Table 1.
Assembly statistics for scaffolds
| Assembler | Sequencing data | No. scaffolds | Total length | No. scaffolds (≥1 kbp) | Total length (> = 1 kbp) | Largest scaffold | GC (%) | N50 |
|---|---|---|---|---|---|---|---|---|
| Newbler | 454 | 5,774 | 91.4 | NR | NR | NR | 31.0 | 172,000 |
| CA | Illumina MiSeq | 2,902 | 86,081,730 | 2,891 | 86,076,258 | 447,471 | 30.7 | 64,834 |
| MaSurCA | Illumina MiSeq | 27,116 | 96,961,118 | 16,611 | 90,177,928 | 129,528 | 30.8 | 10,831 |
| CLCBio | Illumina MiSeq | 72,775 | 104,010,594 | 12,719 | 78,215,812 | 115,234 | 29.3 | 7,816 |
| CA | Illumina-corrected PacBio reads | 4,436 | 94,016,717 | 4,436 | 94,016,717 | 901,957 | 31.0 | 61,260 |
| CA | Illumina- and 454-corrected PacBio reads | 4,222 | 100,293,095 | 4,222 | 100,293,095 | 905,793 | 30.8 | 89,633 |
| HGAP2 | PacBio reads | 2,601 | 102,405,157 | 2,601 | 102,405,157 | 1,570,895 | 30.7 | 163,655 |
| HGAP2 with trimming | PacBio reads | 2,250 | 96,410,008 | 2,183 | 96,369,305 | 1,570,872 | 30.8 | 180,288 |
This table provides the statistics about the scaffolds generated by various combinations of assemblers and data sets. The statistics reported include the number of scaffolds, total length of sequence, number of scaffolds ≥ 1 kbp, the total length of scaffolds ≥ 1 kbp, the size of the largest scaffold, the percent GC, and the N50. The previously published values for the 454-based assembly (Genbank: ADBU02) is included for comparison; NR denotes that the value was not reported.