Table 1.
Repeats detected in strains of Mycobacterium tuberculosis and Neisseria meningitidis.
| Method* | Total** | Number of variants detected | |
| Total repeats detect by TRF in Mycobacterium tuberculosis CDC1551 | 19411 | ||
| Denoeud | 12542 | 130 | |
| Repeats matched to Mycobacterium tuberculosis H37Rv | VNTRfinder (40, 10, all variants) | 15964 | 116 |
| VNTRfinder (40, 10, multiple of unit) | 14490 | 61 | |
| Total repeats detect by TRF in Neisseria meningitidis MC58 | 8419 | ||
| Denoeud | 4299 | 173 | |
| VNTRfinder (40, 10, all variants) | 5807 | 177 | |
| Repeats matched to Neisseria meningitidis Z2491 | VNTRfinder (40, 10, multiple of unit) | 2504 | 22 |
| VNTRfinder (20, 4, all variants) | 5822 | 174 | |
| VNTRfinder (20, 4, multiple of unit) | 2516 | 21 | |
| VNTRfinder (10, 2, all variants) | 5382 | 301 | |
| VNTRfinder (10, 2, multiple of unit) | 2338 | 9 | |
* VNTRfinder settings are given respectively in parentheses as the flanklength allowed, mismatch allowed, and whether or not repeat length differences from the query were required to be multiples of the tandem repeat unit.
** Totals shown are those that align perfectly with the flanks of a repeat originally reported by TRF.
Proportions of total repeats originally detected in Neisseria meningitidis MC58 and Mycobacterium tuberculosis CDC1551 that were successfully matched by the different methods to Neisseria meningitidis Z2491 and Mycobacterium tuberculosis H37Rv respectively. 'all variants' refers to the VNTRfinder option to report any detected variation and 'multiple of unit' refers to the option to only report variations where the length variation is consistent with a change in the repeat copy-number. The number of variants detected is also highlighted.