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Logo of genbioBioMed CentralBiomed Central Web Sitesearchsubmit a manuscriptregisterthis articleGenome BiologyJournal Front Page
Published online 2009 October 1. doi: 10.1186/gb-2009-10-10-r103

Table 3

ALLPATHS, Velvet and EULER assemblies of five microbial genomes: genome coverage

Covered by contigs ≥1 kb
 S. aureus99.1%97.0%96.7%
 E. coli99.3%97.7%94.6%
 R. sphaeroides98.5%94.3%65.0%
 S. pombe95.9%95.5%93.6%
 N. crassa89.5%88.7%89.2%
Covered by contigs ≥10 kb
 S. aureus98.8%94.4%93.0%
 E. coli99.0%92.4%72.7%
 R. sphaeroides96.0%87.2%6.2%
 S. pombe91.3%91.3%76.3%
 N. crassa71.0%62.1%61.5%
Covered by contigs ≥100 kb
 S. aureus88.3%36.5%41.3%
 E. coli86.5%25.5%0.0%
 R. sphaeroides69.5%58.4%0.0%
 S. pombe18.3%17.8%1.7%
 N. crassa1.3%0.3%0.0%

For five genomes, statistics from ALLPATHS, Velvet, and EULER assemblies are shown. Genome coverage refers to the fraction of the reference genome covered by the assembly, computed as the fraction of 100-mers in the reference sequence present in the assembly. If a 100-mer was present multiple times in the reference sequence, we checked for up to that many copies in the assembly.