# This file is the result of combining several RDB files, specifically # T0316.t06.dssp-ebghstl.rdb (weight 1.53986) # T0316.t06.stride-ebghtl.rdb (weight 1.24869) # T0316.t06.str2.rdb (weight 1.54758) # T0316.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 T0316.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0316 # 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 T0316.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 2242 # # ============================================ # Comments from T0316.t06.stride-ebghtl.rdb # ============================================ # TARGET T0316 # 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 T0316.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 2242 # # ============================================ # Comments from T0316.t06.str2.rdb # ============================================ # TARGET T0316 # 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 T0316.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 2242 # # ============================================ # Comments from T0316.t06.alpha.rdb # ============================================ # TARGET T0316 # 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 T0316.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 2242 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0712 0.0235 0.9053 2 S 0.0846 0.0330 0.8824 3 D 0.0679 0.0921 0.8401 4 N 0.0466 0.1676 0.7858 5 S 0.0455 0.1980 0.7565 6 K 0.0823 0.0700 0.8477 7 T 0.2213 0.0210 0.7576 8 R 0.7606 0.0048 0.2346 9 V 0.9183 0.0035 0.0782 10 V 0.9333 0.0032 0.0635 11 V 0.9317 0.0033 0.0650 12 G 0.9230 0.0043 0.0727 13 M 0.8713 0.0080 0.1207 14 S 0.5179 0.0187 0.4633 15 G 0.1154 0.0314 0.8532 16 G 0.0692 0.0733 0.8576 17 V 0.0481 0.4197 0.5322 18 D 0.0238 0.6701 0.3061 19 S 0.0062 0.9251 0.0687 20 S 0.0052 0.9544 0.0404 21 V 0.0047 0.9598 0.0355 22 T 0.0049 0.9602 0.0349 23 A 0.0047 0.9608 0.0346 24 L 0.0047 0.9609 0.0345 25 L 0.0046 0.9608 0.0346 26 L 0.0047 0.9600 0.0354 27 K 0.0048 0.9538 0.0414 28 E 0.0057 0.9079 0.0863 29 Q 0.0414 0.4063 0.5523 30 G 0.0357 0.0221 0.9422 31 Y 0.0720 0.0125 0.9156 32 D 0.3391 0.0108 0.6502 33 V 0.7768 0.0038 0.2195 34 I 0.8467 0.0142 0.1391 35 G 0.9247 0.0037 0.0716 36 I 0.9273 0.0035 0.0692 37 F 0.9232 0.0034 0.0734 38 M 0.8796 0.0050 0.1154 39 K 0.7164 0.0236 0.2600 40 N 0.5949 0.0168 0.3883 41 W 0.3771 0.0364 0.5865 42 D 0.2915 0.0423 0.6661 43 D 0.1566 0.1217 0.7217 44 T 0.1238 0.1002 0.7761 45 D 0.0826 0.1172 0.8002 46 E 0.0592 0.1475 0.7933 47 N 0.1115 0.1031 0.7854 48 G 0.1101 0.0833 0.8067 49 V 0.2064 0.0976 0.6960 50 C 0.2376 0.0933 0.6691 51 T 0.1365 0.0939 0.7697 52 A 0.0768 0.1532 0.7700 53 T 0.0348 0.5754 0.3898 54 E 0.0390 0.6526 0.3084 55 D 0.0423 0.6683 0.2894 56 Y 0.0064 0.9135 0.0801 57 K 0.0052 0.9334 0.0615 58 D 0.0049 0.9421 0.0531 59 V 0.0047 