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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of Fold - scored higher in this pairwise comparison

  4. Performance of RNAwolf - scored lower in this pairwise comparison

  5. Compile and download dataset for Fold & RNAwolf [.zip] - may take several seconds...


Overview

Metric Fold RNAwolf
MCC 0.345 > 0.198
Average MCC ± 95% Confidence Intervals 0.371 ± 0.036 > 0.215 ± 0.029
Sensitivity 0.343 > 0.208
Positive Predictive Value 0.349 > 0.188
Total TP 6435 > 3908
Total TN 39594644 > 39592372
Total FP 15955 < 21488
Total FP CONTRA 1951 < 3257
Total FP INCONS 10076 < 13569
Total FP COMP 3928 < 4662
Total FN 12328 < 14855
P-value 3.56938820447e-08

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Performance plots


  1. Comparison of performance of Fold and RNAwolf. Positive Predictive Value (PPV) is plotted against sensitivity. Each dot represents a single test of each method. See tables below for raw data (individual counts for Fold and RNAwolf).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for Fold and RNAwolf. The whiskers correspond to 95% confidence intervals (CIs). 'n' denotes the number of MCCs used to calculate average MCCs and CIs. See tables below for raw data (individual counts for Fold and RNAwolf).

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Performance of Fold - scored higher in this pairwise comparison

1. Total counts & total scores for Fold

Total Base Pair Counts
Total TP 6435
Total TN 39594644
Total FP 15955
Total FP CONTRA 1951
Total FP INCONS 10076
Total FP COMP 3928
Total FN 12328
Total Scores
MCC 0.345
Average MCC ± 95% Confidence Intervals 0.371 ± 0.036
Sensitivity 0.343
Positive Predictive Value 0.349
Nr of predictions 77

