# This file is the result of combining several RDB files, specifically # T0376.t06.dssp-ebghstl.rdb (weight 1.53986) # T0376.t06.stride-ebghtl.rdb (weight 1.24869) # T0376.t06.str2.rdb (weight 1.54758) # T0376.t06.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 T0376.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0376 # Using neural net t06-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 T0376.t06-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 922 # # ============================================ # Comments from T0376.t06.stride-ebghtl.rdb # ============================================ # TARGET T0376 # Using neural net t06-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 T0376.t06-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 922 # # ============================================ # Comments from T0376.t06.str2.rdb # ============================================ # TARGET T0376 # Using neural net t06-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 T0376.t06-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 922 # # ============================================ # Comments from T0376.t06.alpha.rdb # ============================================ # TARGET T0376 # Using neural net t06-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 T0376.t06-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 922 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0656 0.0193 0.9151 2 T 0.0892 0.0300 0.8808 3 A 0.0796 0.1866 0.7337 4 S 0.0960 0.2481 0.6559 5 I 0.1417 0.2418 0.6165 6 F 0.2720 0.1042 0.6238 7 S 0.3189 0.0849 0.5962 8 G 0.4926 0.0428 0.4646 9 V 0.6196 0.0253 0.3551 10 I 0.6845 0.0169 0.2986 11 P 0.5801 0.0199 0.4000 12 A 0.5057 0.0275 0.4668 13 L 0.4898 0.0238 0.4864 14 M 0.3899 0.0276 0.5825 15 T 0.2803 0.0208 0.6989 16 P 0.2114 0.0396 0.7491 17 C 0.3197 0.0342 0.6461 18 R 0.0901 0.0263 0.8836 19 Q 0.0170 0.1369 0.8461 20 D 0.0500 0.0496 0.9004 21 R 0.0429 0.0419 0.9151 22 T 0.1405 0.0235 0.8360 23 P 0.3917 0.0249 0.5834 24 D 0.1258 0.0261 0.8481 25 F 0.0053 0.9346 0.0601 26 D 0.0047 0.9570 0.0383 27 A 0.0047 0.9585 0.0368 28 L 0.0047 0.9603 0.0350 29 V 0.0047 0.9597 0.0357 30 R 0.0046 0.9545 0.0408 31 K 0.0047 0.9493 0.0460 32 G 0.0047 0.9541 0.0412 33 K 0.0047 0.9570 0.0384 34 E 0.0047 0.9577 0.0376 35 L 0.0047 0.9570 0.0383 36 I 0.0049 0.9502 0.0449 37 A 0.0054 0.9179 0.0767 38 D 0.0394 0.4407 0.5199 39 G 0.0378 0.0281 0.9341 40 M 0.1033 0.0083 0.8884 41 S 0.1713 0.0368 0.7918 42 A 0.8996 0.0042 0.0962 