# This file is the result of combining several RDB files, specifically # T0247.t04.dssp-ebghstl.rdb (weight 1.53986) # T0247.t04.stride-ebghtl.rdb (weight 1.24869) # T0247.t04.str2.rdb (weight 1.54758) # T0247.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 T0247.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0247 # 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 T0247.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 394 # # ============================================ # Comments from T0247.t04.stride-ebghtl.rdb # ============================================ # TARGET T0247 # 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 T0247.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 394 # # ============================================ # Comments from T0247.t04.str2.rdb # ============================================ # TARGET T0247 # 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 T0247.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 394 # # ============================================ # Comments from T0247.t04.alpha.rdb # ============================================ # TARGET T0247 # 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 T0247.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 394 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0704 0.1211 0.8085 2 A 0.1102 0.1928 0.6970 3 Q 0.1195 0.1777 0.7028 4 Q 0.1396 0.1630 0.6974 5 T 0.0961 0.0630 0.8409 6 P 0.0697 0.2650 0.6652 7 L 0.0494 0.4974 0.4533 8 Y 0.0242 0.7871 0.1887 9 E 0.0096 0.9026 0.0878 10 Q 0.0085 0.9222 0.0694 11 H 0.0123 0.9160 0.0717 12 T 0.0104 0.9078 0.0818 13 L 0.0124 0.8366 0.1510 14 C 0.0450 0.3170 0.6380 15 G 0.0524 0.0306 0.9170 16 A 0.2147 0.0383 0.7470 17 R 0.7553 0.0355 0.2093 18 M 0.8238 0.0361 0.1400 19 V 0.7913 0.0381 0.1707 20 D 0.7001 0.0483 0.2517 21 F 0.4224 0.1076 0.4700 22 H 0.1801 0.1070 0.7129 23 G 0.1058 0.0722 0.8220 24 W 0.2140 0.0728 0.7132 25 M 0.2877 0.0748 0.6375 26 M 0.2590 0.0494 0.6916 27 P 0.2703 0.1184 0.6113 28 L 0.2977 0.1890 0.5132 29 H 0.3588 0.1697 0.4715 30 Y 0.2480 0.1190 0.6330 31 G 0.0894 0.1263 0.7843 32 S 0.0636 0.1456 0.7909 33 Q 0.0477 0.5380 0.4143 34 I 0.0251 0.8091 0.1658 35 D 0.0195 0.8597 0.1207 36 E 0.0224 0.8793 0.0983 37 H 0.0272 0.8857 0.0871 38 H 0.0222 0.8709 0.1069 39 A 0.0375 0.8127 0.1497 40 V 0.0652 0.7322 0.2026 41 R 0.1007 0.6011 0.2982 42 T 0.0647 0.4689 0.4664 43 D 0.0819 0.2097 0.7085 44 A 0.1925 0.1368 0.6707 45 G 0.4563 0.0819 0.4618 46 M 0.7777 0.0457 0.1765 47 F 0.7869 0.0232 0.1899 48 D 0.6502 0.0158 0.3340 49 V 0.2277 0.1788 0.5935 50 S 0.1057 0.1710 0.7233 51 H 0.0746 0.1670 0.7584 52 M 0.2374 0.0520 0.7107 53 T 0.6072 0.0132 0.3796 54 I 0.8947 0.0053 0.1000 55 V 0.8989 0.0053 0.0959 56 D 0.9134 0.0041 0.0825 57 L 