# This file is the result of combining several RDB files, specifically # T0384.t04.dssp-ebghstl.rdb (weight 1.53986) # T0384.t04.stride-ebghtl.rdb (weight 1.24869) # T0384.t04.str2.rdb (weight 1.54758) # T0384.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 T0384.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0384 # 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 T0384.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 2261 # # ============================================ # Comments from T0384.t04.stride-ebghtl.rdb # ============================================ # TARGET T0384 # 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 T0384.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 2261 # # ============================================ # Comments from T0384.t04.str2.rdb # ============================================ # TARGET T0384 # 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 T0384.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 2261 # # ============================================ # Comments from T0384.t04.alpha.rdb # ============================================ # TARGET T0384 # 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 T0384.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 2261 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1611 0.0168 0.8221 2 L 0.3914 0.0074 0.6012 3 K 0.6674 0.0068 0.3258 4 L 0.9185 0.0038 0.0777 5 G 0.9256 0.0048 0.0696 6 V 0.9295 0.0038 0.0667 7 I 0.8417 0.0361 0.1221 8 G 0.4260 0.0221 0.5520 9 T 0.1584 0.0986 0.7430 10 G 0.0775 0.2914 0.6311 11 A 0.0524 0.6927 0.2549 12 I 0.0258 0.8186 0.1556 13 S 0.0123 0.8888 0.0989 14 H 0.0057 0.9295 0.0648 15 H 0.0056 0.9359 0.0585 16 F 0.0051 0.9439 0.0510 17 I 0.0048 0.9551 0.0402 18 E 0.0048 0.9568 0.0385 19 A 0.0049 0.9506 0.0445 20 A 0.0057 0.9178 0.0765 21 H 0.0071 0.7775 0.2154 22 T 0.0158 0.5728 0.4115 23 S 0.0667 0.0597 0.8735 24 G 0.0214 0.1033 0.8754 25 E 0.0599 0.0552 0.8849 26 Y 0.4858 0.0124 0.5018 27 Q 0.8358 0.0049 0.1593 28 L 0.9182 0.0029 0.0789 29 V 0.9105 0.0081 0.0815 30 A 0.9285 0.0033 0.0682 31 I 0.9171 0.0033 0.0796 32 Y 0.8280 0.0089 0.1631 33 S 0.3852 0.0103 0.6045 34 R 0.0613 0.0700 0.8686 35 K 0.0859 0.0358 0.8783 36 L 0.0054 0.8951 0.0995 37 E 0.0048 0.9284 0.0668 38 T 0.0049 0.9350 0.0601 39 A 0.0050 0.9488 0.0462 40 A 0.0049 0.9563 0.0388 41 T 0.0050 0.9542 0.0409 42 F 0.0048 0.9504 0.0447 43 A 0.0052 0.9418 0.0530 44 S 0.0056 0.8998 0.0946 45 R 0.0115 0.7503 0.2383 46 Y 0.0652 0.3695 0.5654 47 Q 0.0259 0.2289 0.7452 48 N 0.0759 0.1558 0.7683 49 I 0.2184 0.1824 0.5991 50 Q 0.4302 0.2043 0.3655 51 L 0.5167 0.2348 0.2485 52 F 0.3542 0.2382 0.4076 53 D 0.1526 0.2635 0.5839 54 Q 0.1238 0.3510 0.5253 55 L 0.0420 0.7389 0.2192 56 E 0.0456 0.7634 0.1910 57 V 0.0623 0.7615 0.1762 58 F 0.0672 0.6641 0.2687 59 F 0.0739 0.4836 0.4425 60 K 0.0714 0.2005 0.7281 61 S 0.0196 0.1599 0.8205 62 S 0.0594 0.0652 0.8754 63 F 0.2330 0.0109 0.7561 64 D 0.4007 0.0350 0.5643 65 L 0.9307 0.0033 0.0660 66 V 0.9340 0.0032 0.0628 67 Y 0.9338 0.0032 