SPAdes - D2
Evaluation
- Benchmark genome
- Evaluated by QUAST
- QUAST (QUAST v2.3)
- Running QUAST requires gene list and reference genome. There are 4388 genes in total.
- Score with QUAST: With PacBio Long Reads [more detail]
| Basic statistics | Website Data | Raw Data |
| # contigs | 11 | 13 |
| Largest contig | 3188818 | 3188540 |
| Total length | 4601792 | 4588701 |
| N50 | 3188818 | 3188540 |
| Misassemblies | ||
| # misassemblies | 16 | 12 |
| Misassembled contigs length | 4370092 | 4361060 |
| Mismatches | ||
| # mismatches per 100kbp | 3.48 | 3.77 |
| # indels per 100kbp | 3.52 | 5.13| |
| # N's per 100kbp | 0 | 0.09 |
| Genome statistics | ||
| Genome fraction (%) | 99.932 | 99.683| |
| Duplication ratio | 1.011 | 1.005 |
| # genes | 4381 + 6 part | 4369 + 10 part |
| NGA50 | 904505 | 2938269 |
| Running Time | 2hr12m | 5hr 09m |
Misassemblies for Adobe reader.
- Score with QUAST: Without PacBio Long Reads more detail
| Basic statistics | Website Data | Raw Data |
| # contigs | 31 | 57 |
| Largest contig | 3188995 | 3186675 |
| Total length | 4592561 | 4583750 |
| N50 | 3188995 | 3186675 |
| Misassemblies | ||
| # misassemblies | 9 | 6 |
| Misassembled contigs length | 4205887 | 4147900 |
| Mismatches | ||
| # mismatches per 100kbp | 5.81 | 4.233 |
| # indels per 100kbp | 5.64 | 3.57 |
| # N's per 100kbp | 120.74 | 149.31 |
| Genome statistics | ||
| Genome fraction (%) | 99.45 | 98.789 |
| Duplication ratio | 1.018 | 1.022 |
| # genes | 4348 + 27 part | 4313 + 47 part |
| NGA50 | 3182258 | 3180491 |
| Running Time | 41m | 1hr 01m |
Misassemblies for Adobe reader.