# This file is the result of combining several RDB files, specifically # T0187.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0187.t2k.stride-ebghtl.rdb (weight 1.24869) # T0187.t2k.str.rdb (weight 1.53983) # T0187.t2k.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 T0187.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0187 # Using neural net t2k-5740-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 7 (1 EBGHSTL ) # The input amino acid frequencies were determined from # alignment T0187.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 30 # # ============================================ # Comments from T0187.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0187 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 6 (1 EBGHTL ) # The input amino acid frequencies were determined from # alignment T0187.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 30 # # ============================================ # Comments from T0187.t2k.str.rdb # ============================================ # TARGET T0187 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str ) # The input amino acid frequencies were determined from # alignment T0187.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 30 # # ============================================ # Comments from T0187.t2k.alpha.rdb # ============================================ # TARGET T0187 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0187.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 30 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0425 0.0462 0.9113 2 F 0.0919 0.0872 0.8209 3 D 0.0679 0.1172 0.8149 4 P 0.0364 0.3870 0.5767 5 E 0.0156 0.6011 0.3832 6 S 0.0288 0.6278 0.3433 7 L 0.0081 0.8042 0.1877 8 K 0.0061 0.8736 0.1203 9 K 0.0054 0.9105 0.0840 10 L 0.0049 0.9332 0.0620 11 A 0.0046 0.9413 0.0540 12 I 0.0045 0.9520 0.0435 13 E 0.0046 0.9507 0.0447 14 I 0.0045 0.9553 0.0402 15 V 0.0044 0.9571 0.0385 16 K 0.0044 0.9564 0.0392 17 K 0.0045 0.9514 0.0440 18 S 0.0046 0.9428 0.0527 19 I 0.0050 0.9145 0.0805 20 E 0.0058 0.8499 0.1443 21 A 0.0109 0.6839 0.3052 22 V 0.0520 0.3563 0.5917 23 F 0.0874 0.0658 0.8468 24 P 0.0082 0.7099 0.2819 25 D 0.0059 0.8604 0.1337 26 R 0.0078 0.9079 0.0843 27 A 0.0125 0.9048 0.0827 28 V 0.0168 0.8714 0.1119 29 K 0.0185 0.8049 0.1767 30 E 0.0185 0.6042 0.3773 31 T 0.0339 0.4488 0.5174 32 L 0.1016 0.0960 0.8025 33 P 0.1117 0.0922 0.7961 34 K 0.1920 0.1021 0.7058 35 L 0.1475 0.0676 0.7849 36 N 0.1030 0.1295 0.7675 37 L 0.0688 0.0773 0.8539 38 D 0.0767 0.0660 0.8573 39 R 0.2680 0.0149 