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2. Individual counts for Fold [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00002 - 0.58 0.56 0.61 148 408817 138 17 78 43 116
CRW_00417 - 0.30 0.29 0.32 76 458165 174 28 134 12 186
CRW_00418 - 0.14 0.13 0.15 34 441098 211 19 179 13 226
CRW_00419 - 0.16 0.16 0.17 42 463913 217 25 186 6 223
CRW_00421 - 0.49 0.47 0.51 126 462954 141 24 99 18 140
CRW_00422 - 0.32 0.32 0.33 83 455280 189 26 146 17 180
CRW_00424 - 0.44 0.44 0.44 161 789032 227 29 174 24 202
CRW_00426 - 0.26 0.26 0.26 68 457189 195 30 159 6 197
CRW_00427 - 0.24 0.23 0.25 61 454334 201 29 157 15 200
CRW_00428 - 0.36 0.35 0.36 91 465844 176 24 136 16 169
CRW_00430 - 0.22 0.21 0.22 56 456237 204 35 162 7 210
CRW_00433 - 0.42 0.39 0.45 102 467799 136 13 114 9 161
CRW_00434 - 0.40 0.38 0.42 100 457206 144 18 122 4 163
CRW_00435 - 0.32 0.31 0.34 83 451478 174 21 143 10 182
CRW_00437 - 0.22 0.22 0.23 57 456240 202 25 168 9 203
CRW_00438 - 0.19 0.19 0.20 50 454329 210 25 177 8 218
CRW_00441 - 0.24 0.22 0.25 58 454352 180 18 153 9 204
CRW_00442 - 0.32 0.31 0.33 82 453381 173 35 130 8 179
CRW_00443 - 0.24 0.23 0.25 59 456251 195 29 151 15 201
CRW_00444 - 0.32 0.30 0.34 80 459124 164 21 136 7 183
CRW_00445 - 0.32 0.30 0.33 80 458162 171 27 134 10 185
CRW_00446 - 0.27 0.26 0.27 70 468738 204 30 158 16 195
CRW_00447 - 0.31 0.30 0.31 79 452419 195 25 153 17 181
CRW_00448 - 0.39 0.38 0.41 98 457205 160 18 125 17 163
CRW_00449 - 0.33 0.33 0.34 85 444846 172 31 134 7 175
CRW_00450 - 0.36 0.34 0.38 90 458169 159 18 126 15 172
CRW_00451 - 0.24 0.24 0.25 63 457195 200 28 160 12 201
CRW_00452 - 0.23 0.22 0.25 57 453397 191 26 148 17 205
CRW_00453 - 0.33 0.32 0.34 83 452432 168 28 133 7 178
CRW_00456 - 0.29 0.26 0.31 70 470711 170 16 138 16 195
CRW_00457 - 0.34 0.33 0.35 88 467778 176 23 139 14 176
CRW_00458 - 0.43 0.44 0.43 115 464864 165 23 128 14 149
CRW_00459 - 0.29 0.28 0.30 74 461992 195 26 149 20 189
CRW_00462 - 0.24 0.23 0.25 59 458166 189 26 152 11 202
CRW_00463 - 0.37 0.36 0.38 92 445795 161 27 126 8 162
CRW_00464 - 0.41 0.38 0.43 101 462008 144 14 118 12 163
CRW_00530 - 0.21 0.24 0.19 64 534765 273 67 199 7 204
CRW_00538 - 0.33 0.35 0.31 104 811840 258 55 176 27 196
CRW_00604 - 0.88 0.89 0.87 72 411695 196 2 9 185 9
CRW_00606 - 0.84 0.84 0.84 77 559061 255 5 10 240 15
CRW_00607 - 0.52 0.52 0.51 40 536052 283 11 27 245 37
CRW_00615 - 0.65 0.70 0.61 57 553785 271 15 21 235 25
CRW_00617 - 0.31 0.34 0.28 22 426347 269 11 46 212 42
CRW_00678 - 0.43 0.46 0.39 56 666292 324 18 69 237 65
CRW_00680 - 0.45 0.48 0.42 58 516498 256 16 64 176 64
CRW_00683 - 0.24 0.29 0.19 39 460117 283 49 115 119 96
CRW_00684 - 0.36 0.41 0.33 55 612002 303 40 74 189 80
CRW_00702 - 0.62 0.77 0.50 58 357319 208 43 15 150 17
CRW_00704 - 0.87 0.87 0.86 82 386665 190 4 9 177 12
CRW_00706 - 0.60 0.68 0.53 40 695535 350 17 18 315 19
CRW_00713 - 0.77 0.72 0.81 73 731355 309 0 17 292 28
CRW_00765 - 0.26 0.26 0.26 67 452416 202 38 155 9 190
CRW_00766 - 0.25 0.25 0.26 60 440159 189 16 156 17 180
CRW_00768 - 0.54 0.53 0.56 136 471665 136 16 89 31 123
CRW_00769 - 0.54 0.53 0.54 134 451477 134 23 91 20 118
CRW_00773 - 0.40 0.40 0.40 103 451467 176 27 128 21 156
CRW_00774 - 0.36 0.35 0.38 91 488329 164 18 128 18 172
CRW_00777 - 0.38 0.39 0.36 119 719073 249 40 168 41 185
CRW_00780 - 0.25 0.24 0.26 60 475567 188 23 150 15 195
CRW_00783 - 0.23 0.23 0.23 60 453368 207 23 177 7 199
CRW_00784 - 0.27 0.27 0.28 70 456240 194 30 150 14 192
CRW_00785 - 0.29 0.27 0.30 69 452448 173 17 142 14 184
CRW_00787 - 0.29 0.29 0.29 89 646643 234 33 188 13 217
CRW_00794 - 0.28 0.28 0.28 70 434531 199 17 160 22 176
CRW_00796 - 0.40 0.38 0.42 89 384792 147 9 113 25 146
CRW_00797 - 0.39 0.39 0.39 133 692912 235 25 183 27 209
CRW_00801 - 0.35 0.35 0.35 86 438269 178 26 135 17 163
CRW_00802 - 0.22 0.22 0.21 56 460057 221 35 172 14 197
CRW_00813 - 0.37 0.41 0.33 55 530799 266 29 82 155 78
CRW_01186 - 0.26 0.26 0.25 100 836177 308 34 260 14 286
CRW_01250 - 0.44 0.44 0.43 165 781495 235 32 183 20 213
CRW_01266 - 0.29 0.30 0.28 114 818158 296 43 245 8 267
CRW_01271 - 0.35 0.36 0.35 137 827145 270 36 223 11 244
CRW_01344 - 0.30 0.31 0.30 112 791539 272 37 223 12 254
PDB_00409 - 0.27 0.31 0.23 77 688211 338 75 188 75 168
PDB_00805 - 0.62 0.61 0.63 183 467737 137 13 95 29 119
PDB_01261 - 0.59 0.54 0.64 182 467742 108 6 98 4 154

