# This file is the result of combining several RDB files, specifically # T0296.t06.dssp-ebghstl.rdb (weight 1.53986) # T0296.t06.stride-ebghtl.rdb (weight 1.24869) # T0296.t06.str2.rdb (weight 1.54758) # T0296.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 T0296.t06.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.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 10.9074 # # ============================================ # Comments from T0296.t06.stride-ebghtl.rdb # ============================================ # TARGET T0296 # 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 T0296.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 10.9074 # # ============================================ # Comments from T0296.t06.str2.rdb # ============================================ # TARGET T0296 # 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 T0296.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 10.9074 # # ============================================ # Comments from T0296.t06.alpha.rdb # ============================================ # TARGET T0296 # 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 T0296.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 10.9074 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0783 0.0127 0.9091 2 D 0.0984 0.0183 0.8832 3 I 0.0160 0.8616 0.1224 4 R 0.0127 0.8991 0.0882 5 Q 0.0156 0.9089 0.0755 6 V 0.0125 0.9354 0.0521 7 T 0.0085 0.9478 0.0437 8 E 0.0111 0.9463 0.0426 9 T 0.0083 0.9484 0.0433 10 I 0.0061 0.9542 0.0397 11 A 0.0079 0.9476 0.0445 12 M 0.0068 0.9403 0.0529 13 I 0.0076 0.9265 0.0659 14 E 0.0093 0.8892 0.1015 15 E 0.0134 0.7931 0.1935 16 Q 0.0363 0.4333 0.5304 17 N 0.0461 0.1492 0.8047 18 F 0.0968 0.0319 0.8713 19 D 0.1934 0.0259 0.7807 20 I 0.7255 0.0387 0.2358 21 R 0.7720 0.0430 0.1851 22 T 0.8832 0.0189 0.0978 23 I 0.8677 0.0224 0.1099 24 T 0.8063 0.0343 0.1594 25 M 0.6727 0.0754 0.2519 26 G 0.5379 0.0590 0.4031 27 I 0.5897 0.0385 0.3718 28 S 0.5673 0.0403 0.3924 29 L 0.2781 0.3320 0.3899 30 L 0.1235 0.4749 0.4015 31 D 0.1064 0.4682 0.4253 32 C 0.0913 0.3377 0.5710 33 I 0.1250 0.1662 0.7088 34 D 0.0874 0.0359 0.8767 35 P 0.0091 0.4135 0.5774 36 D 0.0324 0.4288 0.5388 37 I 0.0087 0.8114 0.1799 38 N 0.0061 0.9180 0.0760 39 R 0.0057 0.9402 0.0540 40 A 0.0055 0.9438 0.0507 41 A 0.0048 0.9485 0.0468 42 E 0.0049 0.9540 0.0411 43 K 0.0048 0.9540 0.0412 44 I 0.0048 0.9524 0.0428 45 Y 0.0049 0.9544 0.0407 46 Q 0.0048 0.9528 0.0424 47 K 0.0050 0.9460 0.0490 48 I 0.0061 0.9381 0.0558 49 T 0.0060 0.9302 0.0637 50 T 0.0056 0.9256 0.0688 51 K 0.0060 0.9156 0.0784 52 A 0.0061 0.9252 0.0687 53 A 0.0056 0.9206 0.0738 54 N 