0.7171 40 V 0.7287 0.0046 0.2666 41 I 0.9140 0.0040 0.0819 42 L 0.9293 0.0037 0.0670 43 V 0.8887 0.0221 0.0891 44 A 0.8148 0.0176 0.1676 45 V 0.4272 0.0803 0.4925 46 G 0.1355 0.1951 0.6695 47 K 0.0255 0.6888 0.2857 48 A 0.0137 0.8025 0.1838 49 A 0.0052 0.8883 0.1065 50 W 0.0045 0.9413 0.0542 51 R 0.0044 0.9377 0.0579 52 M 0.0044 0.9496 0.0460 53 A 0.0044 0.9542 0.0414 54 K 0.0044 0.9564 0.0392 55 A 0.0044 0.9520 0.0436 56 A 0.0044 0.9557 0.0399 57 Y 0.0046 0.9508 0.0446 58 E 0.0051 0.9301 0.0648 59 V 0.0089 0.8544 0.1367 60 L 0.0424 0.6499 0.3077 61 G 0.0262 0.4043 0.5695 62 K 0.0386 0.2927 0.6687 63 K 0.0688 0.3227 0.6085 64 I 0.1725 0.2188 0.6087 65 R 0.2001 0.1146 0.6853 66 K 0.1872 0.0653 0.7475 67 G 0.5235 0.0182 0.4583 68 V 0.8710 0.0049 0.1241 69 V 0.9034 0.0043 0.0924 70 V 0.8876 0.0047 0.1078 71 T 0.7282 0.0068 0.2650 72 K 0.3931 0.0192 0.5877 73 Y 0.0750 0.0912 0.8338 74 G 0.0558 0.0752 0.8690 75 H 0.1123 0.0814 0.8063 76 S 0.1588 0.0642 0.7771 77 E 0.1705 0.0509 0.7786 78 G 0.1377 0.0614 0.8008 79 P 0.1537 0.0878 0.7585 80 I 0.1409 0.0667 0.7924 81 D 0.1028 0.1010 0.7961 82 D 0.3310 0.0520 0.6170 83 F 0.6426 0.0097 0.3477 84 E 0.8465 0.0063 0.1472 85 I 0.9106 0.0041 0.0853 86 Y 0.8695 0.0114 0.1191 87 E 0.8100 0.0078 0.1822 88 A 0.4915 0.0197 0.4888 89 G 0.1971 0.0336 0.7693 90 H 0.0962 0.0265 0.8772 91 P 0.1310 0.0438 0.8253 92 V 0.1380 0.0297 0.8323 93 P 0.0877 0.0400 0.8723 94 D 0.0633 0.1044 0.8323 95 E 0.0081 0.7620 0.2299 96 N 0.0082 0.8205 0.1714 97 T 0.0058 0.9275 0.0667 98 I 0.0044 0.9557 0.0399 99 K 0.0044 0.9578 0.0379 100 T 0.0044 0.9572 0.0385 101 T 0.0044 0.9592 0.0364 102 R 0.0044 0.9602 0.0354 103 R 0.0044 0.9590 0.0366 104 V 0.0044 0.9575 0.0381 105 L 0.0045 0.9550 0.0406 106 E 0.0046 0.9488 0.0467 107 L 0.0054 0.9149 0.0797 108 V 0.0136 0.8610 0.1254 109 D 0.0093 0.6437 0.3470 110 Q 0.0144 0.2637 0.7219 111 L 0.0556 0.0539 0.8905 112 N 0.0508 0.0229 0.9263 113 E 0.0120 0.2927 0.6953 114 N 0.0203 0.1834 0.7963 115 D 0.1741 0.1227 0.7032 116 T 0.7816 0.0115 0.2069 117 V 0.9223 0.0039 0.0738 118 L 0.9314 0.0036 0.0649 119 F 0.9281 0.0039 0.0680 120 L 0.8836 0.0060 0.1103 121 L 0.7056 0.0169 0.2775 122 S 0.3964 0.0280 0.5756 123 G 0.1241 0.0842 0.7917 124 G 0.0663 0.2044 0.7294 125 G 0.0688 0.4200 0.5112 126 S 0.0905 0.4919 0.4176 127 S 0.1138 0.4734 0.4127 128 L 0.1861 0.3268 0.4871 129 F 0.2163 0.1624 0.6213 130 E 0.3163 0.0774 0.6062 131 L 0.2359 0.0483 0.7158 132 P 0.1712 0.0568 0.7721 133 L 0.0728 0.2108 0.7164 134 E 0.0272 0.1485 0.8242 135 G 0.0400 0.0756 0.8844 