0.8643 0.0072 0.1284 58 R 0.5467 0.0360 0.4173 59 G 0.1590 0.0750 0.7660 60 S 0.0375 0.4517 0.5108 61 R 0.0365 0.5910 0.3725 62 T 0.0077 0.9157 0.0766 63 R 0.0071 0.9386 0.0543 64 E 0.0053 0.9522 0.0425 65 F 0.0050 0.9539 0.0411 66 L 0.0048 0.9482 0.0470 67 R 0.0049 0.9287 0.0665 68 Y 0.0056 0.8654 0.1290 69 L 0.0103 0.8099 0.1797 70 L 0.0347 0.6349 0.3303 71 A 0.0387 0.6203 0.3410 72 N 0.0378 0.4993 0.4629 73 D 0.0712 0.4289 0.4999 74 V 0.0329 0.7115 0.2556 75 A 0.0252 0.7361 0.2387 76 K 0.0352 0.6766 0.2881 77 L 0.0914 0.4206 0.4880 78 T 0.0738 0.2186 0.7076 79 K 0.0655 0.1488 0.7857 80 S 0.0443 0.1297 0.8260 81 G 0.0601 0.0650 0.8749 82 K 0.3854 0.0506 0.5640 83 A 0.8276 0.0104 0.1621 84 L 0.8728 0.0156 0.1115 85 Y 0.8912 0.0109 0.0979 86 S 0.8737 0.0166 0.1097 87 G 0.8692 0.0180 0.1128 88 M 0.8647 0.0136 0.1217 89 L 0.7826 0.0186 0.1988 90 N 0.2675 0.0219 0.7105 91 A 0.0217 0.1536 0.8247 92 S 0.0486 0.0566 0.8947 93 G 0.0752 0.0550 0.8698 94 G 0.2012 0.0206 0.7782 95 V 0.7414 0.0111 0.2475 96 I 0.7270 0.0297 0.2433 97 D 0.6663 0.0515 0.2822 98 D 0.7034 0.0245 0.2721 99 L 0.8642 0.0067 0.1291 100 I 0.9229 0.0038 0.0733 101 V 0.9229 0.0042 0.0729 102 Y 0.8903 0.0079 0.1018 103 Y 0.8284 0.0067 0.1648 104 F 0.5589 0.0194 0.4217 105 T 0.2809 0.0280 0.6911 106 E 0.0466 0.1368 0.8166 107 D 0.0645 0.0848 0.8507 108 F 0.6796 0.0323 0.2881 109 F 0.8919 0.0038 0.1042 110 R 0.9251 0.0040 0.0709 111 L 0.9255 0.0038 0.0706 112 V 0.9031 0.0048 0.0921 113 V 0.7466 0.0156 0.2379 114 N 0.2338 0.0353 0.7309 115 S 0.0314 0.4367 0.5319 116 A 0.0230 0.5346 0.4423 117 T 0.0280 0.5784 0.3936 118 R 0.0161 0.7791 0.2048 119 E 0.0098 0.8871 0.1031 120 K 0.0077 0.8924 0.0999 121 D 0.0076 0.9024 0.0900 122 L 0.0048 0.9516 0.0436 123 S 0.0047 0.9570 0.0383 124 W 0.0048 0.9545 0.0408 125 I 0.0050 0.9443 0.0507 126 T 0.0055 0.9250 0.0695 127 Q 0.0086 0.8323 0.1591 128 H 0.0183 0.7322 0.2494 129 A 0.0697 0.3622 0.5680 130 E 0.0422 0.2811 0.6767 131 P 0.0525 0.2512 0.6963 132 F 0.0711 0.1016 0.8273 133 G 0.1404 0.0336 0.8260 134 I 0.5841 0.0065 0.4094 135 E 0.8707 0.0039 0.1254 136 I 0.8424 0.0040 0.1536 137 T 0.6603 0.0059 0.3338 138 V 0.4357 0.0623 0.5020 139 R 0.1625 0.1343 0.7031 140 D 0.0649 0.2905 0.6446 141 D 0.1285 0.2702 0.6013 142 L 0.4845 0.2285 0.2871 143 S 0.7089 0.1422 0.1489 144 M 0.7685 0.1455 0.0860 145 I 0.6991 0.2130 0.0879 146 A 0.6506 0.2458 0.1035 147 V 0.5398 0.2595 0.2007 148 Q 0.2801 0.2099 0.5099 149 G 0.0611 0.0524 0.8865 150 P 0.0199 0.5141 0.4660 151 N 0.0281 0.5183 0.4537 152 A 0.0109 0.8707 0.1184 153 Q 0.0066 0.9346 0.0587 154 A 0.0052 0.9504 0.0444 155 K 0.0052 0.9494 0.0453 156 A 0.0050 0.9437 0.0513 157 A 0.0049 0.9313 0.0638 158 T 0.0054 0.8883 0.1064 159 L 0.0087 0.8355 0.1558 160 F 0.0297 0.6255 