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Performance of RNAwolf - scored lower in this pairwise comparison

1. Total counts & total scores for RNAwolf

Total Base Pair Counts
Total TP 3908
Total TN 39592372
Total FP 21488
Total FP CONTRA 3257
Total FP INCONS 13569
Total FP COMP 4662
Total FN 14855
Total Scores
MCC 0.198
Average MCC ± 95% Confidence Intervals 0.215 ± 0.029
Sensitivity 0.208
Positive Predictive Value 0.188
Nr of predictions 77

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2. Individual counts for RNAwolf [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00002 - 0.28 0.29 0.27 76 408775 248 40 169 39 188
CRW_00417 - 0.16 0.16 0.15 43 458123 262 39 198 25 219
CRW_00418 - 0.14 0.15 0.14 38 441051 257 48 193 16 222
CRW_00419 - 0.13 0.14 0.12 36 463875 271 46 209 16 229
CRW_00421 - 0.17 0.18 0.16 48 462897 276 52 206 18 218
CRW_00422 - 0.15 0.16 0.14 41 455242 274 39 213 22 222
CRW_00424 - 0.20 0.21 0.19 75 789009 339 43 269 27 288
CRW_00426 - 0.22 0.23 0.22 60 457173 236 41 172 23 205
CRW_00427 - 0.26 0.26 0.26 69 454312 242 35 165 42 192
CRW_00428 - 0.17 0.18 0.16 48 465797 277 52 198 27 212
CRW_00430 - 0.10 0.11 0.10 29 456197 279 45 219 15 237
CRW_00433 - 0.20 0.20 0.19 53 467752 243 36 187 20 210
CRW_00434 - 0.14 0.15 0.14 39 457167 272 43 197 32 224
CRW_00435 - 0.17 0.17 0.17 45 451453 253 34 193 26 220
CRW_00437 - 0.26 0.27 0.26 69 456226 230 32 163 35 191
CRW_00438 - 0.16 0.16 0.15 44 454297 253 44 196 13 224
CRW_00441 - 0.14 0.15 0.14 38 454303 253 49 191 13 224
CRW_00442 - 0.15 0.15 0.14 39 453356 254 41 192 21 222
CRW_00443 - 0.20 0.20 0.20 52 456224 251 42 172 37 208
CRW_00444 - 0.23 0.24 0.23 62 459095 240 39 165 36 201
CRW_00445 - 0.23 0.25 0.22 65 458114 258 46 178 34 200
CRW_00446 - 0.11 0.11 0.10 30 468710 276 47 209 20 235
CRW_00447 - 0.14 0.15 0.13 38 452387 274 38 213 23 222
CRW_00448 - 0.08 0.08 0.08 22 457185 260 47 192 21 239
CRW_00449 - 0.09 0.10 0.09 25 444821 265 45 205 15 235
CRW_00450 - 0.17 0.18 0.16 46 458120 263 37 200 26 216
CRW_00451 - 0.18 0.19 0.18 51 457155 266 47 193 26 213
CRW_00452 - 0.14 0.15 0.13 39 453337 275 42 210 23 223
CRW_00453 - 0.25 0.25 0.25 64 452419 227 33 160 34 197
CRW_00456 - 0.19 0.19 0.19 50 470672 235 38 175 22 215
CRW_00457 - 0.27 0.28 0.27 75 467746 248 26 181 41 189
CRW_00458 - 0.27 0.27 0.27 71 464866 208 41 152 15 193
CRW_00459 - 0.22 0.23 0.22 60 461968 248 35 178 35 203
CRW_00462 - 0.19 0.20 0.18 51 458126 254 29 197 28 210
