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Table of contents:
- Overview
- Performance Plots
- Performance of Contrafold - scored higher in this pairwise comparison
- Performance of Mastr(20) - scored lower in this pairwise comparison
- Compile and download dataset for Contrafold & Mastr(20) [.zip] - may take several seconds...
Overview
| Metric | Contrafold | Mastr(20) | |
|---|---|---|---|
| MCC | 0.544 | > | 0.525 |
| Average MCC ± 95% Confidence Intervals | 0.564 ± 0.099 | > | 0.518 ± 0.116 |
| Sensitivity | 0.481 | > | 0.346 |
| Positive Predictive Value | 0.619 | < | 0.800 |
| Total TP | 513 | > | 369 |
| Total TN | 209277 | < | 209645 |
| Total FP | 369 | > | 122 |
| Total FP CONTRA | 46 | > | 14 |
| Total FP INCONS | 270 | > | 78 |
| Total FP COMP | 53 | > | 30 |
| Total FN | 553 | < | 697 |
| P-value | 4.72695708134e-06 | ||
Performance plots
Performance of Contrafold - scored higher in this pairwise comparison
1. Total counts & total scores for Contrafold
| Total Base Pair Counts | |
|---|---|
| Total TP | 513 |
| Total TN | 209277 |
| Total FP | 369 |
| Total FP CONTRA | 46 |
| Total FP INCONS | 270 |
| Total FP COMP | 53 |
| Total FN | 553 |
| Total Scores | |
|---|---|
| MCC | 0.544 |
| Average MCC ± 95% Confidence Intervals | 0.564 ± 0.099 |
| Sensitivity | 0.481 |
| Positive Predictive Value | 0.619 |
| Nr of predictions | 28 |
2. Individual counts for Contrafold [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2KDQ_B | 0.95 | 0.91 | 1.00 | 10 | 396 | 0 | 0 | 0 | 0 | 1 | |
| 2L94_A | 0.92 | 0.90 | 0.95 | 18 | 971 | 1 | 0 | 1 | 0 | 2 | |
| 2WRQ_Y | 0.57 | 0.59 | 0.56 | 10 | 2832 | 13 | 5 | 3 | 5 | 7 | |
| 2XKV_B | 0.51 | 0.50 | 0.53 | 10 | 4541 | 25 | 0 | 9 | 16 | 10 | |
| 2XQD_Y | 0.78 | 0.70 | 0.86 | 19 | 2828 | 3 | 0 | 3 | 0 | 8 | |
| 2XXA_G | 0.13 | 0.12 | 0.15 | 5 | 5117 | 29 | 1 | 28 | 0 | 37 | |
| 3A2K_C | 0.44 | 0.43 | 0.46 | 12 | 2900 | 14 | 2 | 12 | 0 | 16 | |
| 3AMU_B | 0.65 | 0.59 | 0.73 | 16 | 2981 | 8 | 0 | 6 | 2 | 11 | |
| 3G4S_9 | 0.30 | 0.25 | 0.38 | 14 | 7344 | 23 | 1 | 22 | 0 | 43 | |
| 3GX2_A | 0.77 | 0.63 | 0.96 | 25 | 4345 | 2 | 0 | 1 | 1 | 15 | |
| 3IVN_B | 0.78 | 0.61 | 1.00 | 19 | 2327 | 0 | 0 | 0 | 0 | 12 | |
| 3IZ4_A | 0.52 | 0.45 | 0.61 | 60 | 70777 | 44 | 4 | 35 | 5 | 72 | |
| 3IZF_C | 0.68 | 0.61 | 0.77 | 33 | 6860 | 10 | 1 | 9 | 0 | 21 | |
| 3JYV_7 | -0.01 | 0.00 | 0.00 | 0 | 2830 | 20 | 0 | 20 | 0 | 32 | |
| 3JYX_3 | 0.28 | 0.30 | 0.27 | 8 | 6298 | 23 | 8 | 14 | 1 | 19 | |
| 3JYX_4 | 0.20 | 0.21 | 0.20 | 7 | 12211 | 35 | 6 | 22 | 7 | 26 | |
| 3LA5_A | 0.78 | 0.62 | 1.00 | 21 | 2464 | 0 | 0 | 0 | 0 | 13 | |
| 3NPB_A | 0.76 | 0.70 | 0.84 | 32 | 6983 | 8 | 1 | 5 | 2 | 14 | |
| 3O58_2 | 0.78 | 0.76 | 0.81 | 29 | 7224 | 10 | 2 | 5 | 3 | 9 | |
| 3O58_3 | 0.28 | 0.26 | 0.31 | 9 | 12374 | 20 | 3 | 17 | 0 | 26 | |
| 3PDR_A | 0.69 | 0.60 | 0.80 | 43 | 12826 | 13 | 0 | 11 | 2 | 29 | |
| 3RKF_A | 0.73 | 0.59 | 0.91 | 20 | 2189 | 2 | 1 | 1 | 0 | 14 | |