0.3447 161 N 0.0268 0.5323 0.4409 162 D 0.0197 0.5654 0.4149 163 A 0.0217 0.6698 0.3085 164 Q 0.0193 0.7174 0.2632 165 R 0.0125 0.7670 0.2205 166 Q 0.0181 0.7030 0.2789 167 A 0.0462 0.5727 0.3811 168 V 0.0686 0.3330 0.5984 169 E 0.0458 0.2852 0.6690 170 G 0.0574 0.1553 0.7873 171 M 0.1659 0.0912 0.7428 172 K 0.1891 0.0500 0.7609 173 P 0.2998 0.0841 0.6160 174 F 0.4835 0.0984 0.4182 175 F 0.6282 0.0560 0.3158 176 G 0.6499 0.0387 0.3114 177 V 0.5938 0.0604 0.3458 178 Q 0.4074 0.0634 0.5292 179 A 0.2368 0.0600 0.7032 180 G 0.3108 0.0263 0.6629 181 D 0.5154 0.0163 0.4683 182 L 0.8631 0.0057 0.1312 183 F 0.9118 0.0045 0.0838 184 I 0.9122 0.0049 0.0830 185 A 0.8462 0.0087 0.1451 186 T 0.6906 0.0185 0.2909 187 T 0.3805 0.0243 0.5952 188 G 0.1910 0.0513 0.7576 189 Y 0.1933 0.0618 0.7449 190 T 0.1928 0.0667 0.7405 191 G 0.1166 0.0787 0.8047 192 E 0.1669 0.1172 0.7159 193 A 0.1833 0.0940 0.7228 194 G 0.3560 0.0453 0.5987 195 Y 0.7619 0.0102 0.2279 196 E 0.8977 0.0059 0.0964 197 I 0.9138 0.0044 0.0818 198 A 0.8933 0.0051 0.1016 199 L 0.6700 0.0080 0.3219 200 P 0.2139 0.0126 0.7734 201 N 0.0120 0.7188 0.2692 202 E 0.0054 0.8680 0.1266 203 K 0.0070 0.8745 0.1185 204 A 0.0053 0.9212 0.0735 205 A 0.0058 0.9430 0.0512 206 D 0.0047 0.9541 0.0412 207 F 0.0050 0.9542 0.0408 208 W 0.0047 0.9605 0.0348 209 R 0.0047 0.9610 0.0343 210 A 0.0046 0.9604 0.0350 211 L 0.0047 0.9574 0.0379 212 V 0.0049 0.9443 0.0508 213 E 0.0056 0.9108 0.0837 214 A 0.0419 0.4384 0.5197 215 G 0.0315 0.0339 0.9346 216 V 0.0811 0.0186 0.9002 217 K 0.1522 0.0469 0.8008 218 P 0.1709 0.0958 0.7333 219 C 0.1083 0.1076 0.7841 220 G 0.0801 0.0883 0.8316 221 L 0.0386 0.4884 0.4730 222 G 0.0445 0.5424 0.4131 223 A 0.0135 0.8597 0.1268 224 R 0.0147 0.8819 0.1034 225 D 0.0130 0.8902 0.0968 226 T 0.0152 0.9123 0.0725 227 L 0.0257 0.8937 0.0807 228 R 0.0311 0.8763 0.0926 229 L 0.0200 0.9032 0.0768 230 E 0.0209 0.8739 0.1051 231 A 0.0416 0.5710 0.3875 232 G 0.0355 0.2852 0.6794 233 M 0.1047 0.1642 0.7310 234 N 0.1552 0.1882 0.6566 235 L 0.1474 0.2805 0.5721 236 Y 0.1409 0.2464 0.6127 237 G 0.0973 0.2381 0.6647 238 Q 0.1161 0.2944 0.5895 239 E 0.1775 0.2772 0.5453 240 M 0.1595 0.2040 0.6365 241 D 0.0839 0.1269 0.7892 242 E 0.0215 0.3461 0.6325 243 T 0.0521 0.2453 0.7025 244 I 0.1803 0.1516 0.6682 245 S 0.1128 0.0938 0.7934 246 P 0.0289 0.7182 0.2528 247 L 0.0577 0.7250 0.2173 248 A 0.1148 0.6700 0.2151 249 A 0.1620 0.5136 0.3244 250 N 0.1278 0.3312 0.5410 251 M 0.0981 0.4917 0.4102 252 G 0.1081 0.5156 0.3763 253 W 0.1815 0.5320 0.2865 254 T 0.2866 0.4657 0.2477 255 I 0.3678 0.3225 0.3097 256 A 0.3611 0.1703 0.4686 257 W 0.2979 0.0862 0.6159 258 E 0.1654 0.0266 0.8081 259 P 0.0321 0.2025 0.7653 260 A 0.0300 0.1867 0.7833 261 D 0.0562 0.2170 0.7268 262 R 0.0534 0.1236 0.8230 