Table 4 ALLPATHS, Velvet and EULER assemblies of five microbial genomes: correctness (of chunks approximately 10 kb or less)
From: ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads
| Â | ALLPATHS | Velvet | EULER |
|---|---|---|---|
Class I: error rate 0 | Â | Â | Â |
   S. aureus | 99.3% | 70.7% | 51.7% |
   E. coli | 99.8% | 68.7% | 42.1% |
   R. sphaeroides | 99.7% | 71.8% | 18.9% |
   S. pombe | 79.7% | 66.2% | 31.4% |
   N. crassa | 78.6% | 49.9% | 19.1% |
Class II: error rate <0.1% | Â | Â | Â |
   S. aureus | 0.7% | 13.7% | 26.4% |
   E. coli | 0.2% | 18.0% | 24.1% |
   R. sphaeroides | 0.0% | 19.3% | 39.2% |
   S. pombe | 18.6% | 26.6% | 32.6% |
   N. crassa | 15.3% | 24.3% | 24.1% |
Class III: error rate <1% | Â | Â | Â |
   S. aureus | 0.0% | 9.1% | 13.7% |
   E. coli | 0.0% | 6.4% | 26.8% |
   R. sphaeroides | 0.0% | 5.9% | 37.0% |
   S. pombe | 1.3% | 3.7% | 28.7% |
   N. crassa | 3.2% | 11.4% | 32.3% |
Class IV: error rate <10% | Â | Â | Â |
   S. aureus | 0.0% | 6.2% | 5.9% |
   E. coli | 0.0% | 5.9% | 5.3% |
   R. sphaeroides | 0.2% | 2.0% | 3.2% |
   S. pombe | 0.3% | 2.6% | 5.1% |
   N. crassa | 1.3% | 7.9% | 12.8% |
Class V: error rate ≥10% |  |  |  |
   S. aureus | 0.0% | 0.4% | 2.3% |
   E. coli | 0.0% | 1.0% | 1.7% |
   R. sphaeroides | 0.1% | 1.0% | 1.5% |
   S. pombe | 0.2% | 0.8% | 2.1% |
   N. crassa | 0.9% | 5.7% | 10.4% |
Class VI: error rate, no match | Â | Â | Â |
   S. aureus | 0.0% | 0.0% | 0.0% |
   E. coli | 0.0% | 0.0% | 0.0% |
   R. sphaeroides | 0.0% | 0.1% | 0.2% |
   S. pombe | 0.0% | 0.0% | 0.0% |
   N. crassa | 0.7%* | 0.9%* | 1.4%* |