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Table of contents:
- Overview
- Performance Plots
- Performance of Pknots - scored higher in this pairwise comparison
- Performance of Murlet(seed) - scored lower in this pairwise comparison
- Compile and download dataset for Pknots & Murlet(seed) [.zip] - may take several seconds...
Overview
| Metric | Pknots | Murlet(seed) | |
|---|---|---|---|
| MCC | 0.628 | > | 0.539 |
| Average MCC ± 95% Confidence Intervals | 0.696 ± 0.116 | > | 0.545 ± 0.074 |
| Sensitivity | 0.581 | > | 0.337 |
| Positive Predictive Value | 0.685 | < | 0.868 |
| Total TP | 455 | > | 264 |
| Total TN | 104135 | < | 104495 |
| Total FP | 251 | > | 46 |
| Total FP CONTRA | 35 | > | 5 |
| Total FP INCONS | 174 | > | 35 |
| Total FP COMP | 42 | > | 6 |
| Total FN | 328 | < | 519 |
| P-value | 5.19332990918e-08 | ||
Performance plots
Performance of Pknots - scored higher in this pairwise comparison
1. Total counts & total scores for Pknots
| Total Base Pair Counts | |
|---|---|
| Total TP | 455 |
| Total TN | 104135 |
| Total FP | 251 |
| Total FP CONTRA | 35 |
| Total FP INCONS | 174 |
| Total FP COMP | 42 |
| Total FN | 328 |
| Total Scores | |
|---|---|
| MCC | 0.628 |
| Average MCC ± 95% Confidence Intervals | 0.696 ± 0.116 |
| Sensitivity | 0.581 |
| Positive Predictive Value | 0.685 |
| Nr of predictions | 26 |
2. Individual counts for Pknots [ 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 | |
| 2KE6_A | 0.97 | 0.95 | 1.00 | 18 | 1110 | 1 | 0 | 0 | 1 | 1 | |
| 2KUR_A | 0.95 | 0.90 | 1.00 | 19 | 1109 | 0 | 0 | 0 | 0 | 2 | |
| 2KUU_A | 0.92 | 0.86 | 1.00 | 18 | 1110 | 1 | 0 | 0 | 1 | 3 | |
| 2KUV_A | 0.93 | 0.86 | 1.00 | 19 | 1109 | 0 | 0 | 0 | 0 | 3 | |
| 2KUW_A | 0.95 | 0.90 | 1.00 | 19 | 1109 | 0 | 0 | 0 | 0 | 2 | |
| 2L1F_A | 0.98 | 0.96 | 1.00 | 23 | 2057 | 0 | 0 | 0 | 0 | 1 | |
| 2L1F_B | 0.98 | 0.96 | 1.00 | 24 | 2121 | 0 | 0 | 0 | 0 | 1 | |
| 2L94_A | 0.92 | 0.90 | 0.95 | 18 | 971 | 1 | 0 | 1 | 0 | 2 | |
| 2LC8_A | 0.79 | 0.75 | 0.83 | 15 | 1522 | 3 | 1 | 2 | 0 | 5 | |
| 2XKV_B | 0.23 | 0.25 | 0.22 | 5 | 4537 | 31 | 1 | 17 | 13 | 15 | |
| 2XXA_G | 0.32 | 0.31 | 0.34 | 13 | 5113 | 25 | 1 | 24 | 0 | 29 | |
| 3A3A_A | 0.87 | 0.76 | 1.00 | 28 | 3627 | 0 | 0 | 0 | 0 | 9 | |
| 3GX2_A | 0.47 | 0.40 | 0.55 | 16 | 4342 | 14 | 1 | 12 | 1 | 24 | |
| 3IVN_B | 0.78 | 0.65 | 0.95 | 20 | 2325 | 1 | 0 | 1 | 0 | 11 | |
| 3JYX_4 | 0.18 | 0.21 | 0.16 | 7 | 12203 | 41 | 13 | 23 | 5 | 26 | |
| 3LA5_A | 0.80 | 0.65 | 1.00 | 22 | 2463 | 0 | 0 | 0 | 0 | 12 | |
| 3NPB_A | 0.76 | 0.67 | 0.86 | 31 | 6985 | 8 | 1 | 4 | 3 | 15 | |
| 3O58_3 | 0.27 | 0.31 | 0.24 | 11 | 12357 | 38 | 11 | 24 | 3 | 24 | |
| 3PDR_A | 0.54 | 0.44 | 0.65 | 32 | 12831 | 19 | 0 | 17 | 2 | 40 | |
