# This file is the result of combining several RDB files, specifically # T0282.t04.dssp-ebghstl.rdb (weight 1.53986) # T0282.t04.stride-ebghtl.rdb (weight 1.24869) # T0282.t04.str2.rdb (weight 1.54758) # T0282.t04.alpha.rdb (weight 0.659012) # These files were combined by translating their predictions into EHL # predictions with tables generated by compare-real, and then combining # those predictions with weights proportional to their mutual information # with the EHL alphabet. The comments from the individual files follow. # # Comments from T0282.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0282 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-ebghstl-dssp-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 7 (1 EBGHSTL ) # The input amino acid frequencies were determined from # alignment T0282.t04-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 288 # # ============================================ # Comments from T0282.t04.stride-ebghtl.rdb # ============================================ # TARGET T0282 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-ebghtl-stride-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 6 (1 EBGHTL ) # The input amino acid frequencies were determined from # alignment T0282.t04-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 288 # # ============================================ # Comments from T0282.t04.str2.rdb # ============================================ # TARGET T0282 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-str2-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 13 (1 str2 ) # The input amino acid frequencies were determined from # alignment T0282.t04-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 288 # # ============================================ # Comments from T0282.t04.alpha.rdb # ============================================ # TARGET T0282 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-alpha-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0282.t04-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 288 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0939 0.0890 0.8171 2 N 0.0971 0.0502 0.8528 3 P 0.0511 0.2051 0.7438 4 N 0.0723 0.2172 0.7105 5 F 0.0885 0.2660 0.6455 6 T 0.0999 0.2331 0.6670 7 T 0.1107 0.2531 0.6362 8 E 0.1054 0.2958 0.5988 9 H 0.1663 0.2662 0.5675 10 T 0.1568 0.3225 0.5207 11 W 0.1614 0.3048 0.5337 12 Q 0.1115 0.2048 0.6837 13 G 0.0843 0.0941 0.8216 14 R 0.1387 0.0629 0.7984 15 H 0.2260 0.0379 0.7360 16 D 0.1147 0.0144 0.8710 17 P 0.0237 0.3510 0.6252 18 E 0.0301 0.3272 0.6427 19 D 0.0629 0.3650 0.5721 20 G 0.0554 0.3566 0.5881 21 Q 0.0878 0.3682 0.5439 22 A 0.1011 0.3438 0.5551 23 G 0.1151 0.2167 0.6682 24 R 0.2211 0.1846 0.5943 25 R 0.4089 0.1780 0.4132 26 