# This file is the result of combining several RDB files, specifically # T0296.t04.dssp-ebghstl.rdb (weight 1.53986) # T0296.t04.stride-ebghtl.rdb (weight 1.24869) # T0296.t04.str2.rdb (weight 1.54758) # T0296.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 T0296.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.5124 # # ============================================ # Comments from T0296.t04.stride-ebghtl.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.5124 # # ============================================ # Comments from T0296.t04.str2.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.5124 # # ============================================ # Comments from T0296.t04.alpha.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.5124 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 T 0.0949 0.0159 0.8893 2 P 0.2460 0.0533 0.7007 3 I 0.5552 0.1184 0.3263 4 S 0.6955 0.1252 0.1793 5 L 0.7081 0.1721 0.1198 6 I 0.6956 0.1473 0.1571 7 G 0.5601 0.1581 0.2818 8 A 0.3183 0.1643 0.5175 9 A 0.1625 0.1470 0.6905 10 T 0.1148 0.0782 0.8070 11 D 0.0748 0.0651 0.8601 12 A 0.0190 0.6115 0.3695 13 T 0.0192 0.7234 0.2575 14 D 0.0211 0.7751 0.2038 15 Y 0.0109 0.9229 0.0661 16 V 0.0060 0.9537 0.0404 17 V 0.0058 0.9560 0.0382 18 L 0.0050 0.9547 0.0403 19 A 0.0047 0.9562 0.0392 20 K 0.0047 0.9537 0.0416 21 A 0.0047 0.9511 0.0442 22 L 0.0049 0.9500 0.0451 23 D 0.0048 0.9544 0.0408 24 K 0.0047 0.9567 0.0386 25 A 0.0047 0.9585 0.0368 26 A 0.0047 0.9561 0.0392 27 K 0.0049 0.9426 0.0525 28 E 0.0059 0.9104 0.0837 29 I 0.0471 0.5353 0.4176 30 G 0.0502 0.0327 0.9171 31 V 0.1329 0.0151 0.8519 32 D 0.4800 0.0352 0.4848 33 F 0.6536 0.0597 0.2868 34 I 0.5841 0.0993 0.3166 35 G 0.4044 0.1352 0.4604 36 G 0.2839 0.1548 0.5613 37 F 0.1688 0.4917 0.3395 38 S 0.1064 0.6951 0.1985 39 A 0.1104 0.7513 0.1383 40 L 0.1678 0.7103 0.1219 41 V 0.1672 0.6903 0.1425 42 Q 0.1482 0.6024 0.2495 43 K 0.0947 0.3255 0.5798 44 G 0.0577 0.0867 0.8556 45 Y 0.1221 0.0552 0.8227 46 Q 0.1261 0.0630 0.8109 47 K 0.0568 0.2158 0.7273 48 G 0.0448 0.2079 0.7472 49 D 0.0860 0.3815 0.5325 50 E 0.0974 0.6732 0.2294 51 I 0.1219 0.7084 0.1697 52 L 0.0934 0.7726 0.1341 53 I 0.0683 0.8059 0.1258 54 N 0.0419 0.7501 0.2080 55 S 0.0317 0.7531 0.2151 56 I 0.0238 0.7826 0.1936 57 P 0.0089 0.8979 0.0932 58 R 0.0065 0.9279 0.0656 59 A 0.0082 0.9249 0.0670 60 L 0.0111 0.8901 0.0988 61 A 0.0096 0.7666 0.2237 62 E 0.0180 0.5119 0.4702 63 T 0.0686 0.2164 0.7150 64 D 0.0787 0.1273 0.7940 65 K 0.4506 0.0827 0.4666 66 V 0.7802 0.0233 0.1964 67 C 0.7993 0.0191 0.1816 68 S 0.8128 0.0187 0.1684 69 S 0.8539 0.0122 0.1339 70 V 0.8560 