0.9557 0.0396 60 V 0.0047 0.9609 0.0344 61 A 0.0047 0.9603 0.0351 62 V 0.0047 0.9605 0.0348 63 A 0.0047 0.9600 0.0354 64 D 0.0048 0.9522 0.0431 65 Q 0.0054 0.9267 0.0679 66 I 0.0442 0.4654 0.4904 67 G 0.0435 0.0153 0.9413 68 I 0.0638 0.0078 0.9284 69 P 0.2743 0.0145 0.7113 70 Y 0.8523 0.0055 0.1422 71 Y 0.9137 0.0045 0.0818 72 S 0.9227 0.0040 0.0734 73 V 0.8575 0.0096 0.1330 74 N 0.5518 0.0071 0.4411 75 F 0.1139 0.2059 0.6802 76 E 0.0351 0.4711 0.4938 77 K 0.0099 0.8339 0.1562 78 E 0.0101 0.8662 0.1237 79 Y 0.0107 0.8712 0.1181 80 W 0.0088 0.8970 0.0941 81 D 0.0077 0.9050 0.0873 82 R 0.0093 0.8874 0.1033 83 V 0.0136 0.8887 0.0978 84 F 0.0174 0.8918 0.0908 85 E 0.0072 0.9428 0.0501 86 Y 0.0050 0.9530 0.0420 87 F 0.0048 0.9521 0.0431 88 L 0.0052 0.9489 0.0458 89 A 0.0060 0.9400 0.0540 90 E 0.0060 0.9328 0.0612 91 Y 0.0086 0.9112 0.0802 92 R 0.0140 0.8589 0.1271 93 A 0.0406 0.4647 0.4947 94 G 0.0289 0.0878 0.8833 95 R 0.0740 0.0393 0.8867 96 T 0.1220 0.0195 0.8584 97 P 0.1169 0.0354 0.8477 98 N 0.1179 0.0253 0.8568 99 P 0.0460 0.2337 0.7203 100 D 0.0700 0.3156 0.6144 101 V 0.0666 0.5345 0.3989 102 M 0.0773 0.4849 0.4378 103 C 0.0589 0.4990 0.4421 104 N 0.0334 0.4689 0.4977 105 K 0.0111 0.7886 0.2003 106 E 0.0139 0.8449 0.1412 107 I 0.0303 0.8414 0.1283 108 K 0.0274 0.8386 0.1340 109 F 0.0072 0.9375 0.0553 110 K 0.0053 0.9522 0.0426 111 A 0.0048 0.9566 0.0386 112 F 0.0047 0.9579 0.0374 113 L 0.0047 0.9607 0.0346 114 D 0.0047 0.9599 0.0355 115 Y 0.0047 0.9596 0.0357 116 A 0.0047 0.9597 0.0356 117 I 0.0048 0.9525 0.0427 118 T 0.0052 0.9290 0.0658 119 L 0.0432 0.4479 0.5089 120 G 0.0537 0.0113 0.9350 121 A 0.0849 0.0072 0.9080 122 D 0.1018 0.0509 0.8473 123 Y 0.8996 0.0051 0.0953 124 V 0.9285 0.0041 0.0673 125 A 0.9168 0.0071 0.0761 126 T 0.8462 0.0174 0.1364 127 G 0.5050 0.0319 0.4631 128 H 0.3591 0.0688 0.5720 129 Y 0.2747 0.1261 0.5992 130 A 0.2263 0.2903 0.4834 131 R 0.2035 0.3763 0.4202 132 V 0.2240 0.3963 0.3797 133 A 0.2433 0.3407 0.4160 134 R 0.1937 0.2655 0.5407 135 D 0.1102 0.1971 0.6927 136 E 0.0769 0.1513 0.7718 137 D 0.0999 0.0883 0.8118 138 G 0.1203 0.1126 0.7671 139 T 0.3415 0.1388 0.5198 140 V 0.6220 0.1119 0.2661 141 H 0.6921 0.0978 0.2101 142 M 0.6920 0.1317 0.1763 143 L 0.6369 0.1534 0.2097 144 R 0.4926 0.1733 0.3342 145 G 0.2878 0.1443 0.5680 146 V 0.1985 0.1829 0.6187 147 D 0.1311 0.1825 0.6864 148 N 0.0641 0.2184 0.7174 149 G 0.0510 0.1646 0.7844 150 K 0.0454 0.1913 0.7633 151 D 0.0696 0.3387 0.5917 152 Q 0.0748 0.4627 0.4626 153 T 0.0900 0.5648 0.3453 154 Y 0.0859 0.6069 0.3071 155 F 0.0977 0.5926 0.3098 156 L 0.1194 0.4853 0.3953 157 S 0.0883 0.5043 0.4074 158 Q 0.0482 0.5880 0.3638 159 L 0.0621 0.5077 0.4302 160 S 0.0647 0.4021 0.5332 161 Q 0.0077 0.8861 0.1062 162 E 0.0073 0.8860 0.1067 163 Q 0.0097 0.8752 0.1151 164 L 0.0182 0.8372 0.1446 165 Q 