 | ||||||||||||||
| ||||||||||||||
 | ||||||||||||||
Table of contents:
- Overview
- Performance Plots
- Performance of CentroidHomfold‑LAST - scored higher in this pairwise comparison
- Performance of Afold - scored lower in this pairwise comparison
- Compile and download dataset for CentroidHomfold‑LAST & Afold [.zip] - may take several seconds...
Overview
| Metric | CentroidHomfold‑LAST | Afold | |
|---|---|---|---|
| MCC | 0.670 | > | 0.664 |
| Average MCC ± 95% Confidence Intervals | 0.719 ± 0.121 | > | 0.692 ± 0.142 |
| Sensitivity | 0.542 | < | 0.612 |
| Positive Predictive Value | 0.834 | > | 0.726 |
| Total TP | 246 | < | 278 |
| Total TN | 43898 | > | 43810 |
| Total FP | 64 | < | 133 |
| Total FP CONTRA | 6 | < | 14 |
| Total FP INCONS | 43 | < | 91 |
| Total FP COMP | 15 | < | 28 |
| Total FN | 208 | > | 176 |
| P-value | 0.369701004532 | ||
Performance plots
Performance of CentroidHomfold‑LAST - scored higher in this pairwise comparison
1. Total counts & total scores for CentroidHomfold‑LAST
| Total Base Pair Counts | |
|---|---|
| Total TP | 246 |
| Total TN | 43898 |
| Total FP | 64 |
| Total FP CONTRA | 6 |
| Total FP INCONS | 43 |
| Total FP COMP | 15 |
| Total FN | 208 |
| Total Scores | |
|---|---|
| MCC | 0.670 |
| Average MCC ± 95% Confidence Intervals | 0.719 ± 0.121 |
| Sensitivity | 0.542 |
| Positive Predictive Value | 0.834 |
| Nr of predictions | 25 |
2. Individual counts for CentroidHomfold‑LAST [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2L94_A | 0.92 | 0.90 | 0.95 | 18 | 971 | 1 | 0 | 1 | 0 | 2 | |
| 2LBS_A | - | 1.00 | 1.00 | 1.00 | 14 | 482 | 0 | 0 | 0 | 0 | 0 |
| 2LC8_A | -0.01 | 0.00 | 0.00 | 0 | 1529 | 11 | 0 | 11 | 0 | 20 | |
| 2LDL_A | - | 0.90 | 0.82 | 1.00 | 9 | 342 | 1 | 0 | 0 | 1 | 2 |
| 2LDT_A | - | 0.72 | 0.53 | 1.00 | 8 | 457 | 0 | 0 | 0 | 0 | 7 |
| 2LHP_A | - | 0.97 | 0.94 | 1.00 | 15 | 651 | 0 | 0 | 0 | 0 | 1 |
| 2LJJ_A | - | 1.00 | 1.00 | 1.00 | 8 | 343 | 2 | 0 | 0 | 2 | 0 |
| 2LK3_A | - | 0.95 | 0.90 | 1.00 | 9 | 267 | 0 | 0 | 0 | 0 | 1 |
| 2LKR_A | - | 0.00 | 0.00 | 0.00 | 0 | 6101 | 4 | 0 | 4 | 0 | 39 |
| 2LQZ_A | - | 0.85 | 0.82 | 0.90 | 9 | 341 | 1 | 1 | 0 | 0 | 2 |
| 2LWK_A | - | 0.83 | 0.77 | 0.91 | 10 | 485 | 1 | 0 | 1 | 0 | 3 |
| 2YIE_Z | - | 0.82 | 0.67 | 1.00 | 8 | 1532 | 0 | 0 | 0 | 0 | 4 |
| 2YIE_X | - | 0.76 | 0.58 | 1.00 | 7 | 1371 | 0 | 0 | 0 | 0 | 5 |
| 3J0L_7 | - | 0.60 | 0.41 | 0.88 | 7 | 1217 | 1 | 0 | 1 | 0 | 10 |
| 3J0L_1 | - | 0.65 | 0.47 | 0.90 | 9 | 1215 | 2 | 0 | 1 | 1 | 10 |
| 3J0L_h | - | 0.76 | 0.63 | 0.93 | 27 | 6076 | 4 | 0 | 2 | 2 | 16 |
| 3NMU_E | - | 0.41 | 0.17 | 1.00 | 1 | 560 | 3 | 0 | 0 | 3 | 5 |
| 3RKF_A | 0.72 | 0.53 | 1.00 | 18 | 2193 | 0 | 0 | 0 | 0 | 16 | |