0.0058 0.9058 0.0884 55 L 0.0052 0.9315 0.0634 56 V 0.0048 0.9471 0.0481 57 A 0.0051 0.9459 0.0490 58 V 0.0049 0.9416 0.0535 59 G 0.0052 0.9434 0.0514 60 D 0.0047 0.9505 0.0448 61 E 0.0053 0.9540 0.0408 62 I 0.0048 0.9541 0.0411 63 A 0.0053 0.9525 0.0422 64 A 0.0055 0.9418 0.0527 65 E 0.0100 0.8923 0.0976 66 L 0.0458 0.5775 0.3766 67 G 0.0442 0.0464 0.9094 68 I 0.1386 0.0122 0.8492 69 P 0.4377 0.0096 0.5527 70 I 0.6131 0.0324 0.3545 71 V 0.5802 0.0667 0.3532 72 N 0.4972 0.0689 0.4339 73 K 0.5887 0.0697 0.3416 74 R 0.7366 0.0324 0.2310 75 V 0.7717 0.0257 0.2027 76 S 0.8094 0.0191 0.1715 77 V 0.7439 0.0212 0.2349 78 T 0.5255 0.0377 0.4368 79 P 0.2686 0.4115 0.3200 80 I 0.1471 0.6394 0.2136 81 S 0.1769 0.6625 0.1606 82 L 0.2361 0.6256 0.1383 83 I 0.2963 0.5226 0.1811 84 G 0.2785 0.4290 0.2925 85 A 0.1888 0.3618 0.4494 86 A 0.1114 0.2855 0.6032 87 T 0.0906 0.1583 0.7511 88 D 0.0676 0.1152 0.8173 89 A 0.0235 0.5479 0.4286 90 T 0.0188 0.7029 0.2783 91 D 0.0232 0.7748 0.2019 92 Y 0.0128 0.9154 0.0718 93 V 0.0069 0.9500 0.0431 94 V 0.0069 0.9544 0.0387 95 L 0.0058 0.9553 0.0389 96 A 0.0055 0.9525 0.0420 97 K 0.0049 0.9520 0.0431 98 A 0.0049 0.9448 0.0503 99 L 0.0052 0.9409 0.0539 100 D 0.0053 0.9501 0.0446 101 K 0.0047 0.9554 0.0399 102 A 0.0047 0.9544 0.0409 103 A 0.0047 0.9525 0.0427 104 K 0.0049 0.9406 0.0545 105 E 0.0053 0.9238 0.0709 106 I 0.0447 0.5558 0.3996 107 G 0.0502 0.0421 0.9077 108 V 0.1535 0.0199 0.8265 109 D 0.4234 0.0642 0.5124 110 F 0.5041 0.1181 0.3778 111 I 0.4075 0.1806 0.4119 112 G 0.2031 0.2272 0.5697 113 G 0.1216 0.2993 0.5791 114 F 0.0486 0.7164 0.2350 115 S 0.0229 0.8619 0.1152 116 A 0.0220 0.8967 0.0813 117 L 0.0346 0.8915 0.0739 118 V 0.0438 0.8612 0.0950 119 Q 0.0466 0.8004 0.1530 120 K 0.0557 0.5073 0.4371 121 G 0.0480 0.1273 0.8247 122 Y 0.0942 0.0793 0.8265 123 Q 0.0908 0.0870 0.8222 124 K 0.0375 0.2795 0.6830 125 G 0.0372 0.2238 0.7390 126 D 0.0773 0.4219 0.5008 127 E 0.0909 0.6853 0.2238 128 I 0.1209 0.7068 0.1723 129 L 0.0928 0.7603 0.1469 130 I 0.0818 0.7620 0.1562 131 N 0.0438 0.7228 0.2335 132 S 0.0375 0.7114 0.2510 133 I 0.0207 0.8068 0.1725 134 P 0.0105 0.8889 0.1005 135 R 0.0067 0.9186 0.0747 136 A 0.0071 0.9142 0.0787 137 L 0.0093 0.8840 0.1068 138 A 0.0074 0.7753 0.2174 139 E 0.0142 0.5904 0.3955 140 T 0.0665 0.2907 0.6428 141 D 0.0540 0.2393 0.7067 142 K 0.2611 0.2379 0.5010 143 V 0.5149 0.1651 0.3200 144 C 0.4672 0.1514 0.3814 145 S 0.4588 0.1419 0.3992 146 S 0.5935 0.0980 0.3085 147 V 0.6944 0.0393 0.2664 148 N 0.6525 0.0272 0.3203 149 I 0.5371 0.0869 0.3759 150 G 0.3467 0.0992 0.5542 151 S 0.2683 0.1105 0.6212 152 T 0.1769 0.1649 0.6582 153 K 0.1092 