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Table 1 Results of running both Velvet and our method on simulated mouse chromosomes.

From: Genome reassembly with high-throughput sequencing data

  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%
  1. 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.