136 V 0.1774 0.0138 0.8088 137 S 0.1016 0.0145 0.8839 138 L 0.0053 0.9059 0.0888 139 E 0.0044 0.9380 0.0576 140 E 0.0048 0.9469 0.0483 141 I 0.0044 0.9544 0.0412 142 Q 0.0045 0.9542 0.0413 143 K 0.0044 0.9542 0.0413 144 L 0.0044 0.9547 0.0409 145 T 0.0045 0.9570 0.0385 146 S 0.0044 0.9575 0.0381 147 A 0.0044 0.9578 0.0378 148 L 0.0048 0.9531 0.0421 149 L 0.0052 0.9428 0.0520 150 K 0.0072 0.9026 0.0902 151 S 0.0403 0.4581 0.5016 152 G 0.0332 0.0525 0.9143 153 A 0.0641 0.0299 0.9060 154 S 0.1070 0.1266 0.7664 155 I 0.0167 0.8629 0.1205 156 E 0.0126 0.9104 0.0770 157 E 0.0166 0.9285 0.0550 158 I 0.0115 0.9338 0.0547 159 N 0.0057 0.9528 0.0415 160 T 0.0060 0.9500 0.0440 161 V 0.0053 0.9460 0.0487 162 R 0.0055 0.9371 0.0574 163 K 0.0054 0.9292 0.0654 164 H 0.0066 0.8879 0.1055 165 L 0.0125 0.7869 0.2007 166 S 0.0095 0.6823 0.3082 167 Q 0.0132 0.5427 0.4441 168 V 0.0503 0.3321 0.6175 169 K 0.0571 0.2164 0.7266 170 G 0.0405 0.4154 0.5441 171 G 0.0305 0.7388 0.2307 172 R 0.0176 0.8875 0.0949 173 F 0.0102 0.9186 0.0712 174 A 0.0079 0.9159 0.0763 175 E 0.0082 0.8926 0.0992 176 R 0.0087 0.8045 0.1868 177 V 0.0313 0.6405 0.3283 178 F 0.0664 0.3184 0.6151 179 P 0.0731 0.1460 0.7809 180 A 0.1463 0.0485 0.8052 181 K 0.2959 0.0286 0.6755 182 V 0.8529 0.0048 0.1423 183 V 0.8916 0.0071 0.1014 184 A 0.9244 0.0043 0.0713 185 L 0.9270 0.0039 0.0691 186 V 0.9191 0.0042 0.0767 187 L 0.8389 0.0156 0.1454 188 S 0.6817 0.0171 0.3012 189 D 0.3528 0.0497 0.5975 190 V 0.2084 0.0304 0.7612 191 L 0.0941 0.0606 0.8453 192 G 0.0659 0.0407 0.8933 193 D 0.1237 0.0264 0.8500 194 R 0.1125 0.0800 0.8075 195 L 0.0494 0.6907 0.2599 196 D 0.0391 0.7501 0.2108 197 V 0.1281 0.6932 0.1787 198 I 0.2805 0.4582 0.2613 199 A 0.3069 0.3137 0.3794 200 S 0.3032 0.1899 0.5069 201 G 0.1656 0.0609 0.7735 202 P 0.1379 0.0964 0.7657 203 A 0.1921 0.0875 0.7205 204 W 0.1478 0.0451 0.8071 205 P 0.1070 0.0334 0.8596 206 D 0.0948 0.0378 0.8674 207 S 0.0203 0.2335 0.7462 208 S 0.0383 0.2310 0.7307 209 T 0.0677 0.2260 0.7063 210 S 0.0073 0.8131 0.1796 211 E 0.0056 0.8418 0.1525 212 D 0.0068 0.8779 0.1153 213 A 0.0044 0.9522 0.0434 214 L 0.0044 0.9586 0.0370 215 K 0.0044 0.9584 0.0372 216 V 0.0044 0.9592 0.0364 217 L 0.0045 0.9553 0.0403 218 E 0.0048 0.9423 0.0528 219 K 0.0069 0.8741 0.1190 220 Y 0.0424 0.5577 0.3999 221 G 0.0347 0.1039 0.8615 222 I 0.0572 0.0873 0.8555 223 E 0.0901 0.0845 0.8253 224 T 0.0868 0.0304 0.8828 225 S 0.0768 0.0465 0.8767 226 E 0.0140 0.7555 0.2306 227 S 0.0186 0.8090 0.1724 228 V 0.0245 0.8483 0.1272 229 K 0.0340 0.8380 0.1280 