263 D 0.1015 0.1299 0.7686 264 F 0.1601 0.3468 0.4931 265 I 0.0830 0.5710 0.3460 266 G 0.0231 0.7714 0.2055 267 R 0.0049 0.9554 0.0396 268 E 0.0050 0.9603 0.0347 269 A 0.0050 0.9608 0.0342 270 L 0.0047 0.9609 0.0344 271 E 0.0047 0.9607 0.0346 272 V 0.0047 0.9595 0.0358 273 Q 0.0047 0.9551 0.0402 274 R 0.0060 0.9415 0.0524 275 E 0.0079 0.8753 0.1168 276 H 0.0425 0.3380 0.6194 277 G 0.0336 0.0201 0.9463 278 T 0.0857 0.0175 0.8968 279 E 0.3756 0.0130 0.6115 280 K 0.7725 0.0087 0.2188 281 L 0.8790 0.0042 0.1168 282 V 0.8826 0.0078 0.1096 283 G 0.8983 0.0044 0.0973 284 L 0.9063 0.0036 0.0901 285 V 0.9014 0.0041 0.0945 286 M 0.8008 0.0077 0.1915 287 T 0.4323 0.0256 0.5421 288 E 0.1360 0.0850 0.7790 289 K 0.0820 0.1213 0.7967 290 G 0.1360 0.1051 0.7589 291 V 0.2838 0.1008 0.6154 292 L 0.2416 0.1060 0.6523 293 R 0.1811 0.1557 0.6632 294 N 0.0813 0.1595 0.7592 295 E 0.0750 0.0682 0.8569 296 L 0.2392 0.0259 0.7349 297 P 0.4982 0.0213 0.4805 298 V 0.6451 0.0197 0.3351 299 R 0.6075 0.0193 0.3732 300 F 0.5404 0.0174 0.4423 301 T 0.4643 0.0395 0.4962 302 D 0.3295 0.1144 0.5561 303 A 0.1514 0.2422 0.6065 304 Q 0.1162 0.1267 0.7571 305 G 0.0640 0.0503 0.8856 306 N 0.1098 0.0359 0.8543 307 Q 0.5262 0.0164 0.4575 308 H 0.7794 0.0084 0.2122 309 E 0.7911 0.0156 0.1933 310 G 0.8384 0.0073 0.1543 311 I 0.8822 0.0055 0.1122 312 I 0.8842 0.0048 0.1111 313 T 0.7917 0.0171 0.1912 314 S 0.6436 0.0283 0.3282 315 G 0.4457 0.0597 0.4946 316 T 0.3441 0.0622 0.5938 317 F 0.3083 0.0685 0.6232 318 S 0.1780 0.0460 0.7760 319 P 0.0340 0.2524 0.7136 320 T 0.0358 0.2177 0.7465 321 L 0.0701 0.1614 0.7685 322 G 0.0629 0.0559 0.8813 323 Y 0.1743 0.0231 0.8026 324 S 0.3492 0.0154 0.6354 325 I 0.7935 0.0096 0.1968 326 A 0.8828 0.0052 0.1120 327 L 0.9139 0.0059 0.0801 328 A 0.9092 0.0050 0.0858 329 R 0.8976 0.0050 0.0975 330 V 0.7506 0.0080 0.2413 331 P 0.4548 0.0141 0.5310 332 E 0.0672 0.2162 0.7166 333 G 0.0548 0.1816 0.7636 334 I 0.1038 0.1756 0.7205 335 G 0.1187 0.0538 0.8275 336 E 0.2699 0.0402 0.6900 337 T 0.6380 0.0151 0.3469 338 A 0.8658 0.0043 0.1299 339 I 0.9221 0.0033 0.0745 340 V 0.9241 0.0036 0.0723 341 Q 0.9189 0.0034 0.0777 342 I 0.8630 0.0084 0.1286 343 R 0.4486 0.0331 0.5183 344 N 0.0972 0.0351 0.8677 345 R 0.3085 0.0212 0.6703 346 E 0.6252 0.0118 0.3630 347 M 0.7105 0.0075 0.2820 348 P 0.6741 0.0053 0.3206 349 V 0.8373 0.0048 0.1579 350 K 0.8874 0.0044 0.1081 351 V 0.8863 0.0043 0.1093 352 T 0.7292 0.0132 0.2577 353 K 0.4528 0.0141 0.5331 354 P 0.2635 0.0200 0.7165 355 V 0.3078 0.0429 0.6493 356 F 0.4578 0.0436 0.4986 357 V 0.3903 0.0421 0.5675 358 R 0.2474 0.0628 0.6899 359 N 0.0895 0.0988 0.8117 360 G 0.0523 0.1050 0.8427 361 K 0.1727 0.1005 0.7268 362 A 0.2563 0.0749 0.6687 363 V 0.1132 0.0444 0.8425 364 A 0.0642 0.0426 0.8932