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Table 2 Results of running Velvet and our method on E.coli-based genomes.

From: Genome reassembly with high-throughput sequencing data

 

Velvet

Our method

Donor genome

# Contigs

N50

Max contig

# Contigs

N50

Max contig

Accuracy

E. Coli O157, 5 Kb

1034

25477

158013

422

56750

274293

99.5%

E. Coli O157, 25 Kb

870

71194

286061

727

96535

285958

99.6%

E. Coli K12

166

125649

327149

33

429486

734812

97.0%

  1. In the first three cases, simulated donor genomes are derived from the O157 reference by applying a series of mutations (insertions, deletions, and SNVs). In the final case, the K12 E. coli strain is used as a donor and compared against the O157 reference.
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BMC Genomics

ISSN: 1471-2164

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