Table 5 Mismatch identification
| Â | Carapa guianensis | Eperua falcata | Symphonia globulifera | Virola surinamensis |
|---|---|---|---|---|
Total length with depth ≥ 8X after assembly cleaning (bases) | 956876 | 603897 | 499694 | 862357 |
Before post-filtering based on binomial test | ||||
N mismatches | 10615 | 7084 | 5447 | 10897 |
N variant-containing contigs | 1716 (7.88%) | 1299 (5.55%) | 987 (5.77%) | 1752 (8.32%) |
mismatch density (/100 bp) | 1.11 | 1.17 | 1.09 | 1.26 |
N mismatches with 2 variants | 10420 (98.16%) | 6968 (98.36%) | 5362 (98.44%) | 10757 (98.72%) |
N transitions | 2655 | 1875 | 1090 | 2182 |
N transversions | 1699 | 1155 | 779 | 1474 |
Ti/Tv | 1.56 | 1.62 | 1.40 | 1.48 |
N indel | 6066 | 3938 | 3493 | 7101 |
N mismatches > 2 variants | 195 (1.84%) | 116 (1.64%) | 85 (1.56%) | 140 (1.28%) |
After post-filtering based on binomial test | ||||
N mismatches | 8646 | 5713 | 4434 | 9076 |
N variant-containing contigs | 1706 (7.83%) | 1283 (5.5%) | 979 (5.72%) | 1746 (8.29%) |
mismatch density (/100 bp) | 0.90 | 0.95 | 0.89 | 1.05 |
N mismatches with 2 variants | 8534 (95.70%) | 5649 (98.89%) | 4388 (98.96%) | 8981 (98.95%) |
N transitions | 2380 | 1657 | 989 | 1989 |
N transversions | 1488 | 1000 | 681 | 1310 |
Ti/Tv | 1.60 | 1.66 | 1.45 | 1.52 |
N indel | 4666 | 2992 | 2718 | 5682 |
N mismatches > 2 variants | 112 (1.13%) | 64 (1.12%) | 46 (1.04%) | 95 (1.05%) |