0.2679 0.6229 154 S 0.0801 0.1722 0.7477 155 G 0.1049 0.0965 0.7986 156 I 0.2893 0.0478 0.6630 157 N 0.2708 0.0464 0.6828 158 M 0.0172 0.8755 0.1073 159 T 0.0077 0.9212 0.0711 160 A 0.0098 0.9224 0.0678 161 V 0.0124 0.9266 0.0610 162 A 0.0085 0.9287 0.0628 163 D 0.0094 0.9096 0.0810 164 M 0.0146 0.8765 0.1089 165 G 0.0145 0.8531 0.1324 166 R 0.0194 0.8820 0.0986 167 I 0.0342 0.8901 0.0757 168 I 0.0435 0.8741 0.0824 169 K 0.0627 0.8193 0.1180 170 E 0.0765 0.7573 0.1662 171 T 0.0576 0.6626 0.2798 172 A 0.0476 0.5198 0.4327 173 N 0.0610 0.3325 0.6065 174 L 0.0680 0.2361 0.6960 175 S 0.0466 0.1622 0.7912 176 D 0.0416 0.2380 0.7204 177 M 0.0861 0.2285 0.6855 178 G 0.1230 0.1847 0.6923 179 V 0.2916 0.2233 0.4851 180 A 0.5637 0.1093 0.3270 181 K 0.6736 0.1153 0.2111 182 L 0.8490 0.0584 0.0926 183 V 0.8648 0.0563 0.0789 184 V 0.8597 0.0519 0.0884 185 F 0.7765 0.0545 0.1691 186 A 0.4739 0.0786 0.4476 187 N 0.2227 0.0827 0.6946 188 A 0.1700 0.1143 0.7156 189 V 0.1382 0.2116 0.6502 190 E 0.0844 0.2307 0.6849 191 D 0.0768 0.1678 0.7554 192 N 0.0933 0.0433 0.8634 193 P 0.0533 0.1902 0.7565 194 F 0.0999 0.2017 0.6984 195 M 0.1875 0.2035 0.6090 196 A 0.1850 0.2535 0.5615 197 G 0.1736 0.2878 0.5386 198 A 0.2148 0.2741 0.5111 199 F 0.2961 0.2028 0.5011 200 H 0.2047 0.1286 0.6666 201 G 0.1185 0.0702 0.8113 202 V 0.1232 0.0834 0.7934 203 G 0.1104 0.0602 0.8294 204 E 0.1381 0.1625 0.6994 205 A 0.1968 0.1631 0.6401 206 D 0.2803 0.1435 0.5762 207 V 0.7907 0.0401 0.1692 208 I 0.8994 0.0185 0.0821 209 I 0.8855 0.0212 0.0933 210 N 0.8513 0.0215 0.1271 211 V 0.7622 0.0419 0.1960 212 G 0.7308 0.0408 0.2285 213 V 0.6115 0.0459 0.3426 214 S 0.2988 0.0610 0.6402 215 G 0.0880 0.0678 0.8442 216 P 0.0424 0.3594 0.5982 217 G 0.0473 0.5633 0.3895 218 V 0.0544 0.7654 0.1802 219 V 0.0311 0.8592 0.1097 220 K 0.0143 0.9237 0.0620 221 R 0.0119 0.9319 0.0562 222 A 0.0097 0.9313 0.0590 223 L 0.0099 0.9194 0.0707 224 E 0.0117 0.8935 0.0949 225 K 0.0136 0.8168 0.1697 226 V 0.0431 0.6596 0.2973 227 R 0.0295 0.4047 0.5658 228 G 0.0285 0.1910 0.7805 229 Q 0.0589 0.1718 0.7693 230 S 0.0976 0.2113 0.6910 231 F 0.0225 0.8081 0.1694 232 D 0.0101 0.9047 0.0852 233 V 0.0177 0.9263 0.0560 234 V 0.0130 0.9326 0.0544 235 A 0.0096 0.9401 0.0503 236 E 0.0080 0.9379 0.0541 237 T 0.0096 0.9236 0.0668 238 V 0.0182 0.8978 0.0839 239 K 0.0275 0.8527 0.1197 240 K 0.0382 0.7831 0.1787 241 T 0.0583 0.6909 0.2507 242 A 0.0764 0.6547 0.2689 243 F 0.1522 0.5611 0.2868 244 K 0.1970 0.5435 0.2596 245 I 0.2287 0.5558 0.2155 246 T 0.1442 0.5890 0.2667 247 R 0.0973 0.7141 0.1886 248 I 0.0419 0.8154 0.1427 249 G 0.0356 0.8090 0.1554 250 Q 0.0226 0.9056 0.0718 