Table 2 PREP-Mt performance results subdivided by genus
From: PREP-Mt: predictive RNA editor for plant mitochondrial genes
Genus | No. of Genes | TP | TN | FP | FN | Specificity | Sensitivity | Accuracy | Balanced Accuracy |
|---|---|---|---|---|---|---|---|---|---|
Angiosperms | |||||||||
   Eudicots | |||||||||
Amphicarpaea | 1 | 13 | 143 | 0 | 0 (0) | 100.0 | 100.0 (100.0) | 100.0 (100.0) | 100.0 (100.0) |
Arabidopsis | 31 | 344 | 5880 | 58 | 89 (24) | 99.0 | 79.4 (93.5) | 97.7 (98.7) | 89.2 (96.3) |
Beta | 30 | 299 | 5406 | 52 | 50 (11) | 99.0 | 85.7 (96.5) | 98.2 (98.9) | 92.4 (97.7) |
Brassica | 32 | 362 | 5874 | 53 | 55 (15) | 99.1 | 86.8 (96.0) | 98.3 (98.9) | 93.0 (97.6) |
Cologania | 1 | 13 | 138 | 1 | 1 (0) | 99.3 | 92.9 (100.0) | 98.7 (99.3) | 96.1 (99.6) |
Cucumis | 2 | 19 | 332 | 7 | 0 (0) | 97.9 | 100.0 (100.0) | 98.0 (98.0) | 99.0 (99.0) |
Daucus | 5 | 42 | 820 | 4 | 9 (4) | 99.5 | 82.4 (91.3) | 98.5 (99.1) | 90.9 (95.4) |
Dumasia | 1 | 14 | 141 | 0 | 1 (0) | 100.0 | 93.3 (100.0) | 99.4 (100.0) | 96.7 (100.0) |
Euphorbia | 1 | 1 | 53 | 0 | 0 (0) | 100.0 | 100.0 (100.0) | 100.0 (100.0) | 100.0 (100.0) |
Glycine | 2 | 14 | 566 | 2 | 2 (0) | 99.6 | 87.5 (100.0) | 99.3 (99.7) | 93.6 (99.8) |
Gymnocladus | 2 | 1 | 108 | 4 | 2 (1) | 96.4 | 33.3 (50.0) | 94.8 (95.6) | 64.9 (73.2) |
Helianthus | 4 | 39 | 362 | 1 | 3 (1) | 99.7 | 92.9 (97.5) | 99.0 (99.5) | 96.3 (98.6) |
Lactuca | 1 | 16 | 282 | 1 | 0 (0) | 99.6 | 100.0 (100.0) | 99.7 (99.7) | 99.8 (99.8) |
Lespedeza | 1 | 13 | 142 | 0 | 0 (0) | 100.0 | 100.0 (100.0) | 100.0 (100.0) | 100.0 (100.0) |
Lupinus | 6 | 68 | 484 | 3 | 3 (0) | 99.4 | 95.8 (100.0) | 98.9 (99.5) | 97.6 (99.7) |
Lycopersicon | 4 | 52 | 550 | 1 | 21 (3) | 99.8 | 71.2 (94.5) | 96.5 (99.3) | 85.5 (97.2) |
Malus | 1 | 8 | 47 | 0 | 0 (0) | 100.0 | 100.0 (100.0) | 100.0 (100.0) | 100.0 (100.0) |
Nicotiana | 2 | 17 | 258 | 1 | 12 (3) | 99.6 | 58.6 (85.0) | 95.5 (98.6) | 79.1 (92.3) |
Oenothera | 23 | 283 | 4395 | 58 | 95 (34) | 98.7 | 74.9 (89.3) | 96.8 (98.1) | 86.8 (94.0) |
Olea | 2 | 11 | 249 | 0 | 1 (0) | 100.0 | 91.7 (100.0) | 99.6 (100.0) | 95.8 (100.0) |
Oxalis | 1 | 2 | 51 | 0 | 3 (1) | 100.0 | 40.0 (66.7) | 94.6 (98.1) | 70.0 (83.3) |