230 R 0.0536 0.7941 0.1524 231 A 0.0663 0.7240 0.2097 232 I 0.0846 0.5814 0.3341 233 L 0.0866 0.3515 0.5619 234 Q 0.0853 0.1408 0.7739 235 E 0.0741 0.0949 0.8310 236 T 0.0721 0.0747 0.8533 237 P 0.0772 0.1331 0.7897 238 K 0.0503 0.3054 0.6443 239 H 0.0851 0.2814 0.6335 240 L 0.1546 0.2276 0.6178 241 S 0.1179 0.2093 0.6727 242 N 0.1777 0.1268 0.6954 243 V 0.4693 0.0326 0.4981 244 E 0.6303 0.0163 0.3534 245 I 0.8649 0.0072 0.1280 246 H 0.9084 0.0056 0.0860 247 L 0.9163 0.0048 0.0789 248 I 0.8836 0.0063 0.1101 249 G 0.6217 0.0238 0.3544 250 N 0.1930 0.0391 0.7680 251 V 0.0361 0.4786 0.4853 252 Q 0.0104 0.8323 0.1573 253 K 0.0079 0.9108 0.0814 254 V 0.0059 0.9336 0.0605 255 C 0.0047 0.9502 0.0450 256 D 0.0048 0.9540 0.0412 257 E 0.0044 0.9574 0.0381 258 A 0.0044 0.9553 0.0403 259 K 0.0045 0.9573 0.0382 260 S 0.0045 0.9561 0.0394 261 L 0.0045 0.9556 0.0399 262 A 0.0048 0.9522 0.0430 263 K 0.0049 0.9392 0.0560 264 E 0.0065 0.8827 0.1107 265 K 0.0418 0.4042 0.5540 266 G 0.0332 0.0287 0.9381 267 F 0.0769 0.0178 0.9053 268 N 0.2813 0.0195 0.6992 269 A 0.8424 0.0123 0.1454 270 E 0.9113 0.0087 0.0800 271 I 0.9179 0.0073 0.0748 272 I 0.8401 0.0282 0.1317 273 T 0.4621 0.0799 0.4580 274 T 0.1077 0.2822 0.6102 275 S 0.1044 0.3690 0.5267 276 L 0.1077 0.4337 0.4586 277 D 0.0832 0.5233 0.3935 278 C 0.0731 0.5760 0.3509 279 E 0.0667 0.7368 0.1966 280 A 0.0107 0.9092 0.0801 281 R 0.0064 0.9110 0.0827 282 E 0.0058 0.9188 0.0754 283 A 0.0046 0.9254 0.0700 284 G 0.0045 0.9453 0.0502 285 R 0.0045 0.9542 0.0413 286 F 0.0045 0.9548 0.0407 287 I 0.0044 0.9569 0.0387 288 A 0.0044 0.9576 0.0380 289 S 0.0044 0.9592 0.0365 290 I 0.0044 0.9588 0.0368 291 M 0.0044 0.9572 0.0384 292 K 0.0044 0.9568 0.0388 293 E 0.0044 0.9543 0.0412 294 V 0.0047 0.9481 0.0472 295 K 0.0054 0.9229 0.0717 296 F 0.0067 0.8325 0.1608 297 K 0.0423 0.3915 0.5662 298 D 0.0405 0.0381 0.9214 299 R 0.0800 0.0191 0.9009 300 P 0.1486 0.0225 0.8288 301 L 0.1413 0.0341 0.8247 302 K 0.0829 0.0259 0.8912 303 K 0.0930 0.0207 0.8862 304 P 0.3313 0.0085 0.6602 305 A 0.8726 0.0043 0.1230 306 A 0.9163 0.0038 0.0799 307 L 0.9251 0.0037 0.0713 308 I 0.8687 0.0084 0.1229 309 F 0.6225 0.0142 0.3632 310 G 0.1894 0.0300 0.7806 311 G 0.1146 0.0376 0.8478 312 E 0.3276 0.0317 0.6408 313 T 0.5666 0.0234 0.4099 314 V 0.7508 0.0134 0.2358 315 V 0.8756 0.0062 0.1182 316 H 0.8872 0.0043 0.1084 317 V 0.7981 0.0085 0.1934 318 K 0.5606 0.0291 0.4104 319 G 0.2611 0.0449 0.6940 320 N 0.1333 0.0390 0.8277 321 G 0.1255 0.0360 0.8385 322 I 0.0845 0.0639 0.8517 323 G 0.0628 0.0690 0.8682 