251 L 0.0167 0.9335 0.0498 252 V 0.0095 0.9382 0.0523 253 G 0.0118 0.9372 0.0510 254 Q 0.0069 0.9545 0.0386 255 M 0.0059 0.9538 0.0403 256 A 0.0049 0.9543 0.0408 257 S 0.0051 0.9535 0.0414 258 E 0.0050 0.9457 0.0493 259 R 0.0056 0.9301 0.0643 260 L 0.0487 0.6079 0.3434 261 G 0.0469 0.0269 0.9262 262 V 0.1109 0.0083 0.8808 263 E 0.3263 0.0358 0.6379 264 F 0.7160 0.0184 0.2656 265 G 0.8047 0.0171 0.1783 266 I 0.8754 0.0151 0.1096 267 V 0.8226 0.0250 0.1523 268 D 0.6417 0.0427 0.3156 269 L 0.2920 0.1491 0.5589 270 S 0.1863 0.1172 0.6964 271 L 0.1482 0.1250 0.7268 272 A 0.1259 0.0375 0.8366 273 P 0.1262 0.0493 0.8245 274 T 0.0998 0.0256 0.8746 275 P 0.0429 0.1648 0.7923 276 A 0.0460 0.1622 0.7919 277 V 0.0484 0.2950 0.6565 278 G 0.0414 0.2217 0.7368 279 D 0.0449 0.4046 0.5505 280 S 0.0906 0.5887 0.3207 281 V 0.0071 0.9395 0.0534 282 A 0.0052 0.9581 0.0367 283 R 0.0048 0.9603 0.0349 284 V 0.0047 0.9605 0.0348 285 L 0.0049 0.9577 0.0374 286 E 0.0054 0.9509 0.0436 287 E 0.0079 0.9046 0.0876 288 M 0.0413 0.6552 0.3035 289 G 0.0365 0.2607 0.7028 290 L 0.0657 0.3313 0.6029 291 E 0.1250 0.4376 0.4373 292 T 0.1864 0.4316 0.3820 293 V 0.1790 0.2706 0.5504 294 G 0.0898 0.0974 0.8128 295 T 0.0736 0.1265 0.8000 296 H 0.0598 0.2873 0.6529 297 G 0.0437 0.5225 0.4338 298 T 0.0211 0.8662 0.1127 299 T 0.0053 0.9532 0.0415 300 A 0.0047 0.9595 0.0358 301 A 0.0049 0.9606 0.0345 302 L 0.0047 0.9602 0.0352 303 A 0.0047 0.9591 0.0362 304 L 0.0050 0.9532 0.0418 305 L 0.0052 0.9430 0.0518 306 N 0.0273 0.8840 0.0887 307 D 0.0060 0.9187 0.0754 308 Q 0.0068 0.9174 0.0759 309 V 0.0119 0.9011 0.0870 310 K 0.0125 0.8561 0.1314 311 K 0.0176 0.7147 0.2677 312 G 0.0497 0.4369 0.5134 313 G 0.0916 0.2828 0.6256 314 V 0.3186 0.3269 0.3545 315 M 0.4573 0.3059 0.2368 316 A 0.4939 0.2405 0.2657 317 C 0.3906 0.2235 0.3858 318 N 0.2161 0.2211 0.5628 319 Q 0.1917 0.1912 0.6171 320 V 0.2511 0.1265 0.6224 321 G 0.1719 0.0757 0.7524 322 G 0.1740 0.0891 0.7370 323 L 0.2647 0.1091 0.6263 324 S 0.2575 0.1430 0.5995 325 G 0.2721 0.1742 0.5537 326 A 0.4813 0.1107 0.4080 327 F 0.6601 0.0603 0.2796 328 I 0.5535 0.0333 0.4132 329 P 0.4086 0.0392 0.5522 330 V 0.1619 0.4198 0.4182 331 S 0.0795 0.5736 0.3469 332 E 0.0589 0.5802 0.3609 333 D 0.0503 0.6652 0.2845 334 E 0.0059 0.9231 0.0711 335 G 0.0053 0.9361 0.0586 336 M 0.0048 0.9528 0.0424 337 I 0.0047 0.9569 0.0384 338 A 0.0047 0.9575 0.0378 339 A 0.0048 0.9561 0.0391 340 V 0.0051 0.9471 0.0478 341 Q 0.0067 0.9116 0.0816 342 N 0.0425 0.4705 0.4870 343 G 0.0273 0.0474 0.9254 344 S 0.0945 0.0554 0.8501 345 L 0.3359 0.0150 0.6490 346 N 0.2524 0.0107 0.7369 347 L 0.0104 0.8904 0.0992 348 E 0.0074 