Table 2 Comparison of performance measures (TP - True Positives, Sn - Sensitivity, Pr - Precision and Ac - Accuracy) between GeneMark, Glimmer, MetaGeneMark (MGM), FragGeneScan (FGS) and TransGeneScan (TGS).
Organisms | GeneMark | Glimmer | MGM | FGS | TGS | |
|---|---|---|---|---|---|---|
E. coli (2171∗) | Predicted | 2039 | 2169 | 1961 | 1941 | 2159 |
Completely | TP | 1805 | 1695 | 1642 | 1678 | 1889 |
Overlap | Sn | 83.14 | 78.07 | 75.63 | 77.29 | 87.01 |
Pr | 97.67 | 95.71 | 97.56 | 96.00 | 97.82 | |
Ac | 89.82 | 86.00 | 85.21 | 85.63 | 92.10 | |
80% | TP | 1996 | 2093 | 1920 | 1871 | 2117 |
Overlap | Sn | 91.94 | 96.41 | 88.44 | 86.18 | 97.51 |
Pr | 97.89 | 96.50 | 97.91 | 96.39 | 98.05 | |
Ac | 94.82 | 96.45 | 92.93 | 91.00 | 97.78 | |
P. marinus (621∗) | Predicted | 631 | 698 | 592 | 578 | 571 |
Completely | TP | 488 | 527 | 482 | 456 | 501 |
Overlap | Sn | 78.58 | 84.86 | 77.62 | 73.43 | 80.68 |
Pr | 83.85 | 83.52 | 88.93 | 85.23 | 95.98 | |
Ac | 81.13 | 84.19 | 82.89 | 78.89 | 87.66 | |
80% | TP | 537 | 595 | 532 | 499 | 550 |
Overlap | Sn | 86.47 | 95.81 | 85.67 | 80.35 | 88.57 |
Pr | 85.10 | 85.24 | 89.86 | 86.33 | 96.32 | |
Ac | 85.78 | 90.22 | 87.72 | 83.24 | 92.28 | |
R. sphaeroides (1184∗) | Predicted | 1078 | 1121 | 1024 | 1026 | 1165 |
Completely | TP | 899 | 891 | 897 | 879 | 1011 |
Overlap | Sn | 75.93 | 75.25 | 75.76 | 74.24 | 85.39 |
Pr | 98.04 | 97.38 | 98.36 | 97.88 | 97.87 | |
Ac | 85.58 | 84.90 | 85.59 | 84.44 | 91.20 | |
80% | TP | 1060 | 1097 | 1009 | 1007 | 1143 |
Overlap | Sn | 89.53 | 92.65 | 85.22 | 85.05 | 96.54 |
Pr | 98.33 | 97.86 | 98.54 | 98.15 | 98.11 | |
Ac | 93.72 | 95.18 | 91.39 | 91.13 | 97.32 |