324 G 0.0646 0.1455 0.7899 325 R 0.0564 0.4589 0.4847 326 N 0.0401 0.7345 0.2254 327 Q 0.0104 0.9173 0.0723 328 E 0.0089 0.9406 0.0506 329 L 0.0079 0.9471 0.0450 330 A 0.0051 0.9559 0.0390 331 L 0.0051 0.9556 0.0393 332 S 0.0044 0.9542 0.0414 333 A 0.0045 0.9510 0.0446 334 A 0.0045 0.9513 0.0442 335 I 0.0048 0.9402 0.0550 336 A 0.0058 0.9041 0.0901 337 L 0.0112 0.8410 0.1479 338 E 0.0123 0.5619 0.4258 339 G 0.0289 0.2015 0.7696 340 I 0.0669 0.0718 0.8614 341 E 0.0338 0.1140 0.8522 342 G 0.0564 0.0608 0.8828 343 V 0.5341 0.0160 0.4500 344 I 0.8323 0.0162 0.1515 345 L 0.9118 0.0071 0.0811 346 C 0.9042 0.0086 0.0872 347 S 0.8487 0.0112 0.1400 348 A 0.6405 0.0366 0.3228 349 G 0.3246 0.0470 0.6285 350 T 0.1828 0.0643 0.7529 351 D 0.1474 0.0624 0.7902 352 G 0.1240 0.0505 0.8255 353 T 0.1651 0.0443 0.7907 354 D 0.1557 0.0422 0.8022 355 G 0.0891 0.0656 0.8452 356 P 0.0999 0.1506 0.7495 357 T 0.1030 0.2191 0.6779 358 D 0.0988 0.3332 0.5680 359 A 0.1894 0.2940 0.5166 360 A 0.1932 0.1632 0.6435 361 G 0.2665 0.0765 0.6570 362 G 0.5490 0.0462 0.4048 363 I 0.7212 0.0272 0.2515 364 V 0.5425 0.0252 0.4322 365 D 0.1960 0.0224 0.7817 366 G 0.0143 0.5405 0.4452 367 S 0.0118 0.6643 0.3239 368 T 0.0118 0.8169 0.1713 369 A 0.0048 0.9371 0.0580 370 K 0.0045 0.9442 0.0513 371 T 0.0044 0.9470 0.0485 372 L 0.0045 0.9422 0.0533 373 K 0.0049 0.9254 0.0696 374 A 0.0053 0.8158 0.1789 375 M 0.0385 0.3535 0.6080 376 G 0.0399 0.0614 0.8986 377 E 0.0587 0.0479 0.8934 378 D 0.1002 0.0424 0.8574 379 P 0.0073 0.8856 0.1071 380 Y 0.0066 0.9283 0.0651 381 Q 0.0057 0.9345 0.0597 382 Y 0.0056 0.9276 0.0667 383 L 0.0105 0.8729 0.1167 384 K 0.0094 0.7205 0.2701 385 N 0.0197 0.5615 0.4188 386 N 0.0577 0.2931 0.6493 387 D 0.0901 0.2108 0.6992 388 S 0.0260 0.7301 0.2440 389 Y 0.0063 0.9199 0.0738 390 N 0.0060 0.9375 0.0566 391 A 0.0051 0.9428 0.0521 392 L 0.0053 0.9413 0.0533 393 K 0.0061 0.9195 0.0744 394 K 0.0092 0.8178 0.1731 395 S 0.0487 0.6003 0.3510 396 G 0.0262 0.3949 0.5788 397 A 0.0715 0.3313 0.5973 398 L 0.3244 0.3155 0.3601 399 L 0.5723 0.1360 0.2917 400 I 0.5739 0.0756 0.3505 401 T 0.4392 0.0666 0.4942 402 G 0.1341 0.0361 0.8298 403 P 0.0829 0.0739 0.8433 404 T 0.0983 0.0692 0.8325 405 G 0.0995 0.0750 0.8255 406 T 0.1788 0.0636 0.7575 407 N 0.3150 0.0691 0.6159 408 V 0.2895 0.1439 0.5666 409 N 0.2881 0.1127 0.5993 410 D 0.6289 0.0551 0.3161 411 L 0.7948 0.0308 0.1745 412 I 0.8539 0.0324 0.1137 413 I 0.8935 0.0164 0.0901 414 G 0.8983 0.0122 0.0895 415 L 0.8709 0.0134 0.1157 416 I 0.7196 0.0122 0.2682 417 V 0.0902 0.0223 0.8875