0.0091 0.1349 71 N 0.8192 0.0086 0.1722 72 I 0.6957 0.0420 0.2624 73 G 0.4959 0.0513 0.4528 74 S 0.3344 0.0732 0.5924 75 T 0.1675 0.1227 0.7098 76 K 0.0859 0.2212 0.6929 77 S 0.0600 0.1598 0.7802 78 G 0.0658 0.1076 0.8266 79 I 0.2037 0.0530 0.7433 80 N 0.1785 0.0560 0.7655 81 M 0.0096 0.8952 0.0952 82 T 0.0058 0.9321 0.0621 83 A 0.0070 0.9385 0.0545 84 V 0.0073 0.9430 0.0497 85 A 0.0052 0.9478 0.0470 86 D 0.0054 0.9378 0.0568 87 M 0.0054 0.9228 0.0718 88 G 0.0071 0.9009 0.0920 89 R 0.0126 0.9144 0.0730 90 I 0.0266 0.9092 0.0643 91 I 0.0362 0.8955 0.0683 92 K 0.0471 0.8612 0.0917 93 E 0.0519 0.8246 0.1235 94 T 0.0311 0.7735 0.1954 95 A 0.0395 0.6453 0.3152 96 N 0.0507 0.5163 0.4330 97 L 0.0708 0.3179 0.6113 98 S 0.0479 0.1777 0.7745 99 D 0.0400 0.2383 0.7217 100 M 0.0747 0.2614 0.6638 101 G 0.1041 0.2516 0.6442 102 V 0.2356 0.2918 0.4726 103 A 0.4716 0.1551 0.3733 104 K 0.5687 0.1684 0.2629 105 L 0.8065 0.0897 0.1038 106 V 0.8403 0.0784 0.0813 107 V 0.8320 0.0816 0.0864 108 F 0.7521 0.1127 0.1351 109 A 0.5141 0.1291 0.3568 110 N 0.2405 0.1475 0.6121 111 A 0.1702 0.1416 0.6881 112 V 0.1104 0.2314 0.6582 113 E 0.0557 0.2452 0.6991 114 D 0.0521 0.1703 0.7776 115 N 0.0963 0.0355 0.8682 116 P 0.0380 0.2153 0.7468 117 F 0.0781 0.2528 0.6690 118 M 0.1588 0.2731 0.5682 119 A 0.1840 0.3304 0.4856 120 G 0.2353 0.3134 0.4513 121 A 0.3237 0.3013 0.3750 122 F 0.4026 0.2563 0.3412 123 H 0.3922 0.1602 0.4475 124 G 0.3053 0.0951 0.5997 125 V 0.2601 0.0714 0.6685 126 G 0.1933 0.0574 0.7493 127 E 0.1993 0.0998 0.7008 128 A 0.2245 0.1024 0.6731 129 D 0.3146 0.0985 0.5870 130 V 0.7854 0.0209 0.1937 131 I 0.9140 0.0053 0.0808 132 I 0.8955 0.0109 0.0937 133 N 0.8060 0.0115 0.1825 134 V 0.5343 0.0455 0.4202 135 G 0.4404 0.0452 0.5144 136 V 0.3814 0.0467 0.5719 137 S 0.2008 0.0572 0.7421 138 G 0.0767 0.0788 0.8445 139 P 0.0282 0.5295 0.4422 140 G 0.0304 0.6983 0.2713 141 V 0.0297 0.8518 0.1184 142 V 0.0150 0.9243 0.0606 143 K 0.0087 0.9464 0.0449 144 R 0.0082 0.9484 0.0434 145 A 0.0069 0.9475 0.0456 146 L 0.0070 0.9395 0.0535 147 E 0.0084 0.9248 0.0668 148 K 0.0103 0.8656 0.1242 149 V 0.0303 0.7093 0.2604 150 R 0.0369 0.4092 0.5538 151 G 0.0278 0.1825 0.7897 152 Q 0.0606 0.1746 0.7648 153 S 0.0854 0.2335 0.6811 154 F 0.0279 0.7713 0.2008 155 D 0.0142 0.8767 0.1091 156 V 0.0245 0.9075 0.0680 157 V 0.0153 0.9236 0.0611 158 A 0.0089 0.9423 0.0488 159 E 0.0054 0.9510 0.0436 160 T 0.0054 0.9474 0.0472 161 V 0.0070 0.9380 0.0550 162 K 0.0079 0.9244 0.0677 163 K 0.0103 0.8759 0.1138 164 T 0.0103 0.8512 0.1385 165 A 0.0155 0.8860 0.0984 166 F 0.0159 0.8968 0.0873 167 K 0.0190 0.8964 0.0845 