Table 2

Summary of scaffolds produced by Velvet and their sorting.

Strain

Number of total scaffolds

Average length

Total length

N50 scaffold size (bp)

Number of scaffolds longer

Number of aligned scaffolds

(bp)

(kbp)

than 1 kbp


BEST 195

390

6,693

4,178

72,513

117

84

Marburg 168

205

11,319

4,222

489,616

45

45


All short paired-end reads generated by the Illumina GA2 were input into the de novo assembly software Velvet and a set of scaffolds produced. The scaffolds greater than 1 kbp were aligned to the Marburg 168 reference genome. N50 indicates the scaffold length such that 50% of the de novo assembled sequences lies in scaffolds of this size or larger.

Nishito et al. BMC Genomics 2010 11:243   doi:10.1186/1471-2164-11-243

Open Data