Table 3.
Assembly with real data. Three SHORTY experiments with real ABI SOLiD data. Each experiment was run using three different and randomly sampled seeds. Coverage is the fraction of the reference sequence covered by the generated contigs. Results are shown within different levels of minimum contig accuracy (97%, 99%, 99.9%). Minimum length of a contig considered for this analysis was 100 bases. For gap analysis, minimum contigs accuracy considered was 90%. Lc is the length of contig c whereas Sa is the total assembly score. For further illustration of these terms, refer to the end of Section "Methods".
| Test | Coverage (%) | Average Lc | # of gaps | Avg. gap len | S a | ||
| 97 | 99 | 99.9 | |||||
| 1 | 92.3 | 87.8 | 57.4 | 161.5 | 4691 | 62.3 | 94.4 |
| 2 | 93.3 | 88.4 | 58.7 | 164.5 | 4736 | 58.5 | 94.5 |
| 3 | 92.9 | 88.1 | 58.2 | 165.0 | 4690 | 63.4 | 94.5 |