Table 2.
N50 contig and scaffold sizes for the different genome assemblies.
| N50 | ||||||||
|---|---|---|---|---|---|---|---|---|
| SPAdes | SOAPdenovo2 | |||||||
| Male (Haploid) | Worker (Diploid) | Male (Haploid) | Worker (Diploid) | |||||
| contigs | 15,206 | 5,367 | 3,143 | 554 | ||||
| scaffolds | 17,901 | 5,742 | 16,307 | 1,659 | ||||
| Total assembly size | 296 Mb | 759 Mb | 219 Mb | 345 Mb | ||||
| Misassemblies | ||||||||
| Male (Haploid) | Worker (Diploid) | Male (Haploid) | Worker (Diploid) | |||||
| contigs | Scaff. | contigs | Scaff. | contigs | Scaff. | contigs | Scaff. | |
| Global | 420 | 438 | 231 | 272 | 482 | 504 | 698 | 546 |
| Local | 465 | 496 | 259 | 301 | 2964 | 766 | 8047 | 753 |
| Completeness | ||||||||
| (a) Arthropoda | SPAdes | SOAPdenovo2 | ||||||
| Male (Haploid) | Worker (Diploid) | Male (Haploid) | Worker (Diploid) | |||||
| Complete | 1832 | 68.0% | 2256 | 84.0% | 1706 | 63.0% | 1276 | 47.0% |
| Single copy | 1726 | 64.1% | 1222 | 46.0% | 1643 | 60.7% | 1179 | 43.4% |
| Duplicated | 106 | 3.9% | 1034 | 38.0% | 63 | 2.3% | 97 | 3.6% |
| Fragmented | 771 | 28.0% | 376 | 14.0% | 860 | 32.0% | 1054 | 39.0% |
| Missing | 72 | 2.6% | 43 | 1.6% | 109 | 4.0% | 345 | 12.0% |
| 2675 total BUSCO genes | ||||||||
| (b) Eukaryota | Male (Haploid) | Worker (Diploid) | Male (Haploid) | Worker (Diploid) | ||||
| Complete | 279 | 92.0% | 296 | 97.0% | 260 | 85.0% | 223 | 73.0% |
| Single copy | 244 | 81.0% | 59 | 19.0% | 248 | 81.1% | 183 | 60.0% |
| Duplicated | 35 | 11.0% | 237 | 78.0% | 12 | 3.9% | 40 | 13.0% |
| Fragmented | 19 | 6.2% | 2 | 0.6% | 32 | 10.0% | 63 | 20.0% |
| Missing | 5 | 1.6% | 5 | 1.6% | 11 | 3.6% | 17 | 5.6% |
| 303 total BUSCO genes | ||||||||
Misassemblies are classified as local if flanking sequences on both sides are gaped or overlapped by >85 bp and <1Kb. Global misassemblies are >1Kb.