Table 1

Results of running both Velvet and our method on simulated mouse chromosomes.

Velvet

Our method


Donor genome

# Contigs

N50

Max contig

# Contigs

N50

Max contig

Accuracy


Mouse, 5 Kb

1014

14315

56677

352

73042

288172

99.7%

Mouse, 25 Kb

773

19038

102858

386

88473

227406

99.7%

Mouse, 50 Kb

705

21721

98684

410

117127

336208

99.2%


Each simulated chromosome is 5 Mb in length, containing roughly 15% mutated content, using mutation event sizes of 5, 25, and 50 kb. In each case, contig statistics are given for the Velvet assembly and for our method, along with the accuracy of our computed contigs. Accuracy is calculated as the percentage of computed contigs that align back to the donor genome.

Parrish et al. BMC Genomics 2013 14(Suppl 1):S8   doi:10.1186/1471-2164-14-S1-S8

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