43 V 0.9282 0.0032 0.0686 44 V 0.9267 0.0036 0.0697 45 Y 0.8667 0.0076 0.1257 46 C 0.4244 0.0226 0.5530 47 G 0.1437 0.0379 0.8185 48 S 0.1368 0.0600 0.8032 49 M 0.1304 0.1474 0.7222 50 G 0.0919 0.1663 0.7418 51 D 0.1200 0.1977 0.6823 52 W 0.0969 0.2740 0.6291 53 P 0.0741 0.2860 0.6399 54 L 0.0971 0.2079 0.6951 55 L 0.1172 0.0389 0.8438 56 T 0.0592 0.0196 0.9212 57 D 0.0049 0.9436 0.0516 58 E 0.0047 0.9595 0.0358 59 Q 0.0047 0.9597 0.0356 60 R 0.0047 0.9607 0.0346 61 M 0.0047 0.9592 0.0361 62 E 0.0047 0.9534 0.0419 63 G 0.0047 0.9464 0.0489 64 V 0.0047 0.9510 0.0444 65 E 0.0047 0.9548 0.0405 66 R 0.0048 0.9505 0.0447 67 L 0.0060 0.9407 0.0533 68 V 0.0126 0.9115 0.0758 69 K 0.0172 0.7575 0.2253 70 A 0.0450 0.1642 0.7908 71 G 0.0317 0.0237 0.9445 72 I 0.1679 0.0088 0.8233 73 P 0.5809 0.0059 0.4132 74 V 0.9105 0.0045 0.0850 75 I 0.9238 0.0037 0.0725 76 V 0.9001 0.0120 0.0879 77 G 0.7913 0.0113 0.1974 78 T 0.4143 0.0309 0.5547 79 G 0.1673 0.0529 0.7798 80 A 0.1059 0.1190 0.7751 81 V 0.0700 0.1834 0.7466 82 N 0.0907 0.1859 0.7234 83 T 0.0054 0.9172 0.0774 84 A 0.0047 0.9591 0.0362 85 S 0.0047 0.9602 0.0351 86 A 0.0046 0.9612 0.0342 87 V 0.0047 0.9606 0.0347 88 A 0.0046 0.9606 0.0348 89 H 0.0046 0.9582 0.0371 90 A 0.0047 0.9591 0.0362 91 V 0.0047 0.9597 0.0356 92 H 0.0047 0.9579 0.0375 93 A 0.0047 0.9538 0.0414 94 Q 0.0049 0.9412 0.0540 95 K 0.0052 0.8964 0.0983 96 V 0.0413 0.4113 0.5474 97 G 0.0451 0.0200 0.9348 98 A 0.1118 0.0079 0.8804 99 K 0.1745 0.0450 0.7805 100 G 0.9139 0.0050 0.0811 101 L 0.9312 0.0034 0.0654 102 M 0.9302 0.0035 0.0662 103 V 0.8902 0.0055 0.1043 104 I 0.4726 0.0138 0.5135 105 P 0.1987 0.0503 0.7509 106 R 0.1366 0.2339 0.6295 107 V 0.1485 0.3811 0.4704 108 L 0.1558 0.3206 0.5236 109 S 0.1187 0.1949 0.6864 110 R 0.0759 0.2009 0.7232 111 G 0.0560 0.2966 0.6474 112 S 0.0615 0.3166 0.6219 113 V 0.0330 0.6259 0.3411 114 I 0.0074 0.8972 0.0954 115 A 0.0051 0.9398 0.0551 116 A 0.0055 0.9473 0.0472 117 Q 0.0047 0.9545 0.0408 118 K 0.0047 0.9590 0.0363 119 A 0.0047 0.9561 0.0392 120 H 0.0047 0.9555 0.0398 121 F 0.0047 0.9593 0.0361 122 K 0.0047 0.9609 0.0344 123 A 0.0047 0.9609 0.0345 124 I 0.0048 0.9554 0.0398 125 L 0.0050 0.9455 0.0495 126 S 0.0060 0.8600 0.1341 127 A 0.0116 0.6315 0.3569 128 A 0.0599 0.0888 0.8513 129 P 0.0247 0.1417 0.8336 130 E 0.0253 0.1190 0.8557 131 I 0.0976 0.0195 0.8829 132 P 0.2246 0.0094 0.7660 133 A 0.9075 0.0036 0.0889 134 V 0.9287 0.0035 0.0677 135 I 0.9269 0.0049 0.0682 136 Y 0.8905 0.0110 0.0986 137 N 0.5955 