V 0.5182 0.1739 0.3079 27 H 0.4772 0.1381 0.3848 28 H 0.4015 0.1038 0.4946 29 I 0.4057 0.0629 0.5314 30 A 0.3426 0.0560 0.6013 31 C 0.2534 0.0491 0.6975 32 P 0.2016 0.1212 0.6772 33 I 0.2050 0.1187 0.6763 34 Q 0.2025 0.1225 0.6750 35 V 0.1247 0.2650 0.6103 36 G 0.0949 0.2654 0.6397 37 E 0.1049 0.3105 0.5846 38 L 0.1030 0.3130 0.5840 39 A 0.0689 0.3050 0.6261 40 N 0.0616 0.2158 0.7226 41 Q 0.0791 0.1420 0.7789 42 E 0.0896 0.0386 0.8718 43 P 0.0747 0.0626 0.8626 44 G 0.2373 0.0305 0.7322 45 V 0.8820 0.0042 0.1138 46 A 0.9279 0.0035 0.0686 47 L 0.9315 0.0031 0.0654 48 I 0.8920 0.0117 0.0963 49 G 0.7371 0.0080 0.2548 50 F 0.4152 0.0153 0.5696 51 E 0.3465 0.0286 0.6249 52 C 0.2133 0.1049 0.6818 53 D 0.1255 0.1499 0.7247 54 A 0.0844 0.2102 0.7054 55 G 0.1504 0.1918 0.6578 56 V 0.3643 0.1598 0.4759 57 E 0.3360 0.1501 0.5139 58 R 0.1843 0.1907 0.6251 59 N 0.1013 0.1218 0.7769 60 K 0.0603 0.1013 0.8384 61 G 0.0788 0.0723 0.8488 62 R 0.1216 0.0804 0.7980 63 T 0.1141 0.2229 0.6630 64 G 0.0732 0.3143 0.6124 65 A 0.0438 0.5802 0.3760 66 K 0.0315 0.5843 0.3842 67 H 0.0417 0.5215 0.4368 68 A 0.0253 0.4834 0.4913 69 P 0.0080 0.9056 0.0864 70 S 0.0057 0.9462 0.0480 71 L 0.0048 0.9556 0.0396 72 I 0.0047 0.9554 0.0398 73 K 0.0047 0.9578 0.0375 74 Q 0.0048 0.9558 0.0394 75 A 0.0049 0.9494 0.0457 76 L 0.0051 0.9372 0.0577 77 A 0.0065 0.8908 0.1027 78 N 0.0085 0.7902 0.2013 79 L 0.0227 0.6903 0.2870 80 A 0.0340 0.5799 0.3861 81 W 0.0334 0.4834 0.4831 82 H 0.0559 0.2967 0.6474 83 H 0.0916 0.0601 0.8483 84 P 0.0943 0.0292 0.8765 85 I 0.1177 0.0119 0.8704 86 P 0.2618 0.0148 0.7234 87 I 0.5771 0.0692 0.3536 88 Y 0.6606 0.0552 0.2842 89 D 0.6582 0.0417 0.3001 90 L 0.3651 0.0841 0.5508 91 G 0.1582 0.0463 0.7955 92 N 0.2544 0.0371 0.7086 93 I 0.4052 0.0296 0.5652 94 R 0.4831 0.0222 0.4947 95 C 0.3411 0.0253 0.6336 96 E 0.1466 0.0392 0.8143 97 G 0.0477 0.2461 0.7063 98 D 0.0431 0.4143 0.5425 99 E 0.0618 0.5210 0.4172 100 L 0.0056 0.9339 0.0605 101 E 0.0047 0.9576 0.0377 102 Q 0.0047 0.9597 0.0356 103 A 0.0047 0.9582 0.0371 104 Q 0.0047 0.9600 0.0353 105 Q 0.0047 0.9609 0.0344 106 E 0.0047 0.9605 0.0348 107 C 0.0047 0.9590 0.0363 108 A 0.0047 0.9607 0.0346 109 Q 0.0047 0.9609 0.0345 110 V 0.0047 0.9603 0.0350 111 I 0.0049 0.9538 0.0413 112 Q 0.0051 0.9440 0.0509 113 Q 0.0062 0.9019 0.0919 114 A 0.0130 0.8040 0.1830 115 L 0.0592 0.2240 0.7168 116 P 0.0206 0.1473 0.8322 117 H 0.0223 0.0577 0.9200 118 A 0.1252 0.0224 0.8524 119 R 0.5492 0.0093 0.4415 120 A 0.8844 0.0041 0.1115 121 I 0.9235 0.0038 0.0727 122 V 0.9221 0.0038 0.0740 123 L 0.8429 0.0149 0.1422 124 G 0.4168 0.0192 0.5640 125 G 0.1321 0.0363 0.8316 126 G 0.0986 0.0893 0.8121 127 H 0.1259 0.2748 0.5993 128 E 0.1111 0.5391 0.3498 129 I 0.1229 0.6207 0.2564 130 A 