Table 1.
PacBio and Illumina MiSeq de novo assembly and mapping statistics
| PacBio RSII | Illumina MiSeq | |||
|---|---|---|---|---|
| Number of reads | 78,140 | 665,450 | ||
| Number of Bases | 401,758,407 | 199,635,000 | ||
| Mean Read Length | 5141 | 300 | ||
| De novo assembly | ||||
| Assembly software | HGAP | IVA | ||
| Polished contigs | 6 | 13 | ||
| Sum of contigs length | 4,818,915 bp | 277,830 bp | ||
| Largest fragment | 2,323,934 bP | 73,284 bp | ||
| N50a | 1,102,549 bp | NA | ||
| Mapping | ||||
| Reference | Mapped reads | Mean coverage | Mapped reads | Mean coverage |
| Chr.5 Gallus gallus v4 | 33,892 | 193 | 586,297 | 607 |
| Chr.5 Gallus gallus v5 | 34,068 | 196 | 693,474 | 440 |
| PacBio_contig N.2 | NA | NA | 606,994 | 599 |
aN50 read length metric: The read length at which 50% of the bases are in reads longer than, or equal to, this value