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Table of contents:
- Overview
- Performance Plots
- Performance of ProbKnot - scored higher in this pairwise comparison
- Performance of Carnac(20) - scored lower in this pairwise comparison
- Compile and download dataset for ProbKnot & Carnac(20) [.zip] - may take several seconds...
Overview
| Metric | ProbKnot | Carnac(20) | |
|---|---|---|---|
| MCC | 0.586 | > | 0.558 |
| Average MCC ± 95% Confidence Intervals | 0.605 ± 0.109 | > | 0.473 ± 0.136 |
| Sensitivity | 0.529 | > | 0.339 |
| Positive Predictive Value | 0.653 | < | 0.924 |
| Total TP | 400 | > | 256 |
| Total TN | 165304 | < | 165640 |
| Total FP | 267 | > | 31 |
| Total FP CONTRA | 31 | > | 1 |
| Total FP INCONS | 182 | > | 20 |
| Total FP COMP | 54 | > | 10 |
| Total FN | 356 | < | 500 |
| P-value | 3.10499527239e-08 | ||
Performance plots
Performance of ProbKnot - scored higher in this pairwise comparison
1. Total counts & total scores for ProbKnot
| Total Base Pair Counts | |
|---|---|
| Total TP | 400 |
| Total TN | 165304 |
| Total FP | 267 |
| Total FP CONTRA | 31 |
| Total FP INCONS | 182 |
| Total FP COMP | 54 |
| Total FN | 356 |
| Total Scores | |
|---|---|
| MCC | 0.586 |
| Average MCC ± 95% Confidence Intervals | 0.605 ± 0.109 |
| Sensitivity | 0.529 |
| Positive Predictive Value | 0.653 |
| Nr of predictions | 18 |
2. Individual counts for ProbKnot [ 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 | |
| 2XKV_B | 0.51 | 0.50 | 0.53 | 10 | 4541 | 24 | 0 | 9 | 15 | 10 | |
| 2XQD_Y | 0.90 | 0.81 | 1.00 | 22 | 2828 | 1 | 0 | 0 | 1 | 5 | |
| 2XXA_G | 0.26 | 0.24 | 0.29 | 10 | 5116 | 25 | 1 | 24 | 0 | 32 | |
| 3AMU_B | 0.65 | 0.59 | 0.73 | 16 | 2981 | 8 | 0 | 6 | 2 | 11 | |
| 3IZ4_A | 0.52 | 0.46 | 0.60 | 61 | 70774 | 46 | 6 | 35 | 5 | 71 | |
| 3IZF_C | 0.72 | 0.61 | 0.85 | 33 | 6864 | 6 | 0 | 6 | 0 | 21 | |
| 3NPB_A | 0.72 | 0.61 | 0.85 | 28 | 6988 | 8 | 1 | 4 | 3 | 18 | |
| 3O58_3 | 0.31 | 0.34 | 0.29 | 12 | 12362 | 41 | 4 | 25 | 12 | 23 | |
| 3O58_2 | 0.76 | 0.76 | 0.76 | 29 | 7222 | 10 | 3 | 6 | 1 | 9 | |
| 3PDR_A | 0.74 | 0.64 | 0.85 | 46 | 12826 | 10 | 1 | 7 | 2 | 26 | |
| 3RKF_A | 0.73 | 0.59 | 0.91 | 20 | 2189 | 2 | 1 | 1 | 0 | 14 | |
| 3SD1_A | 0.55 | 0.48 | 0.65 | 20 | 3885 | 11 | 2 | 9 | 0 | 22 | |
| 4A1C_3 | 0.73 | 0.61 | 0.87 | 33 | 7102 | 6 | 1 | 4 | 1 | 21 | |
| 4A1C_2 | 0.13 | 0.15 | 0.12 | 5 | 11738 | 49 | 7 | 31 | 11 | 28 | |
| 4AOB_A | 0.50 | 0.40 | 0.63 | 17 | 4344 | 11 | 2 | 8 | 1 | 25 | |
| 4ENB_A | 0.73 | 0.58 | 0.92 | 11 | 1263 | 1 | 1 | 0 | 0 | 8 | |
| 4ENC_A | 0.45 | 0.42 | 0.50 | 8 | 1310 | 8 | 1 | 7 | 0 | 11 |
Performance of Carnac(20) - scored lower in this pairwise comparison
1. Total counts & total scores for Carnac(20)
| Total Base Pair Counts | |
|---|---|
| Total TP | 256 |
| Total TN | 165640 |
| Total FP | 31 |
| Total FP CONTRA | 1 |
| Total FP INCONS | 20 |
| Total FP COMP | 10 |
| Total FN | 500 |
| Total Scores | |
|---|---|
| MCC | 0.558 |
| Average MCC ± 95% Confidence Intervals | 0.473 ± 0.136 |
| Sensitivity | 0.339 |
| Positive Predictive Value | 0.924 |
| Nr of predictions | 18 |
2. Individual counts for Carnac(20) [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2L94_A | 0.00 | 0.00 | 0.00 | 0 | 990 | 0 | 0 | 0 | 0 | 20 | |
| 2XKV_B | 0.32 | 0.10 | 1.00 | 2 | 4558 | 1 | 0 | 0 | 1 | 18 | |
| 2XQD_Y | 0.79 | 0.63 | 1.00 | 17 | 2833 | 0 | 0 | 0 | 0 | 10 | |
| 2XXA_G | 0.27 | 0.07 | 1.00 | 3 | 5148 | 0 | 0 | 0 | 0 | 39 | |
| 3AMU_B | 0.69 | 0.59 | 0.80 | 16 | 2983 | 6 | 0 | 4 | 2 | 11 | |
| 3IZ4_A | 0.47 | 0.23 | 0.94 | 31 | 70843 | 2 | 0 | 2 | 0 | 101 | |
| 3IZF_C | 0.73 | 0.56 | 0.97 | 30 | 6872 | 1 | 0 | 1 | 0 | 24 | |
| 3NPB_A | 0.44 | 0.20 | 1.00 | 9 | 7012 | 2 | 0 | 0 | 2 | 37 | |
| 3O58_3 | 0.51 | 0.26 | 1.00 | 9 | 12394 | 0 | 0 | 0 | 0 | 26 | |
| 3O58_2 | 0.83 | 0.71 | 0.96 | 27 | 7232 | 2 | 0 | 1 | 1 | 11 | |
| 3PDR_A | 0.62 | 0.40 | 0.97 | 29 | 12850 | 3 | 0 | 1 | 2 | 43 | |
| 3RKF_A | 0.76 | 0.59 | 1.00 | 20 | 2191 | 0 | 0 | 0 | 0 | 14 | |
| 3SD1_A | 0.60 | 0.38 | 0.94 | 16 | 3899 | 1 | 0 | 1 | 0 | 26 | |
| 4A1C_3 | 0.67 | 0.52 | 0.88 | 28 | 7108 | 4 | 0 | 4 | 0 | 26 | |
| 4A1C_2 | 0.33 | 0.15 | 0.71 | 5 | 11774 | 3 | 0 | 2 | 1 | 28 | |
| 4AOB_A | 0.49 | 0.33 | 0.74 | 14 | 4352 | 6 | 1 | 4 | 1 | 28 | |
| 4ENB_A | 0.00 | 0.00 | 0.00 | 0 | 1275 | 0 | 0 | 0 | 0 | 19 | |
| 4ENC_A | 0.00 | 0.00 | 0.00 | 0 | 1326 | 0 | 0 | 0 | 0 | 19 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.