0.0779 0.7167 0.2053 131 W 0.0203 0.8991 0.0806 132 A 0.0122 0.9273 0.0605 133 T 0.0100 0.9402 0.0497 134 F 0.0057 0.9541 0.0401 135 Q 0.0054 0.9572 0.0374 136 G 0.0049 0.9579 0.0372 137 L 0.0050 0.9561 0.0389 138 A 0.0047 0.9565 0.0388 139 Q 0.0049 0.9490 0.0460 140 H 0.0054 0.9353 0.0593 141 F 0.0104 0.8849 0.1047 142 L 0.0108 0.8000 0.1892 143 A 0.0140 0.7227 0.2633 144 T 0.0458 0.4151 0.5390 145 G 0.0375 0.1150 0.8475 146 V 0.0708 0.0917 0.8375 147 K 0.1107 0.0857 0.8036 148 Q 0.1286 0.0349 0.8365 149 P 0.1254 0.0149 0.8597 150 R 0.3663 0.0255 0.6082 151 I 0.8053 0.0074 0.1873 152 G 0.9133 0.0044 0.0823 153 I 0.9336 0.0032 0.0632 154 I 0.9318 0.0034 0.0648 155 N 0.9289 0.0033 0.0678 156 F 0.8203 0.0086 0.1710 157 D 0.4614 0.0133 0.5254 158 A 0.1859 0.0825 0.7316 159 H 0.1025 0.1597 0.7378 160 F 0.0719 0.2987 0.6294 161 D 0.0740 0.3076 0.6184 162 L 0.0873 0.3737 0.5390 163 R 0.0832 0.2460 0.6708 164 T 0.0873 0.1289 0.7837 165 F 0.0765 0.2472 0.6763 166 E 0.0761 0.2962 0.6277 167 S 0.0745 0.2653 0.6602 168 E 0.0903 0.2582 0.6514 169 L 0.1380 0.2204 0.6415 170 A 0.1045 0.1508 0.7447 171 P 0.0747 0.1474 0.7779 172 V 0.0972 0.1036 0.7992 173 R 0.0894 0.0717 0.8389 174 P 0.0729 0.1258 0.8012 175 S 0.0993 0.1288 0.7719 176 S 0.1300 0.1255 0.7445 177 G 0.1252 0.1800 0.6949 178 T 0.1083 0.3442 0.5475 179 P 0.0384 0.7657 0.1959 180 F 0.0064 0.9415 0.0520 181 N 0.0066 0.9443 0.0492 182 Q 0.0062 0.9460 0.0478 183 I 0.0077 0.9384 0.0538 184 H 0.0081 0.9210 0.0709 185 H 0.0085 0.8886 0.1029 186 F 0.0187 0.8314 0.1499 187 C 0.0311 0.7230 0.2459 188 Q 0.0313 0.6849 0.2839 189 Q 0.0371 0.6442 0.3187 190 Q 0.0413 0.4024 0.5563 191 G 0.0431 0.1361 0.8208 192 W 0.0901 0.0890 0.8210 193 D 0.1315 0.0997 0.7688 194 F 0.1876 0.0751 0.7373 195 H 0.3032 0.0450 0.6518 196 Y 0.8260 0.0067 0.1673 197 A 0.9136 0.0038 0.0825 198 C 0.9274 0.0037 0.0689 199 L 0.8885 0.0181 0.0934 200 G 0.8576 0.0099 0.1325 201 V 0.7034 0.0181 0.2785 202 S 0.4005 0.0279 0.5716 203 R 0.1741 0.0581 0.7677 204 A 0.0691 0.1074 0.8235 205 S 0.0596 0.0943 0.8461 206 N 0.0563 0.0506 0.8932 207 T 0.0564 0.0302 0.9134 208 P 0.0059 0.9277 0.0664 209 A 0.0049 0.9497 0.0454 210 L 0.0048 0.9531 0.0421 211 F 0.0047 0.9578 0.0375 212 E 0.0047 0.9549 0.0404 213 R 0.0047 0.9561 0.0392 214 A 0.0050 0.9568 0.0382 215 D 0.0049 0.9465 0.0486 216 K 0.0054 0.9181 0.0765 217 L 0.0433 0.3695 0.5872 218 G 0.0486 0.0122 0.9393 219 V 0.1449 0.0065 0.8486 220 W 0.7575 0.0100 0.2325 221 Y 0.9057 0.0036 0.0908 222 V 0.8804 0.0061 0.1135 223 E 0.7579 0.0055 0.2366 224 D 0.1307 0.5471 0.3222 225 K 0.0286 0.6467 0.3248 226 A 0.0318 0.6151 0.3531 227 F 0.1336 0.2897 0.5766 228 S 0.0647 0.1949 0.7403 229 P 0.0267 0.5878 0.3855 230 L 0.0404 0.4110 0.5486 231 S 0.0549 