Table 3.
Illumina paired-end reads information and contig information after the de novo assembly.
| Illumina GAII reads | Assembly | ||||||
|---|---|---|---|---|---|---|---|
| Genotype | Market class | Number of reads (in millions) | Genome coverage (x)* | Total length of assembled contigs (Mbp)+ | Number of assembled contigs | N50 (bp) | GC% |
| Cornell 49242 | Black | 7.20 | 3.2 | 66.97 | 261,313 | 300 | 40.9 |
| T-39 | Black | 8.42 | 3.7 | 178.16 | 527,965 | 422 | 32.6 |
| UI 906 | Black | 6.44 | 2.8 | 107.99 | 400,652 | 320 | 33.3 |
| Red Hawk | DRK | 7.20 | 3.2 | 128.33 | 427,260 | 360 | 35.0 |
| Fiero | DRK | 7.61 | 3.3 | 146.58 | 470,693 | 373 | 34.0 |
| California Early | LRK | 7.52 | 3.3 | 145.26 | 461,881 | 387 | 34.2 |
| Lark | LRK | 10.30 | 4.5 | 199.12 | 531,149 | 501 | 33.8 |
| Kardinal | LRK | 11.74 | 5.1 | 238.71 | 534,298 | 651 | 32.5 |
| C20 | Navy | 7.84 | 3.4 | 100.52 | 355,778 | 338 | 37.6 |
| Michelite | Navy | 9.47 | 4.1 | 170.02 | 504,441 | 426 | 34.3 |
| Laker | Navy | 3.71 | 1.6 | 81.10 | 381,399 | 222 | 33.8 |
| Stampede | Pinto | 10.20 | 4.5 | 214.71 | 752,015 | 330 | 33.2 |
| Sierra | Pinto | 9.58 | 4.2 | 178.36 | 532,937 | 409 | 32.7 |
| Buckskin | Pinto | 10.45 | 4.6 | 190.93 | 529,875 | 477 | 33.7 |
*
The genome coverage was calculated based on a 521 Mbp genome size and 114 bp paired-end Illumina reads.
+
Contigs 120 bp or greater were used for the assembly statistics.