0.0325 0.7646 0.2029 166 K 0.0778 0.6719 0.2503 167 T 0.1227 0.5844 0.2929 168 M 0.2334 0.3793 0.3874 169 F 0.2237 0.2713 0.5049 170 P 0.1706 0.2865 0.5429 171 L 0.0648 0.4637 0.4716 172 G 0.0404 0.3720 0.5877 173 H 0.0413 0.2641 0.6946 174 L 0.0938 0.0499 0.8563 175 E 0.0554 0.0302 0.9143 176 K 0.0070 0.9220 0.0710 177 P 0.0047 0.9561 0.0392 178 E 0.0047 0.9598 0.0355 179 V 0.0047 0.9608 0.0345 180 R 0.0046 0.9610 0.0343 181 R 0.0046 0.9611 0.0343 182 L 0.0046 0.9615 0.0339 183 A 0.0046 0.9610 0.0344 184 E 0.0048 0.9554 0.0398 185 E 0.0055 0.9361 0.0584 186 A 0.0432 0.4692 0.4876 187 G 0.0432 0.0152 0.9416 188 L 0.0644 0.0081 0.9275 189 S 0.1128 0.0360 0.8511 190 T 0.3091 0.1282 0.5627 191 A 0.2463 0.1770 0.5767 192 K 0.2257 0.1709 0.6034 193 K 0.1757 0.0566 0.7678 194 K 0.0992 0.1001 0.8007 195 D 0.1066 0.0767 0.8167 196 S 0.1184 0.1008 0.7808 197 T 0.1035 0.1402 0.7562 198 G 0.1386 0.1286 0.7328 199 I 0.2224 0.1666 0.6110 200 C 0.3302 0.1692 0.5007 201 F 0.3151 0.2025 0.4824 202 I 0.2372 0.1905 0.5723 203 G 0.1353 0.1832 0.6815 204 E 0.0766 0.4403 0.4831 205 K 0.0731 0.5697 0.3572 206 N 0.0756 0.6278 0.2965 207 F 0.0347 0.7953 0.1700 208 K 0.0228 0.8291 0.1481 209 N 0.0210 0.8036 0.1755 210 F 0.0216 0.8196 0.1588 211 L 0.0334 0.7628 0.2037 212 S 0.0150 0.7626 0.2224 213 N 0.0160 0.6700 0.3140 214 Y 0.0329 0.5730 0.3941 215 L 0.0636 0.2830 0.6534 216 P 0.0513 0.2362 0.7125 217 A 0.0733 0.1589 0.7678 218 Q 0.0754 0.0338 0.8909 219 P 0.0393 0.1009 0.8599 220 G 0.0442 0.0752 0.8806 221 R 0.2296 0.0579 0.7125 222 M 0.4947 0.0343 0.4711 223 M 0.5714 0.0436 0.3849 224 T 0.5166 0.0247 0.4587 225 V 0.3383 0.1795 0.4822 226 D 0.1857 0.1246 0.6897 227 G 0.2234 0.0992 0.6774 228 R 0.4943 0.0668 0.4389 229 D 0.7218 0.0483 0.2299 230 M 0.6405 0.1005 0.2590 231 G 0.5715 0.1099 0.3186 232 E 0.5153 0.1908 0.2939 233 H 0.4640 0.1942 0.3417 234 A 0.1586 0.1189 0.7225 235 G 0.1168 0.0369 0.8463 236 L 0.4626 0.0221 0.5153 237 M 0.7822 0.0142 0.2036 238 Y 0.8222 0.0261 0.1517 239 Y 0.8287 0.0249 0.1464 240 T 0.7848 0.0400 0.1752 241 I 0.6047 0.0682 0.3271 242 G 0.3401 0.0569 0.6030 243 Q 0.4311 0.0738 0.4951 244 R 0.4417 0.0890 0.4693 245 G 0.2445 0.0840 0.6715 246 G 0.2038 0.0832 0.7130 247 L 0.3327 0.0969 0.5703 248 G 0.4784 0.0983 0.4233 249 I 0.5296 0.1237 0.3468 250 G 0.4681 0.1303 0.4015 251 G 0.3986 0.1506 0.4508 252 Q 0.3650 0.1453 0.4896 253 H 0.2415 0.1481 0.6104 254 G 0.0913 0.0661 0.8426 255 G 0.0662 0.0847 0.8491 256 D 0.0926 0.0847 0.8227 257 N 0.0798 0.0768 0.8434 258 A 0.1023 0.0326 0.8651 259 P 0.2060 0.0529 0.7411 260 W 0.4614 0.0551 0.4834 261 F 0.7756 0.0264 0.1980 262 V 0.8509 0.0209 0.1282 263 V 0.8167 0.0342 0.1491 264 G 0.7422 0.0293 0.2286 265 K 0.6810 0.0367 0.2823 266 D 0.5707 0.0234 0.4059 267 L 0.1338 0.3545 0.5118 268 S 0.1993 0.3077 0.4930 269 K 0.1140 0.1692 