CRW_00463 - 0.21 0.22 0.20 56 445761 243 47 176 20 198
CRW_00464 - 0.17 0.17 0.17 44 461979 238 40 178 20 220
CRW_00530 - 0.24 0.27 0.22 72 534761 278 73 189 16 196
CRW_00538 - 0.21 0.24 0.18 72 811777 358 86 240 32 228
CRW_00604 - 0.81 0.81 0.80 66 411696 242 2 14 226 15
CRW_00606 - 0.72 0.73 0.72 67 559060 311 5 21 285 25
CRW_00607 - 0.45 0.45 0.44 35 536050 325 12 33 280 42
CRW_00615 - 0.44 0.55 0.36 45 553753 334 38 42 254 37
CRW_00617 - 0.07 0.09 0.05 6 426305 316 43 72 201 58
CRW_00678 - 0.16 0.18 0.14 22 666279 384 32 102 250 99
CRW_00680 - 0.25 0.28 0.23 34 516487 293 22 93 178 88
CRW_00683 - 0.10 0.13 0.09 17 460126 313 48 129 136 118
CRW_00684 - 0.10 0.13 0.09 17 611976 357 48 130 179 118
CRW_00702 - 0.30 0.35 0.25 26 357333 263 32 44 187 49
CRW_00704 - 0.33 0.36 0.31 34 386650 255 25 51 179 60
CRW_00706 - 0.43 0.46 0.40 27 695542 380 10 31 339 32
CRW_00713 - 0.38 0.41 0.35 41 731327 351 24 53 274 60
CRW_00765 - 0.13 0.14 0.12 37 452376 272 55 208 9 220
CRW_00766 - 0.14 0.15 0.13 35 440129 259 41 186 32 205
CRW_00768 - 0.30 0.32 0.29 83 471617 239 48 158 33 176
CRW_00769 - 0.21 0.23 0.20 58 451429 261 51 187 23 194
CRW_00773 - 0.32 0.33 0.31 85 451453 218 45 142 31 174
CRW_00774 - 0.15 0.16 0.14 42 488276 276 32 216 28 221
CRW_00777 - 0.09 0.10 0.08 31 719031 376 64 274 38 273
CRW_00780 - 0.19 0.20 0.18 50 475527 242 42 181 19 205
CRW_00783 - 0.13 0.14 0.12 35 453340 266 49 204 13 224
CRW_00784 - 0.17 0.18 0.16 48 456191 277 37 214 26 214
CRW_00785 - 0.21 0.22 0.21 55 452412 242 43 166 33 198
CRW_00787 - 0.18 0.19 0.18 59 646617 305 35 242 28 247
CRW_00794 - 0.13 0.15 0.12 36 434484 283 53 205 25 210
CRW_00796 - 0.05 0.06 0.05 14 384732 272 52 205 15 221
CRW_00797 - 0.13 0.14 0.12 47 692868 356 57 281 18 295
CRW_00801 - 0.18 0.19 0.17 48 438233 249 59 176 14 201
CRW_00802 - 0.12 0.13 0.11 33 460031 275 47 209 19 220
CRW_00813 - 0.11 0.15 0.08 20 530728 326 95 122 109 113
CRW_01186 - 0.19 0.19 0.18 75 836163 348 55 278 15 311
CRW_01250 - 0.22 0.22 0.22 85 781486 328 41 263 24 293
CRW_01266 - 0.19 0.20 0.18 76 818139 366 54 291 21 305
CRW_01271 - 0.17 0.17 0.17 65 827149 364 36 291 37 316
CRW_01344 - 0.16 0.16 0.16 59 791531 333 54 267 12 307
PDB_00409 - 0.29 0.34 0.24 84 688207 347 81 179 87 161
PDB_00805 - 0.34 0.36 0.33 108 467696 243 40 184 19 194
PDB_01261 - 0.52 0.50 0.54 168 467715 157 13 132 12 168

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Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

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