0.0152 0.3893 138 S 0.1945 0.0229 0.7826 139 P 0.0731 0.1261 0.8008 140 Y 0.0625 0.1700 0.7676 141 Y 0.0850 0.1197 0.7953 142 G 0.1032 0.0743 0.8225 143 F 0.2574 0.0510 0.6916 144 A 0.3483 0.0486 0.6031 145 T 0.2517 0.0554 0.6929 146 R 0.1077 0.0696 0.8226 147 A 0.0052 0.9343 0.0606 148 D 0.0047 0.9520 0.0434 149 L 0.0047 0.9569 0.0384 150 F 0.0047 0.9608 0.0346 151 F 0.0047 0.9602 0.0351 152 A 0.0047 0.9588 0.0365 153 L 0.0048 0.9502 0.0450 154 R 0.0054 0.9263 0.0683 155 A 0.0065 0.8030 0.1905 156 E 0.0129 0.6140 0.3731 157 H 0.0816 0.1236 0.7948 158 K 0.0227 0.1535 0.8238 159 N 0.0656 0.0798 0.8546 160 L 0.7602 0.0142 0.2256 161 V 0.8744 0.0174 0.1082 162 G 0.8985 0.0092 0.0923 163 F 0.8611 0.0182 0.1207 164 K 0.7606 0.0349 0.2045 165 E 0.5059 0.0600 0.4342 166 F 0.1737 0.0869 0.7395 167 G 0.0912 0.0544 0.8544 168 G 0.0571 0.0465 0.8964 169 P 0.0637 0.2060 0.7303 170 A 0.0481 0.2653 0.6865 171 D 0.0835 0.2875 0.6290 172 M 0.0051 0.9224 0.0725 173 R 0.0048 0.9461 0.0490 174 Y 0.0051 0.9504 0.0445 175 A 0.0055 0.9525 0.0420 176 A 0.0052 0.9522 0.0425 177 E 0.0059 0.9441 0.0500 178 N 0.0055 0.9326 0.0619 179 I 0.0089 0.9013 0.0898 180 T 0.0134 0.7870 0.1996 181 S 0.0269 0.5625 0.4105 182 R 0.0629 0.1862 0.7509 183 D 0.0519 0.0985 0.8496 184 D 0.0246 0.1344 0.8410 185 E 0.1235 0.0768 0.7997 186 V 0.6899 0.0101 0.3000 187 T 0.8596 0.0060 0.1344 188 L 0.9174 0.0046 0.0780 189 M 0.8770 0.0086 0.1144 190 I 0.7213 0.0215 0.2572 191 G 0.2907 0.0326 0.6767 192 V 0.1275 0.1227 0.7498 193 D 0.0677 0.2857 0.6466 194 T 0.0507 0.5947 0.3546 195 A 0.0514 0.7436 0.2051 196 V 0.0660 0.7601 0.1739 197 V 0.0548 0.7870 0.1582 198 H 0.0287 0.8282 0.1431 199 G 0.0275 0.8349 0.1376 200 F 0.0298 0.8648 0.1054 201 V 0.0609 0.8176 0.1215 202 N 0.0569 0.7841 0.1590 203 C 0.0670 0.5134 0.4196 204 G 0.0629 0.1050 0.8320 205 A 0.1079 0.0924 0.7997 206 T 0.1536 0.1720 0.6743 207 G 0.6469 0.1369 0.2163 208 A 0.7685 0.1176 0.1139 209 I 0.7871 0.1140 0.0989 210 T 0.7355 0.1155 0.1490 211 G 0.4510 0.2390 0.3100 212 I 0.2146 0.4398 0.3457 213 G 0.1277 0.4745 0.3978 214 N 0.0885 0.4337 0.4778 215 V 0.0707 0.3363 0.5929 216 L 0.0578 0.1836 0.7586 217 P 0.0142 0.6735 0.3123 218 K 0.0048 0.9482 0.0470 219 E 0.0047 0.9566 0.0387 220 V 0.0047 0.9596 0.0357 221 I 0.0047 0.9608 0.0346 222 H 0.0047 0.9607 0.0347 223 L 0.0046 0.9607 0.0346 224 C 0.0047 0.9605 0.0348 225 K 0.0046 0.9589 0.0365 226 L 0.0047 0.9510 0.0443 227 S 0.0047 0.9372 0.0581 228 Q 0.0048 0.8882 0.1070 229 A 0.0051 0.8517 