| 3RKF_A | 0.77 | 0.62 | 0.95 | 21 | 2189 | 1 | 0 | 1 | 0 | 13 | |
| 3SD1_A | 0.65 | 0.52 | 0.81 | 22 | 3889 | 5 | 0 | 5 | 0 | 20 | |
| 4A1C_2 | 0.24 | 0.24 | 0.25 | 8 | 11749 | 36 | 3 | 21 | 12 | 25 | |
| 4AOB_A | 0.17 | 0.14 | 0.21 | 6 | 4343 | 23 | 1 | 21 | 1 | 36 | |
| 4ENB_A | 0.83 | 0.79 | 0.88 | 15 | 1258 | 2 | 1 | 1 | 0 | 4 | |
| 4ENC_A | 0.86 | 0.79 | 0.94 | 15 | 1310 | 1 | 1 | 0 | 0 | 4 |
Performance of Murlet(seed) - scored lower in this pairwise comparison
1. Total counts & total scores for Murlet(seed)
| Total Base Pair Counts | |
|---|---|
| Total TP | 264 |
| Total TN | 104495 |
| Total FP | 46 |
| Total FP CONTRA | 5 |
| Total FP INCONS | 35 |
| Total FP COMP | 6 |
| Total FN | 519 |
| Total Scores | |
|---|---|
| MCC | 0.539 |
| Average MCC ± 95% Confidence Intervals | 0.545 ± 0.074 |
| Sensitivity | 0.337 |
| Positive Predictive Value | 0.868 |
| Nr of predictions | 26 |
2. Individual counts for Murlet(seed) [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2KDQ_B | 0.52 | 0.27 | 1.00 | 3 | 403 | 0 | 0 | 0 | 0 | 8 | |
| 2KE6_A | 0.66 | 0.53 | 0.83 | 10 | 1116 | 2 | 0 | 2 | 0 | 9 | |
| 2KUR_A | 0.63 | 0.48 | 0.83 | 10 | 1116 | 2 | 0 | 2 | 0 | 11 | |
| 2KUU_A | 0.63 | 0.48 | 0.83 | 10 | 1116 | 2 | 0 | 2 | 0 | 11 | |
| 2KUV_A | 0.85 | 0.73 | 1.00 | 16 | 1112 | 0 | 0 | 0 | 0 | 6 | |
| 2KUW_A | 0.84 | 0.76 | 0.94 | 16 | 1111 | 1 | 0 | 1 | 0 | 5 | |
| 2L1F_A | 0.82 | 0.75 | 0.90 | 18 | 2060 | 2 | 0 | 2 | 0 | 6 | |
| 2L1F_B | 0.80 | 0.72 | 0.90 | 18 | 2125 | 2 | 0 | 2 | 0 | 7 | |
| 2L94_A | 0.59 | 0.40 | 0.89 | 8 | 981 | 1 | 0 | 1 | 0 | 12 | |
| 2LC8_A | -0.01 | 0.00 | 0.00 | 0 | 1528 | 12 | 0 | 12 | 0 | 20 | |
| 2XKV_B | 0.45 | 0.20 | 1.00 | 4 | 4556 | 2 | 0 | 0 | 2 | 16 | |
| 2XXA_G | 0.38 | 0.14 | 1.00 | 6 | 5145 | 0 | 0 | 0 | 0 | 36 | |
| 3A3A_A | 0.57 | 0.32 | 1.00 | 12 | 3643 | 0 | 0 | 0 | 0 | 25 | |
| 3GX2_A | 0.59 | 0.35 | 1.00 | 14 | 4357 | 1 | 0 | 0 | 1 | 26 | |
| 3IVN_B | 0.53 | 0.39 | 0.75 | 12 | 2330 | 4 | 2 | 2 | 0 | 19 | |
| 3JYX_4 | 0.23 | 0.09 | 0.60 | 3 | 12241 | 4 | 0 | 2 | 2 | 30 | |
| 3LA5_A | 0.58 | 0.41 | 0.82 | 14 | 2468 | 3 | 1 | 2 | 0 | 20 | |
| 3NPB_A | 0.49 | 0.28 | 0.87 | 13 | 7006 | 2 | 1 | 1 | 0 | 33 | |
| 3O58_3 | 0.45 | 0.20 | 1.00 | 7 | 12396 | 0 | 0 | 0 | 0 | 28 | |
| 3PDR_A | 0.44 | 0.19 | 1.00 | 14 | 12866 | 0 | 0 | 0 | 0 | 58 | |
| 3RKF_A | 0.53 | 0.35 | 0.80 | 12 | 2196 | 3 | 1 | 2 | 0 | 22 | |
| 3SD1_A | 0.47 | 0.26 | 0.85 | 11 | 3903 | 2 | 0 | 2 | 0 | 31 | |
| 4A1C_2 | 0.46 | 0.21 | 1.00 | 7 | 11774 | 0 | 0 | 0 | 0 | 26 | |
| 4AOB_A | 0.58 | 0.33 | 1.00 | 14 | 4357 | 1 | 0 | 0 | 1 | 28 | |
| 4ENB_A | 0.56 | 0.32 | 1.00 | 6 | 1269 | 0 | 0 | 0 | 0 | 13 | |
| 4ENC_A | 0.56 | 0.32 | 1.00 | 6 | 1320 | 0 | 0 | 0 | 0 | 13 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.