Table 4.
Specificity, sensitivity and precision estimates for M. tuberculosis, H. pylori J99 and B. subtilis.
| M. tuberculosis | |||
| Data set | EasyGene | GmS | Frame |
| A'-% found | 96.7 | 97.2 | 96.0 |
| A'-% exact | 89.1 | 80.9 | 87.9 |
| B'-% found | 96.8 | 97.1 | 96.3 |
| T-% found | 96.9(96.6) | 97.3 | 96.4 |
| Genome | 3749 | 3983 | 4341 |
| zero order | 0 | - | 8 |
| first order | 3 | - | 2 |
| third order | 2 | - | 12 |
| shadows | 1 | 0 | 1 |
| H. pylori J99 | |||
| Data set | EasyGene | GmS | Frame |
| A'-% found | 99.2 | 99.2 | 99.2 |
| A'-% exact | 97.5 | 95.7 | 96.7 |
| B'-% found | 100 | 99.6 | 98.9 |
| T-% found | 99.7(98.8) | 99.5 | 99.1 |
| Genome | 1491 | 1518 | 1479 |
| zero order | 2 | 1479 | 2 |
| first order | 1 | 336 | 2 |
| third order | 0 | 403 | 0 |
| shadows | 2 | 0 | 0 |
| B. subtilis | |||
| Data set | EasyGene | GmS | Frame |
| A'-% found | 99.3 | 98.1 | 98.8 |
| A'-% exacts | 94.8 | 94.1 | 93.3 |
| B'-% found | 99.2 | 99.0 | 98.2 |
| T-% found | 99.3(99.2) | 99.0 | 98.4 |
| Genome | 4083 | 4221 | 4006 |
| zero order | 1 | 675 | 0 |
| first order | 2 | 457 | 0 |
| third order | 1 | 813 | 2 |
| shadows | 0 | 0 | 0 |
Genes found exactly and partially for different gene finders and sets of high confidence genes in M. tuberculosis, H. pylori J99 and B. subtilis, where the number of annotated genes is 3918, 1491 and 4100 respectively. There are no pre-trained GeneMarkS models for M. tuberculosis, so it was not possible to obtain a false positive estimate for this organism. All values listed for EasyGene are based on an R-value threshold of R = 2.