Table 2.
WES summary statistics
| Type of variants/populations | Baka Pygmies | Bantu | Total |
|---|---|---|---|
| Number of individuals | 8 | 5 | 13 |
| Median coverage per exome | ~ 16 | ~ 21 | ~ 18 |
| Variants raw | – | – | 231,932 |
| Variants filtered (SNP/InDel) | 83,085 | 68,188 | 98,503 |
| Variants filtered SNP, InDel (w/o XY) | 81,507 | 66,709 | 96,508 |
| SNPs | 78,416 | 63,905 | 93,365 |
| SNPs (w/o XY) | 76,955 | 62,549 | 91,510 |
| Average SNPs per subject | 31,413 ± 1.27 | 30,820 ± 0.83 | – |
| In/Del | 4669 | 4285 | 5138 |
| In/Del (w/o XY) | 4552 | 4158 | 4996 |
| In per exome | 508.75 ± 38.30 | 518.60 ± 28.60 | – |
| Del per exome | 566.00 ± 48.50 | 588.20 ± 59.70 | – |
| Novel variants | 7434 | 5346 | 8820 |
| Novel variants unique | 3474 | 1386 | – |
| Novel variants unique(w/o XY) | 3401 | 1331 | – |
| Novel SNPs | 2964 | 1238 | 3892 |
| Novel SNPs per exome | 515.25 ± 63.70 | 330.40 ± 39.40 | – |
| Novel In/Del | 4552 | 4158 | 5138 |
| Novel In/Del (w/o XY) | 4358 | 3985 | 4996 |
| Novel In per exome | 503.25 ± 38.00 | 513.60 ± 28.20 | – |
| Novel Del per exome | 562.25 ± 47.80 | 584.80 ± 58.30 | – |
Variant type and number scored in WES in Baka Pygmies and Bantu selected individuals