| 3SD1_A | 0.57 | 0.48 | 0.69 | 20 | 3887 | 9 | 2 | 7 | 0 | 22 | |
| 4A1C_3 | 0.66 | 0.57 | 0.78 | 31 | 7100 | 9 | 1 | 8 | 0 | 23 | |
| 4A1C_2 | 0.16 | 0.15 | 0.17 | 5 | 11751 | 33 | 5 | 20 | 8 | 28 | |
| 4AOB_A | 0.44 | 0.36 | 0.56 | 15 | 4344 | 13 | 1 | 11 | 1 | 27 | |
| 4ENB_A | 0.73 | 0.58 | 0.92 | 11 | 1263 | 1 | 1 | 0 | 0 | 8 | |
| 4ENC_A | 0.73 | 0.58 | 0.92 | 11 | 1314 | 1 | 1 | 0 | 0 | 8 |
Performance of Mastr(20) - scored lower in this pairwise comparison
1. Total counts & total scores for Mastr(20)
| Total Base Pair Counts | |
|---|---|
| Total TP | 369 |
| Total TN | 209645 |
| Total FP | 122 |
| Total FP CONTRA | 14 |
| Total FP INCONS | 78 |
| Total FP COMP | 30 |
| Total FN | 697 |
| Total Scores | |
|---|---|
| MCC | 0.525 |
| Average MCC ± 95% Confidence Intervals | 0.518 ± 0.116 |
| Sensitivity | 0.346 |
| Positive Predictive Value | 0.800 |
| Nr of predictions | 28 |
2. Individual counts for Mastr(20) [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2KDQ_B | 0.95 | 0.91 | 1.00 | 10 | 396 | 0 | 0 | 0 | 0 | 1 | |
| 2L94_A | 0.87 | 0.80 | 0.94 | 16 | 973 | 1 | 0 | 1 | 0 | 4 | |
| 2WRQ_Y | 0.57 | 0.59 | 0.56 | 10 | 2832 | 12 | 5 | 3 | 4 | 7 | |
| 2XKV_B | 0.45 | 0.20 | 1.00 | 4 | 4556 | 3 | 0 | 0 | 3 | 16 | |
| 2XQD_Y | 0.88 | 0.78 | 1.00 | 21 | 2829 | 0 | 0 | 0 | 0 | 6 | |
| 2XXA_G | 0.41 | 0.17 | 1.00 | 7 | 5144 | 0 | 0 | 0 | 0 | 35 | |
| 3A2K_C | 0.72 | 0.61 | 0.85 | 17 | 2906 | 3 | 0 | 3 | 0 | 11 | |
| 3AMU_B | 0.77 | 0.59 | 1.00 | 16 | 2987 | 1 | 0 | 0 | 1 | 11 | |
| 3G4S_9 | 0.48 | 0.32 | 0.75 | 18 | 7357 | 8 | 1 | 5 | 2 | 39 | |
| 3GX2_A | 0.39 | 0.28 | 0.55 | 11 | 4351 | 10 | 0 | 9 | 1 | 29 | |
| 3IVN_B | 0.78 | 0.65 | 0.95 | 20 | 2325 | 1 | 1 | 0 | 0 | 11 | |
| 3IZ4_A | 0.00 | 0.00 | 0.00 | 0 | 70876 | 0 | 0 | 0 | 0 | 132 | |
| 3IZF_C | 0.73 | 0.63 | 0.85 | 34 | 6863 | 7 | 1 | 5 | 1 | 20 | |
| 3JYV_7 | 0.81 | 0.66 | 1.00 | 21 | 2829 | 0 | 0 | 0 | 0 | 11 | |
| 3JYX_3 | 0.56 | 0.56 | 0.58 | 15 | 6302 | 23 | 1 | 10 | 12 | 12 | |
| 3JYX_4 | 0.00 | 0.00 | 0.00 | 0 | 12246 | 0 | 0 | 0 | 0 | 33 | |
| 3LA5_A | 0.76 | 0.59 | 1.00 | 20 | 2465 | 0 | 0 | 0 | 0 | 14 | |
| 3NPB_A | 0.30 | 0.24 | 0.39 | 11 | 6993 | 18 | 1 | 16 | 1 | 35 | |
| 3O58_2 | 0.76 | 0.76 | 0.76 | 29 | 7222 | 12 | 3 | 6 | 3 | 9 | |
| 3O58_3 | 0.00 | 0.00 | 0.00 | 0 | 12403 | 0 | 0 | 0 | 0 | 35 | |
| 3PDR_A | 0.00 | 0.00 | 0.00 | 0 | 12880 | 0 | 0 | 0 | 0 | 72 | |
| 3RKF_A | 0.70 | 0.50 | 1.00 | 17 | 2194 | 0 | 0 | 0 | 0 | 17 | |
| 3SD1_A | 0.61 | 0.50 | 0.75 | 21 | 3888 | 7 | 1 | 6 | 0 | 21 | |
| 4A1C_3 | 0.70 | 0.59 | 0.84 | 32 | 7102 | 7 | 0 | 6 | 1 | 22 | |
| 4A1C_2 | 0.00 | 0.00 | 0.00 | 0 | 11781 | 0 | 0 | 0 | 0 | 33 | |
| 4AOB_A | 0.39 | 0.26 | 0.58 | 11 | 4352 | 9 | 0 | 8 | 1 | 31 | |
| 4ENB_A | 0.39 | 0.16 | 1.00 | 3 | 1272 | 0 | 0 | 0 | 0 | 16 | |
| 4ENC_A | 0.51 | 0.26 | 1.00 | 5 | 1321 | 0 | 0 | 0 | 0 | 14 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.