0.1432 230 A 0.0084 0.7898 0.2018 231 A 0.0151 0.6655 0.3194 232 K 0.0393 0.4241 0.5366 233 G 0.0281 0.1378 0.8341 234 D 0.0859 0.1151 0.7990 235 A 0.0842 0.2903 0.6255 236 D 0.0940 0.4609 0.4450 237 A 0.0506 0.7306 0.2188 238 R 0.0421 0.8457 0.1122 239 A 0.0246 0.9054 0.0700 240 R 0.0232 0.8935 0.0833 241 A 0.0203 0.8869 0.0927 242 L 0.0133 0.8744 0.1122 243 E 0.0087 0.8678 0.1234 244 L 0.0065 0.8977 0.0958 245 E 0.0066 0.9018 0.0916 246 Q 0.0063 0.8923 0.1014 247 A 0.0070 0.9058 0.0872 248 L 0.0075 0.9224 0.0701 249 A 0.0065 0.9335 0.0600 250 V 0.0067 0.9311 0.0622 251 L 0.0091 0.9129 0.0780 252 S 0.0084 0.8412 0.1503 253 S 0.0124 0.7942 0.1934 254 F 0.0330 0.6912 0.2758 255 D 0.0445 0.4553 0.5001 256 E 0.0489 0.3366 0.6145 257 G 0.0540 0.0801 0.8659 258 P 0.0306 0.2310 0.7384 259 D 0.0417 0.3144 0.6438 260 L 0.0316 0.6740 0.2944 261 V 0.0130 0.8739 0.1131 262 L 0.0081 0.9354 0.0566 263 Y 0.0071 0.9491 0.0438 264 F 0.0064 0.9556 0.0380 265 K 0.0051 0.9589 0.0359 266 Y 0.0051 0.9593 0.0355 267 M 0.0047 0.9598 0.0355 268 M 0.0047 0.9592 0.0361 269 V 0.0049 0.9522 0.0429 270 L 0.0068 0.9108 0.0824 271 K 0.0408 0.5163 0.4429 272 G 0.0326 0.0775 0.8899 273 D 0.0681 0.0814 0.8505 274 K 0.0793 0.1635 0.7572 275 E 0.0942 0.1658 0.7399 276 Y 0.1675 0.0983 0.7342 277 T 0.2604 0.0657 0.6739 278 L 0.3448 0.0521 0.6032 279 H 0.2760 0.0432 0.6809 280 F 0.1629 0.0564 0.7807 281 N 0.1042 0.0574 0.8384 282 E 0.0526 0.2158 0.7316 283 T 0.0502 0.2400 0.7098 284 D 0.0673 0.2110 0.7217 285 A 0.0709 0.2132 0.7159 286 L 0.1015 0.1015 0.7970 287 T 0.0554 0.0656 0.8789 288 D 0.0048 0.9419 0.0533 289 S 0.0048 0.9456 0.0496 290 Q 0.0050 0.9491 0.0459 291 R 0.0047 0.9571 0.0382 292 G 0.0047 0.9576 0.0378 293 Y 0.0047 0.9578 0.0375 294 V 0.0047 0.9583 0.0370 295 E 0.0047 0.9602 0.0351 296 A 0.0047 0.9586 0.0367 297 Q 0.0047 0.9553 0.0400 298 F 0.0047 0.9536 0.0416 299 K 0.0049 0.9340 0.0611 300 L 0.0054 0.8711 0.1235 301 F 0.0140 0.7700 0.2160 302 N 0.0159 0.6460 0.3382 303 S 0.0238 0.6548 0.3214 304 W 0.0425 0.6651 0.2924 305 Y 0.0807 0.5867 0.3327 306 A 0.0496 0.5733 0.3770 307 D 0.0611 0.5061 0.4328 308 W 0.0410 0.6103 0.3487 309 S 0.0394 0.4798 0.4808 310 K 0.0512 0.4244 0.5244 311 L 0.0789 0.1516 0.7695 312 P 0.0436 0.2855 0.6709 313 G 0.0519 0.2545 0.6937 314 A 0.1405 0.3951 0.4644 315 V 0.1409 0.5442 0.3149 316 Q 0.1119 0.5794 0.3087 317 T 0.1051 0.5736 0.3213 318 C 0.1094 0.4560 0.4346 319 K 0.0800 0.3748 0.5451 320 A 0.0746 0.3470 0.5785 321 A 0.0517 0.1122 0.8361