Table 2 Assembly statistics of the three new cacao genomes and the two reference genomes.
From: Three de novo assembled wild cacao genomes from the Upper Amazon
Assembly | Contamana | Iquitos | Nanay | Criollo** | Matina 1–6** |
|---|---|---|---|---|---|
Total HiFi long reads (Gigabases) | 21.4 | 19.1 | 20.4 | — | — |
Number of scaffolds | 175 | 170 | 1895 | 431 | 711 |
Total genome length | 383,477,156 | 381,649,652 | 419,275,778 | 324,879,930 | 345,993,675 |
Length of the 10 chromosomes | 352,058,514 | 351,354,296 | 338,407,810 | 314,189,522 | 330,456,197 |
GC (%) | 33,79 | 33.8 | 34.9 | 32,1 | 32,5 |
N50 | 39,464,999 | 39,489,205 | 34,430,447 | 36,364,294 | 34,397,752 |
L50 | 5 | 5 | 6 | 5 | 5 |
N90 | 24,455,724 | 23,705,257 | 41,995 | 21,614,486 | 21,543,242 |
L90 | 10 | 10 | 580 | 9 | 10 |
k-mer completeness (%) | 86.4 | 82.9 | 87.6 | 92.0 | 74.5 |
k-mer consensus QV (quality value) | 61.0 | 61.6 | 53.0 | 38.9 | 32.4 |
BUSCO * | 98.4% | 98.8% | 98.4% | 98.1% | 98.3% |