0.9198 0.0728 349 K 0.0073 0.9160 0.0767 350 L 0.0100 0.9196 0.0705 351 E 0.0120 0.9023 0.0857 352 A 0.0184 0.8339 0.1476 353 M 0.0501 0.7701 0.1798 354 T 0.0721 0.7460 0.1818 355 A 0.1025 0.7228 0.1747 356 I 0.1150 0.7030 0.1821 357 C 0.1564 0.5550 0.2886 358 S 0.1409 0.4029 0.4562 359 V 0.1545 0.2520 0.5935 360 G 0.2293 0.1745 0.5962 361 L 0.4177 0.0795 0.5028 362 D 0.4272 0.0805 0.4923 363 M 0.7805 0.0504 0.1691 364 I 0.8148 0.0252 0.1600 365 A 0.7437 0.0206 0.2357 366 I 0.4765 0.0144 0.5091 367 P 0.1122 0.0533 0.8345 368 E 0.0320 0.1005 0.8675 369 D 0.0516 0.0645 0.8840 370 T 0.0614 0.0222 0.9164 371 P 0.0623 0.1359 0.8018 372 A 0.0058 0.9212 0.0731 373 E 0.0049 0.9462 0.0489 374 T 0.0048 0.9542 0.0410 375 I 0.0047 0.9566 0.0386 376 A 0.0047 0.9569 0.0384 377 A 0.0047 0.9517 0.0436 378 M 0.0048 0.9483 0.0470 379 I 0.0048 0.9450 0.0502 380 A 0.0054 0.9350 0.0596 381 D 0.0065 0.9208 0.0727 382 E 0.0086 0.9231 0.0683 383 A 0.0118 0.9099 0.0783 384 A 0.0168 0.9094 0.0737 385 I 0.0237 0.8932 0.0831 386 G 0.0519 0.8319 0.1163 387 V 0.0617 0.8119 0.1264 388 I 0.0810 0.7250 0.1940 389 N 0.0828 0.3209 0.5963 390 M 0.0623 0.0953 0.8424 391 K 0.1594 0.0252 0.8154 392 T 0.3540 0.0110 0.6350 393 T 0.7228 0.0119 0.2653 394 A 0.9015 0.0040 0.0946 395 V 0.9201 0.0036 0.0763 396 R 0.9215 0.0037 0.0748 397 I 0.9142 0.0037 0.0821 398 I 0.7633 0.0063 0.2305 399 P 0.4406 0.0096 0.5498 400 K 0.1072 0.0610 0.8317 401 G 0.0587 0.0341 0.9071 402 K 0.0789 0.0389 0.8823 403 E 0.0975 0.0479 0.8546 404 G 0.1371 0.0373 0.8256 405 D 0.3273 0.0344 0.6383 406 M 0.7908 0.0182 0.1910 407 I 0.8608 0.0130 0.1262 408 E 0.8490 0.0138 0.1372 409 F 0.6643 0.0422 0.2935 410 G 0.1967 0.0601 0.7432 411 G 0.1282 0.1025 0.7693 412 L 0.2576 0.1634 0.5790 413 L 0.2344 0.1594 0.6061 414 G 0.2056 0.0671 0.7273 415 T 0.3263 0.0479 0.6258 416 A 0.3339 0.0179 0.6482 417 P 0.4215 0.0161 0.5624 418 V 0.7347 0.0148 0.2504 419 M 0.7804 0.0095 0.2102 420 K 0.7550 0.0082 0.2368 421 V 0.5264 0.0332 0.4404 422 N 0.2373 0.0682 0.6945 423 G 0.1070 0.0600 0.8331 424 A 0.1481 0.0593 0.7927 425 S 0.1755 0.0528 0.7716 426 S 0.0909 0.5029 0.4062 427 V 0.0381 0.7714 0.1905 428 D 0.0678 0.7820 0.1503 429 F 0.0693 0.8053 0.1254 430 I 0.1162 0.7319 0.1519 431 S 0.0935 0.6621 0.2444 432 R 0.0752 0.3522 0.5726 433 G 0.0656 0.0738 0.8606 434 G 0.1095 0.0327 0.8578 435 Q 0.3137 0.0272 0.6591 436 I 0.3078 0.0250 0.6672 437 P 0.2014 0.0347 0.7639 438 A 0.1823 0.0641 0.7536 439 P 0.2164 0.0923 0.6913 440 I 0.1607 0.4231 0.4163 441 H 0.1615 0.4662 0.3724 442 S 0.2104 0.3954 0.3941 443 F 0.2072 0.2556 0.5372 444 K 0.1509 0.1891 0.6600 445 N 0.0697 0.0515 0.8788