0.7167 270 N 0.1910 0.0322 0.7768 271 I 0.7847 0.0083 0.2070 272 L 0.9197 0.0038 0.0764 273 Y 0.9170 0.0055 0.0775 274 V 0.8655 0.0117 0.1227 275 G 0.6527 0.0166 0.3307 276 Q 0.3711 0.0478 0.5810 277 G 0.1973 0.0573 0.7454 278 F 0.1456 0.0913 0.7632 279 Y 0.1342 0.1108 0.7550 280 H 0.0746 0.1554 0.7700 281 D 0.0170 0.6111 0.3719 282 S 0.0189 0.6783 0.3028 283 L 0.0344 0.7526 0.2131 284 M 0.0463 0.7996 0.1540 285 S 0.0574 0.8096 0.1331 286 T 0.0469 0.8376 0.1155 287 S 0.0361 0.8711 0.0928 288 L 0.0491 0.8478 0.1032 289 E 0.0603 0.8025 0.1372 290 A 0.0604 0.7537 0.1858 291 S 0.0504 0.6844 0.2653 292 Q 0.0724 0.6059 0.3217 293 V 0.1417 0.5681 0.2901 294 H 0.1136 0.5894 0.2970 295 F 0.1881 0.5041 0.3077 296 T 0.3084 0.3370 0.3546 297 R 0.3182 0.2021 0.4797 298 E 0.1740 0.1086 0.7174 299 M 0.0991 0.0330 0.8679 300 P 0.0562 0.1690 0.7749 301 E 0.0341 0.3690 0.5969 302 E 0.0494 0.3998 0.5508 303 F 0.1558 0.1871 0.6571 304 T 0.2573 0.1133 0.6294 305 L 0.4520 0.1040 0.4440 306 E 0.6285 0.0840 0.2876 307 C 0.7213 0.0679 0.2108 308 T 0.7778 0.0564 0.1658 309 A 0.8114 0.0439 0.1447 310 K 0.8178 0.0464 0.1358 311 F 0.7898 0.0486 0.1617 312 R 0.7303 0.0581 0.2115 313 Y 0.6134 0.0487 0.3378 314 R 0.3942 0.0431 0.5627 315 Q 0.1797 0.0211 0.7991 316 P 0.1035 0.0487 0.8478 317 D 0.1308 0.0706 0.7986 318 S 0.3271 0.0419 0.6310 319 K 0.4475 0.0155 0.5369 320 V 0.7568 0.0050 0.2381 321 T 0.9066 0.0036 0.0897 322 V 0.9207 0.0034 0.0759 323 H 0.8931 0.0047 0.1022 324 V 0.8029 0.0105 0.1865 325 K 0.3939 0.0496 0.5565 326 G 0.0888 0.0506 0.8606 327 E 0.1183 0.0710 0.8107 328 K 0.5935 0.0284 0.3781 329 T 0.8598 0.0060 0.1342 330 E 0.8929 0.0067 0.1003 331 V 0.9235 0.0046 0.0719 332 I 0.9078 0.0076 0.0846 333 F 0.8686 0.0086 0.1228 334 A 0.5843 0.0484 0.3673 335 E 0.3350 0.0886 0.5763 336 P 0.2242 0.1954 0.5805 337 Q 0.2389 0.3025 0.4586 338 R 0.3248 0.2549 0.4203 339 A 0.4563 0.1548 0.3888 340 I 0.4219 0.0723 0.5058 341 T 0.1851 0.0213 0.7936 342 P 0.0461 0.0712 0.8827 343 G 0.0757 0.0293 0.8950 344 Q 0.5532 0.0092 0.4376 345 A 0.8950 0.0035 0.1015 346 V 0.9296 0.0033 0.0671 347 V 0.9300 0.0033 0.0668 348 F 0.9141 0.0043 0.0816 349 Y 0.7858 0.0085 0.2057 350 D 0.2385 0.0215 0.7400 351 G 0.0659 0.0395 0.8947 352 E 0.3262 0.0492 0.6245 353 E 0.8359 0.0104 0.1537 354 C 0.8830 0.0072 0.1099 355 L 0.7853 0.0293 0.1854 356 G 0.6085 0.0324 0.3591 357 G 0.4947 0.0465 0.4588 358 G 0.5945 0.0500 0.3556 359 L 0.7426 0.0534 0.2041 360 I 0.6573 0.0876 0.2551 361 D 0.4315 0.1958 0.3727 362 N 0.2320 0.2591 0.5089 363 A 0.2410 0.2603 0.4987 364 Y 0.2141 0.1890 0.5969 365 R 0.1616 0.1695 0.6689 366 D 0.1133 0.1142 0.7725 367 G 0.0651 0.1497 0.7852 368 Q 0.1771 0.1356 0.6874 369 V 0.4807 0.1208 0.3985 370 C 0.5574 0.0776 0.3650 371 Q 0.6454 0.0732 0.2814 372 Y 0.5455 0.0671 0.3874 373 I 0.2265 0.0458 0.7276