| Illumina | SOLiD | |||
---|---|---|---|---|---|
 | Frag | PE | PE (high stringency) | 1 | 1 |
Bases produced (Gbp) | 2.51 | 2.84 | Â | 3.4 | 9.99 |
Bases on target after duplicate removal (Gbp) | 1.04 | 2.01 | Â | 0.59 | 1.72 |
Total SNPs | 21,239 | 27,953 | 26,489 | 19,790 | 24,077 |
dbSNP SNPs | 19,525 | 23,745 | 23,133 | 18,016 | 21,350 |
dbSNP (%) | 91.9 | 84.95 | 87.3 | 91.04 | 88.67 |
HapMap variant concordance (%) | 83.0 | 96.0 | 95.8 | 81.6 | 92.9 |
Variant concordance (>9× coverage) (%) | 95.5 | 98.5 | 98.2 | 94.5 | 97.2 |