168 I 0.0371 0.8752 0.0877 169 T 0.0341 0.8507 0.1152 170 R 0.0354 0.8708 0.0938 171 I 0.0148 0.9080 0.0773 172 G 0.0134 0.9078 0.0788 173 Q 0.0106 0.9377 0.0516 174 L 0.0123 0.9444 0.0433 175 V 0.0070 0.9535 0.0394 176 G 0.0076 0.9528 0.0396 177 Q 0.0055 0.9587 0.0358 178 M 0.0055 0.9587 0.0359 179 A 0.0047 0.9587 0.0366 180 S 0.0051 0.9556 0.0393 181 E 0.0051 0.9471 0.0478 182 R 0.0065 0.9158 0.0777 183 L 0.0506 0.5106 0.4388 184 G 0.0515 0.0242 0.9243 185 V 0.1068 0.0084 0.8847 186 E 0.3029 0.0234 0.6737 187 F 0.7465 0.0193 0.2342 188 G 0.8387 0.0165 0.1448 189 I 0.8940 0.0075 0.0985 190 V 0.8595 0.0123 0.1282 191 D 0.6824 0.0169 0.3007 192 L 0.3677 0.0781 0.5542 193 S 0.2193 0.0791 0.7016 194 L 0.1662 0.0907 0.7430 195 A 0.1537 0.0346 0.8118 196 P 0.1638 0.0475 0.7888 197 T 0.1178 0.0266 0.8556 198 P 0.0520 0.0975 0.8506 199 A 0.0600 0.1093 0.8308 200 V 0.0705 0.1345 0.7950 201 G 0.0462 0.1149 0.8389 202 D 0.0426 0.3360 0.6213 203 S 0.0910 0.5375 0.3715 204 V 0.0091 0.9390 0.0518 205 A 0.0051 0.9594 0.0355 206 R 0.0049 0.9608 0.0343 207 V 0.0047 0.9608 0.0346 208 L 0.0047 0.9588 0.0365 209 E 0.0052 0.9529 0.0418 210 E 0.0075 0.9267 0.0658 211 M 0.0342 0.7344 0.2314 212 G 0.0375 0.3429 0.6196 213 L 0.0667 0.3412 0.5921 214 E 0.1384 0.4278 0.4339 215 T 0.1554 0.4459 0.3987 216 V 0.1460 0.2643 0.5897 217 G 0.0791 0.0905 0.8304 218 T 0.0665 0.1375 0.7960 219 H 0.0550 0.3067 0.6383 220 G 0.0393 0.5560 0.4047 221 T 0.0163 0.8904 0.0933 222 T 0.0050 0.9557 0.0393 223 A 0.0047 0.9602 0.0351 224 A 0.0047 0.9605 0.0348 225 L 0.0047 0.9608 0.0345 226 A 0.0047 0.9607 0.0346 227 L 0.0048 0.9550 0.0402 228 L 0.0050 0.9457 0.0493 229 N 0.0371 0.8614 0.1016 230 D 0.0064 0.9236 0.0700 231 Q 0.0063 0.9278 0.0659 232 V 0.0109 0.9157 0.0734 233 K 0.0092 0.8805 0.1103 234 K 0.0141 0.7724 0.2135 235 G 0.0517 0.4305 0.5178 236 G 0.0929 0.2311 0.6761 237 V 0.3240 0.2967 0.3793 238 M 0.4749 0.2868 0.2383 239 A 0.5020 0.2451 0.2529 240 C 0.4106 0.2285 0.3609 241 N 0.2515 0.2132 0.5353 242 Q 0.1963 0.2079 0.5958 243 V 0.2297 0.1567 0.6136 244 G 0.2108 0.0890 0.7002 245 G 0.1973 0.0898 0.7129 246 L 0.2969 0.0993 0.6038 247 S 0.2657 0.1303 0.6040 248 G 0.3795 0.1231 0.4973 249 A 0.6082 0.0733 0.3186 250 F 0.7329 0.0389 0.2281 251 I 0.6170 0.0255 0.3575 252 P 0.3973 0.0296 0.5731 253 V 0.1302 0.4146 0.4553 254 S 0.0914 0.5977 0.3109 255 E 0.0505 0.6550 0.2945 256 D 0.0492 0.6743 0.2765 257 E 0.0058 0.9271 0.0670 258 G 0.0061 0.9355 0.0584 259 M 0.0048 0.9528 0.0424 260 I 0.0048 0.9584 0.0367 261 A 0.0047 0.9601 0.0352 262 A 0.0048 0.9587 0.0365 263 V 0.0052 0.9518 0.0430 264 Q 0.0069 