B. cereus
Bacillus cereus strain ATCC_10987. The B. cereus ATCC_10987 consists of a circular chromosome of 5,224,283 bp and one plasmid of 208,369 bp in length, respectively.
Read source
The paired-end illumina read data of B. cereus were available at Gage-B.
Sequence assembly
We have downloaded the scaffolding assemblies of B. cereus from SPAdes website.
Contig integrator
We have used CISA to integrate the assemblies and generated CISA's contigs.
Evaluation
- Benchmark genome
- Evaluated by QUAST
- QUAST (QUAST v2.1)
- Running QUAST needs gene and sequence information. There are 6014 genes in total.
- Score with QUAST: more detail
| Basic statistics | ABySS | CABOD | MaSuRCA | SGA | SOAPdenovo | SPAdes 2.5 | Velvet | CISA |
| # contigs | 74 | 33 | 61 | 341 | 56 | 53 | 78 | 32 |
| Largest contig | 430487 | 1198056 | 1197734 | 106317 | 1194879 | 1202947 | 896381 | 1205706 |
| Total length | 5380708 | 5420940 | 5433046 | 5321914 | 5344353 | 5379795 | 5356258 | 5469099 |
| NG50 | 135613 | 431479 | 337861 | 25512 | 456635 | 485493 | 247748 | 487570 |
| Misassemblies | ||||||||
| # misassemblies | 4 | 15 | 15 | 3 | 1 | 3 | 9 | 11 |
| Misassembled contigs length | 155883 | 1987058 | 765654 | 24763 | 90965 | 94799 | 723259 | 2399227 |
| Genome statistics | ||||||||
| Genome fraction (%) | 98.444 | 99.334 | 99.009 | 97.438 | 98.099 | 98.554 | 97.523 | 99.38 |
| # genes | 5819 + 64 part | 5965 + 34 part | 5964 + 34 part | 5635 + 231 part | 5839 + 44 part | 5950 + 27 part | 5604 + 275 part | 5980 + 28 part |
| # mismatches per 100 kbp | 6.62 | 4.43 | 8.96 | 0.7 | 8.16 | 2.07 | 5.93 | 6.08 |
| # indels per 100 kbp | 7.57 | 5.86 | 5.95 | 2 | 5.69 | 2.39 | 30.28 | 2.78 |
| # N's per 100kbp | 116.43 | 17.43 | 7.49 | 0 | 8.51 | 15.24 | 783.91 | 0.04 |
A dot plot (pdf) of CISA assembly against the reference genome.