| 3SIU_F | - | 0.73 | 0.55 | 1.00 | 6 | 372 | 0 | 0 | 0 | 0 | 5 |
| 3SN2_B | 0.91 | 0.83 | 1.00 | 10 | 396 | 0 | 0 | 0 | 0 | 2 | |
| 3U4M_B | - | 0.58 | 0.43 | 0.80 | 16 | 3140 | 4 | 0 | 4 | 0 | 21 |
| 3VJR_D | - | 0.96 | 0.92 | 1.00 | 12 | 618 | 0 | 0 | 0 | 0 | 1 |
| 4A1C_2 | 0.16 | 0.15 | 0.18 | 5 | 11753 | 29 | 5 | 18 | 6 | 28 | |
| 4A4U_A | - | 1.00 | 1.00 | 1.00 | 9 | 222 | 0 | 0 | 0 | 0 | 0 |
| 4ENB_A | 0.76 | 0.58 | 1.00 | 11 | 1264 | 0 | 0 | 0 | 0 | 8 |
Performance of Afold - scored lower in this pairwise comparison
1. Total counts & total scores for Afold
| Total Base Pair Counts | |
|---|---|
| Total TP | 278 |
| Total TN | 43810 |
| Total FP | 133 |
| Total FP CONTRA | 14 |
| Total FP INCONS | 91 |
| Total FP COMP | 28 |
| Total FN | 176 |
| Total Scores | |
|---|---|
| MCC | 0.664 |
| Average MCC ± 95% Confidence Intervals | 0.692 ± 0.142 |
| Sensitivity | 0.612 |
| Positive Predictive Value | 0.726 |
| Nr of predictions | 25 |
2. Individual counts for Afold [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2L94_A | 0.97 | 0.95 | 1.00 | 19 | 971 | 0 | 0 | 0 | 0 | 1 | |
| 2LBS_A | - | 1.00 | 1.00 | 1.00 | 14 | 482 | 0 | 0 | 0 | 0 | 0 |
| 2LC8_A | 0.61 | 0.55 | 0.69 | 11 | 1524 | 6 | 0 | 5 | 1 | 9 | |
| 2LDL_A | - | 0.90 | 0.82 | 1.00 | 9 | 342 | 1 | 0 | 0 | 1 | 2 |
| 2LDT_A | - | 0.85 | 0.73 | 1.00 | 11 | 454 | 0 | 0 | 0 | 0 | 4 |
| 2LHP_A | - | 0.97 | 0.94 | 1.00 | 15 | 651 | 0 | 0 | 0 | 0 | 1 |
| 2LJJ_A | - | 1.00 | 1.00 | 1.00 | 8 | 343 | 2 | 0 | 0 | 2 | 0 |
| 2LK3_A | - | 0.95 | 0.90 | 1.00 | 9 | 267 | 0 | 0 | 0 | 0 | 1 |
| 2LKR_A | - | 0.93 | 0.87 | 1.00 | 34 | 6071 | 3 | 0 | 0 | 3 | 5 |
| 2LQZ_A | - | 0.85 | 0.82 | 0.90 | 9 | 341 | 1 | 1 | 0 | 0 | 2 |
| 2LWK_A | - | 0.75 | 0.69 | 0.82 | 9 | 485 | 2 | 0 | 2 | 0 | 4 |
| 2YIE_Z | - | -0.01 | 0.00 | 0.00 | 0 | 1525 | 16 | 3 | 12 | 1 | 12 |
| 2YIE_X | - | 0.36 | 0.33 | 0.40 | 4 | 1368 | 8 | 2 | 4 | 2 | 8 |
| 3J0L_7 | - | -0.01 | 0.00 | 0.00 | 0 | 1210 | 15 | 1 | 14 | 0 | 17 |
| 3J0L_1 | - | 0.73 | 0.63 | 0.86 | 12 | 1211 | 3 | 0 | 2 | 1 | 7 |
| 3J0L_h | - | 0.73 | 0.60 | 0.90 | 26 | 6076 | 5 | 0 | 3 | 2 | 17 |
| 3NMU_E | - | -0.01 | 0.00 | 0.00 | 0 | 553 | 10 | 1 | 7 | 2 | 6 |
| 3RKF_A | 0.76 | 0.59 | 1.00 | 20 | 2191 | 0 | 0 | 0 | 0 | 14 | |
| 3SIU_F | - | 0.85 | 0.73 | 1.00 | 8 | 370 | 0 | 0 | 0 | 0 | 3 |
| 3SN2_B | 0.96 | 0.92 | 1.00 | 11 | 395 | 0 | 0 | 0 | 0 | 1 | |
| 3U4M_B | - | 0.38 | 0.32 | 0.46 | 12 | 3134 | 14 | 0 | 14 | 0 | 25 |
| 3VJR_D | - | 0.96 | 0.92 | 1.00 | 12 | 618 | 1 | 0 | 0 | 1 | 1 |
| 4A1C_2 | 0.14 | 0.15 | 0.14 | 5 | 11745 | 43 | 5 | 26 | 12 | 28 | |
| 4A4U_A | - | 1.00 | 1.00 | 1.00 | 9 | 222 | 0 | 0 | 0 | 0 | 0 |
| 4ENB_A | 0.67 | 0.58 | 0.79 | 11 | 1261 | 3 | 1 | 2 | 0 | 8 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.