0.3048 0.6402 232 L 0.0057 0.9107 0.0836 233 K 0.0048 0.9545 0.0408 234 D 0.0047 0.9579 0.0375 235 H 0.0047 0.9589 0.0364 236 L 0.0047 0.9607 0.0346 237 T 0.0046 0.9596 0.0358 238 Q 0.0047 0.9545 0.0408 239 L 0.0049 0.9463 0.0488 240 Q 0.0050 0.9391 0.0559 241 H 0.0061 0.9078 0.0861 242 F 0.0110 0.8204 0.1685 243 I 0.0601 0.5306 0.4093 244 D 0.0295 0.2998 0.6708 245 D 0.0287 0.1322 0.8391 246 C 0.0740 0.0692 0.8568 247 D 0.0886 0.0571 0.8543 248 Y 0.4559 0.0150 0.5292 249 L 0.8504 0.0049 0.1447 250 Y 0.9256 0.0035 0.0709 251 L 0.9277 0.0033 0.0690 252 T 0.9148 0.0034 0.0818 253 I 0.8270 0.0051 0.1679 254 D 0.5311 0.0147 0.4541 255 L 0.2608 0.1598 0.5794 256 D 0.1831 0.2122 0.6047 257 V 0.2429 0.2410 0.5161 258 F 0.2384 0.1100 0.6516 259 P 0.2107 0.0894 0.6999 260 A 0.0450 0.5647 0.3903 261 A 0.0451 0.4796 0.4753 262 S 0.0680 0.4061 0.5259 263 A 0.1184 0.0698 0.8117 264 P 0.0809 0.1107 0.8085 265 G 0.1433 0.1042 0.7525 266 V 0.1740 0.0920 0.7340 267 S 0.1587 0.0774 0.7639 268 A 0.1489 0.0544 0.7968 269 P 0.1259 0.1298 0.7443 270 A 0.1089 0.1606 0.7305 271 A 0.0938 0.1930 0.7132 272 R 0.0863 0.1186 0.7951 273 G 0.1164 0.0525 0.8311 274 V 0.2005 0.0135 0.7860 275 S 0.1598 0.0141 0.8261 276 L 0.0049 0.9410 0.0541 277 E 0.0047 0.9546 0.0407 278 A 0.0047 0.9537 0.0416 279 L 0.0047 0.9550 0.0403 280 A 0.0047 0.9598 0.0356 281 P 0.0047 0.9595 0.0358 282 Y 0.0047 0.9584 0.0369 283 F 0.0047 0.9560 0.0392 284 D 0.0047 0.9559 0.0393 285 R 0.0049 0.9487 0.0465 286 I 0.0052 0.9405 0.0543 287 L 0.0081 0.9163 0.0756 288 H 0.0099 0.8468 0.1434 289 Y 0.0170 0.5991 0.3839 290 K 0.0550 0.1861 0.7589 291 N 0.0301 0.0526 0.9173 292 K 0.2630 0.0282 0.7088 293 L 0.7110 0.0053 0.2837 294 M 0.8410 0.0126 0.1464 295 I 0.9159 0.0042 0.0799 296 A 0.9040 0.0042 0.0919 297 D 0.8992 0.0050 0.0958 298 I 0.8742 0.0093 0.1165 299 A 0.8459 0.0105 0.1436 300 E 0.7990 0.0161 0.1849 301 Y 0.5674 0.0218 0.4109 302 N 0.2251 0.0136 0.7614 303 P 0.0748 0.1389 0.7863 304 S 0.0606 0.2000 0.7394 305 F 0.1258 0.1447 0.7295 306 D 0.1080 0.0661 0.8259 307 I 0.0293 0.2434 0.7273 308 D 0.0402 0.2073 0.7525 309 Q 0.0282 0.5000 0.4718 310 H 0.0386 0.7099 0.2515 311 T 0.0245 0.8713 0.1042 312 A 0.0047 0.9587 0.0366 313 R 0.0046 0.9617 0.0337 314 L 0.0046 0.9614 0.0340 315 A 0.0046 0.9612 0.0342 316 A 0.0046 0.9613 0.0341 317 R 0.0046 0.9617 0.0336 318 L 0.0046 0.9614 0.0339 319 C 0.0047 0.9610 0.0344 320 W 0.0046 0.9613 0.0341 321 D 0.0047 0.9615 0.0339 322 I 0.0047 0.9581 0.0372 323 A 0.0048 0.9552 0.0401 324 N 0.0052 0.9434 0.0515 325 A 0.0068 0.9111 0.0820 326 M 0.0101 0.8636 0.1263 327 A 0.0226 0.7723 0.2051 328 E 0.0338 0.6674 0.2988 329 Q 0.0576 0.4814 0.4610 330 V 0.0711 0.3142 0.6146 331 Q 0.0630 0.1367 0.8002 332 S 0.0472 0.0650 0.8878