0.9155 0.0777 265 N 0.0418 0.4691 0.4891 266 G 0.0249 0.0504 0.9247 267 S 0.0939 0.0535 0.8526 268 L 0.3698 0.0176 0.6127 269 N 0.2482 0.0195 0.7324 270 L 0.0111 0.9050 0.0839 271 E 0.0058 0.9339 0.0603 272 K 0.0066 0.9260 0.0674 273 L 0.0089 0.9266 0.0645 274 E 0.0129 0.9092 0.0779 275 A 0.0143 0.8625 0.1231 276 M 0.0315 0.7910 0.1775 277 T 0.0658 0.7249 0.2094 278 A 0.0995 0.6838 0.2166 279 I 0.1257 0.6820 0.1923 280 C 0.1264 0.5907 0.2829 281 S 0.1108 0.4264 0.4628 282 V 0.1297 0.3229 0.5474 283 G 0.2084 0.1702 0.6215 284 L 0.3064 0.0986 0.5950 285 D 0.3313 0.0991 0.5696 286 M 0.7052 0.0724 0.2224 287 I 0.7392 0.0346 0.2261 288 A 0.6193 0.0277 0.3529 289 I 0.3317 0.0191 0.6492 290 P 0.0979 0.0502 0.8519 291 E 0.0237 0.1095 0.8668 292 D 0.0579 0.0650 0.8771 293 T 0.0705 0.0263 0.9032 294 P 0.0630 0.1329 0.8041 295 A 0.0055 0.9265 0.0680 296 E 0.0047 0.9506 0.0447 297 T 0.0047 0.9572 0.0381 298 I 0.0047 0.9586 0.0367 299 A 0.0047 0.9580 0.0373 300 A 0.0047 0.9530 0.0423 301 M 0.0048 0.9444 0.0508 302 I 0.0048 0.9384 0.0568 303 A 0.0049 0.9430 0.0521 304 D 0.0051 0.9442 0.0508 305 E 0.0054 0.9459 0.0488 306 A 0.0062 0.9426 0.0512 307 A 0.0077 0.9417 0.0506 308 I 0.0112 0.9353 0.0535 309 G 0.0188 0.9111 0.0701 310 V 0.0332 0.8609 0.1059 311 I 0.0449 0.7770 0.1781 312 N 0.0556 0.4454 0.4990 313 M 0.0582 0.1020 0.8398 314 K 0.1422 0.0195 0.8382 315 T 0.3377 0.0082 0.6541 316 T 0.7364 0.0163 0.2473 317 A 0.9007 0.0041 0.0952 318 V 0.9197 0.0035 0.0767 319 R 0.9249 0.0035 0.0716 320 I 0.9106 0.0037 0.0857 321 I 0.7216 0.0064 0.2720 322 P 0.3764 0.0162 0.6074 323 K 0.0865 0.0633 0.8501 324 G 0.0508 0.0327 0.9165 325 K 0.0877 0.0333 0.8790 326 E 0.1109 0.0505 0.8386 327 G 0.1432 0.0418 0.8150 328 D 0.3521 0.0304 0.6175 329 M 0.7809 0.0218 0.1973 330 I 0.8289 0.0249 0.1462 331 E 0.7904 0.0348 0.1748 332 F 0.5966 0.0910 0.3124 333 G 0.2011 0.1183 0.6806 334 G 0.1277 0.1334 0.7389 335 L 0.2206 0.2119 0.5675 336 L 0.2010 0.1445 0.6545 337 G 0.1599 0.0613 0.7788 338 T 0.2558 0.0440 0.7002 339 A 0.2651 0.0223 0.7126 340 P 0.3688 0.0222 0.6090 341 V 0.7165 0.0263 0.2572 342 M 0.7650 0.0131 0.2219 343 K 0.7484 0.0118 0.2398 344 V 0.5286 0.0407 0.4307 345 N 0.1877 0.0710 0.7412 346 G 0.0831 0.0568 0.8601 347 A 0.1436 0.0556 0.8008 348 S 0.1649 0.0543 0.7808 349 S 0.0933 0.5291 0.3776 350 V 0.0357 0.7871 0.1773 351 D 0.0501 0.8001 0.1498 352 F 0.0567 0.8320 0.1113 353 I 0.0836 0.7905 0.1259 354 S 0.0775 0.7292 0.1933 355 R 0.0651 0.4274 0.5075 356 G 0.0647 0.0716 0.8637 357 G 0.0934 0.0358 0.8708 358 Q 0.2452 0.0220 0.7328 359 I 0.1760 0.0112 0.8128 360 P 0.0720 0.0145 0.9135