SPAdes - D1 and D5
We used Dataset 1, E. coli K-12 MG1655 and single SMRT cell of Dataset 5
- Evaluated by QUAST
- QUAST (QUAST v2.3)
- Running QUAST requires Ec_gene_list and NC_000913.fna. There are 4497 genes in total.
- Score with QUAST: With PacBio Long Reads [ more detail]
| Basic statistics | Website data | Raw Data | Raw Data with D5 single SMRT cell |
| # contigs | 1 | 14 | |
| Largest contig | 4638970 | 4625005 | |
| Total length | 4638970 | 4652215 | |
| N50 | 4638970 | 4625005 | |
| Misassemblies | |||
| # misassemblies | 1 | 5 | |
| Misassembled contigs length | 4638970 | 4625005 | |
| Mismatches | |||
| # mismatches per 100kbp | 0.11 | 1.06 | |
| # indels per 100kbp | 0.09 | 0.61 | |
| # N's per 100kbp | 0 | 282.94 | |
| Genome statistics | |||
| Genome fraction (%) | 99.983 | 99.418 | |
| Duplication ratio | 1 | 1.013 | |
| # genes | 4494 + 1 part | 4471 + 2 part t | |
| NGA50 | 4638970 | 2714032 | |
| Running Time | 42m | 2hr 35m |
Misassemblies for Adobe reader.
- Score with QUAST: Without PacBio Long Reads [ more detail]
| Basic statistics | Website data | Raw Data |
| # contigs | 2 | 1 |
| Largest contig | 4631220 | 4633080 |
| Total length | 4633146 | 4633080 |
| N50 | 4631220 | 4633080 |
| Misassemblies | ||
| # misassemblies | 3 | 7 |
| Misassembled contigs length | 4631220 | 4633080 |
| Mismatches | ||
| # mismatches per 100kbp | 1.19 | 1.42 |
| # indels per 100kbp | 1.13 | 0.83 |
| # N's per 100kbp | 533.22 | 1545.02 |
| Genome statistics | ||
| Genome fraction (%) | 99.345 | 98.343 |
| Duplication ratio | 1.012 | 1.016 |
| # genes | 4465 + 11 part | 4395 + 31 part |
| NGA50 | 3180483 | 687701 |
| Running Time | 28m | 2hr 01m |
Misassemblies for Adobe reader.