Petunia | 9 | 84 | 1132 | 8 | 24 (5) | 99.3 | 77.8 (94.4) | 97.4 (98.9) | 88.5 (96.8) |
Pisum | 4 | 53 | 487 | 4 | 8 (0) | 99.2 | 86.9 (100.0) | 97.8 (99.3) | 93.0 (99.6) |
Podophyllum | 2 | 3 | 96 | 5 | 8 (0) | 95.0 | 27.3 (100.0) | 88.4 (95.2) | 61.2 (97.5) |
Raphanus | 5 | 31 | 453 | 3 | 6 (1) | 99.3 | 83.8 (96.9) | 98.2 (99.2) | 91.6 (98.1) |
Solanum | 8 | 58 | 1259 | 16 | 21 (9) | 98.7 | 73.4 (86.6) | 97.3 (98.1) | 86.1 (92.7) |
Vitis | 1 | 20 | 224 | 1 | 1 (0) | 99.6 | 95.2 (100.0) | 99.2 (99.6) | 97.4 (99.8) |
   Magnoliids | |||||||||
Magnolia | 5 | 79 | 527 | 2 | 12 (3) | 99.6 | 86.8 (96.3) | 97.7 (99.2) | 93.2 (98.0) |
   Monocots | |||||||||
Acorus | 1 | 8 | 143 | 2 | 0 (0) | 98.6 | 100.0 (100.0) | 98.7 (98.7) | 99.3 (99.3) |
Allium | 2 | 24 | 131 | 2 | 0 (0) | 98.5 | 100.0 (100.0) | 98.7 (98.7) | 99.2 (99.2) |
Coix | 2 | 23 | 121 | 0 | 3 (0) | 100.0 | 88.5 (100.0) | 98.0 (100.0) | 94.2 (100.0) |
Elymus | 1 | 12 | 157 | 2 | 0 (0) | 98.7 | 100.0 (100.0) | 98.8 (98.8) | 99.4 (99.4) |
Hordeum | 2 | 12 | 388 | 1 | 3 (1) | 99.7 | 80.0 (92.3) | 99.0 (99.5) | 89.9 (96.0) |
Oryza | 34 | 395 | 5919 | 71 | 90 (28) | 98.8 | 81.4 (93.4) | 97.5 (98.5) | 90.1 (96.1) |
Ruscus | 1 | 16 | 146 | 1 | 3 (2) | 99.3 | 84.2 (88.9) | 97.6 (98.2) | 91.8 (94.1) |
Secale | 2 | 6 | 353 | 5 | 3 (0) | 98.6 | 66.7 (100.0) | 97.8 (98.6) | 82.6 (99.3) |
Sorghum | 5 | 52 | 479 | 4 | 12 (1) | 99.2 | 81.3 (98.1) | 97.1 (99.1) | 90.2 (98.6) |
Triticum | 26 | 360 | 4748 | 36 | 79 (13) | 99.2 | 82.0 (96.5) | 97.8 (99.0) | 90.6 (97.9) |
Zea | 11 | 104 | 1933 | 16 | 23 (7) | 99.2 | 81.9 (93.7) | 98.1 (98.9) | 90.5 (96.4) |
Gymnosperms | |||||||||
   Cycas | 3 | 35 | 444 | 7 | 14 (4) | 98.4 | 71.4 (89.7) | 95.8 (97.8) | 84.9 (94.1) |
   Pinus | 2 | 32 | 123 | 5 | 3 (0) | 96.1 | 91.4 (100.0) | 95.1 (96.9) | 93.8 (98.0) |
Other | |||||||||
   Chaetosphaeridium | 29 | 0 | 3011 | 49 | 0 (0) | 98.4 | - | 98.4 (98.4) | - |
   Chara | 30 | 0 | 3549 | 72 | 0 (0) | 98.0 | - | 98.0 (98.0) | - |
   Marchantia | 32 | 0 | 3852 | 51 | 0 (0) | 98.7 | - | 98.7 (98.7) | - |
Overall | 370 | 3,038 | 55,956 | 609 | 660 (171) | 98.9 | 82.2 (94.7) | 97.9 (98.7) | 90.5 (96.8) |