | 0.00 | 4.55 | 91.52 | 3.93 | 0.00 | 2.49 | 97.51 | |
6–10× | 7047 | 95.2 | 97.6 | 97.73 | 2.27 | 0.00 | 4.96 | 91.05 | 4.00 | 0.00 | 2.68 | 97.32 | |
Overall | 129,435 | 81.4 | 90.7 | 98.53 | 1.34 | 0.13 | 24.27 | 52.40 | 23.33 | 0.18 | 1.61 | 98.21 | |
Probability ≥ 0.90 | |||||||||||||
1× | 0 | – | – | – | – | – | – | – | – | – | – | – | |
2–3×b | 14,572 | 95.5 | 97.7 | – | 100.00 | – | – | 100.00 | – | – | 100.00 | – | |
4× | 14,359 | 92.7 | 96.3 | 99.97 | 0.03 | 0.00 | 16.24 | 68.39 | 15.37 | 0.00 | 0.05 | 99.95 | |
5× | 8315 | 96.3 | 98.2 | 99.92 | 0.08 | 0.00 | 6.76 | 87.41 | 5.83 | 0.00 | 0.10 | 99.90 | |
6–10× | 6397 | 98.1 | 99.0 | 99.83 | 0.17 | 0.00 | 3.08 | 94.65 | 2.27 | 0.00 | 0.29 | 99.71 | |
Overall | 43,643 | 95.1 | 97.5 | 97.18 | 2.82 | 0.00 | 3.52 | 93.26 | 3.21 | 0.00 | 3.65 | 96.35 | |
Probability ≥ 0.98 | |||||||||||||
1–3× | 0 | – | – | – | – | – | – | – | – | – | – | – | |
4–5×b | 4366 | 99.8 | 99.9 | – | 100.00 | – | – | 100.00 | – | – | 100.00 | – | |
6–10× | 6313 | 98.1 | 99.1 | 99.83 | 0.17 | 0.00 | 3.15 | 94.58 | 2.26 | 0.00 | 0.29 | 99.71 | |
Overall | 10,679 | 98.8 | 99.4 | 99.65 | 0.35 | 0.00 | 1.00 | 98.28 | 0.72 | 0.00 | 0.57 | 99.43 |