0.0630 68 I 0.9085 0.0040 0.0875 69 A 0.5552 0.0107 0.4342 70 S 0.1475 0.0135 0.8390 71 P 0.0627 0.0679 0.8694 72 N 0.0398 0.1523 0.8079 73 S 0.0266 0.5283 0.4451 74 L 0.0292 0.6371 0.3337 75 H 0.0156 0.7541 0.2303 76 F 0.0052 0.9387 0.0560 77 A 0.0047 0.9558 0.0396 78 Q 0.0049 0.9578 0.0373 79 A 0.0047 0.9611 0.0343 80 K 0.0046 0.9614 0.0340 81 A 0.0046 0.9610 0.0344 82 A 0.0047 0.9585 0.0368 83 L 0.0048 0.9518 0.0434 84 S 0.0056 0.8958 0.0986 85 A 0.0433 0.3381 0.6186 86 G 0.0367 0.0257 0.9376 87 K 0.0729 0.0114 0.9157 88 H 0.5432 0.0120 0.4448 89 V 0.8719 0.0084 0.1197 90 I 0.9179 0.0043 0.0778 91 L 0.9009 0.0053 0.0937 92 E 0.7558 0.0117 0.2325 93 K 0.3737 0.0207 0.6056 94 P 0.2277 0.0629 0.7095 95 A 0.1780 0.1307 0.6913 96 V 0.1962 0.0879 0.7160 97 S 0.1478 0.0347 0.8175 98 Q 0.0768 0.0115 0.9117 99 P 0.0050 0.9310 0.0639 100 Q 0.0047 0.9531 0.0422 101 E 0.0049 0.9554 0.0398 102 W 0.0047 0.9595 0.0358 103 F 0.0047 0.9609 0.0344 104 D 0.0047 0.9607 0.0347 105 L 0.0047 0.9595 0.0358 106 I 0.0047 0.9604 0.0349 107 Q 0.0046 0.9609 0.0344 108 T 0.0047 0.9605 0.0348 109 A 0.0047 0.9589 0.0365 110 E 0.0048 0.9465 0.0487 111 K 0.0060 0.8950 0.0989 112 N 0.0452 0.3464 0.6085 113 N 0.0359 0.0209 0.9433 114 C 0.1114 0.0120 0.8767 115 F 0.7751 0.0091 0.2158 116 I 0.8906 0.0159 0.0935 117 F 0.8786 0.0295 0.0919 118 E 0.8249 0.0449 0.1302 119 A 0.5947 0.1218 0.2835 120 A 0.3230 0.2533 0.4238 121 R 0.1691 0.3982 0.4327 122 N 0.0864 0.4584 0.4552 123 Y 0.0577 0.4088 0.5335 124 H 0.0460 0.3938 0.5602 125 E 0.0309 0.5731 0.3959 126 K 0.0056 0.8953 0.0991 127 A 0.0053 0.9228 0.0720 128 F 0.0048 0.9514 0.0438 129 T 0.0049 0.9573 0.0377 130 T 0.0066 0.9530 0.0404 131 I 0.0057 0.9541 0.0402 132 K 0.0052 0.9566 0.0382 133 N 0.0047 0.9551 0.0402 134 F 0.0049 0.9464 0.0487 135 L 0.0052 0.9231 0.0717 136 A 0.0074 0.7743 0.2184 137 D 0.0424 0.4076 0.5500 138 K 0.0379 0.1770 0.7851 139 Q 0.1069 0.1414 0.7517 140 V 0.3968 0.1380 0.4651 141 L 0.3249 0.1012 0.5739 142 G 0.2264 0.0588 0.7148 143 A 0.3956 0.0269 0.5775 144 D 0.5359 0.0179 0.4462 145 F 0.6996 0.0156 0.2848 146 N 0.7692 0.0363 0.1945 147 Y 0.8993 0.0094 0.0913 148 A 0.9127 0.0061 0.0812 149 K 0.9094 0.0073 0.0833 150 Y 0.8562 0.0137 0.1300 151 S 0.6352 0.0343 0.3305 152 S 0.4775 0.0507 0.4719 153 K 0.2646 0.0563 0.6792 154 M 0.1592 0.0370 0.8038 155 P 0.1065 0.1593 0.7343 156 D 0.0989 0.2392 0.6619 157 L 0.0980 0.3238 0.5783 158 L 0.1126 0.2400 0.6474 159 A 0.0813 0.1833 0.7353 160 G 0.0547 0.1124 0.8328 161 Q 0.0838 0.0764 0.8398 162 T 0.1022 0.0481 0.8496 163 P 0.0801 0.1331 0.7868 164 N 0.1437 0.1935 0.6627 165 V 0.2552 0.1906 0.5543 166 F 0.2930 0.1251 0.5819 167 S 0.1907 0.1132 0.6961 168 D 0.0693 0.3652 0.5654 169 R 0.0725 0.3833 0.5441 170 F 0.1106 0.3280 0.5614 171 A 0.1259 0.1737 0.7004 172 G 0.1283 0.1192 0.7524 173 G 0.2058 0.1525 0.6417 174 A 0.3586 0.2317 0.4097 175 L 0.3563 0.3271 0.3166 176 M 0.2995 0.3564 0.3440 177 D 0.2169 0.3584 0.4248 178 L 0.0884 0.3987 0.5129 179 G 0.0850 0.2117 0.7033 180 I 0.0882 0.3848 0.5270 181 Y 0.0658 0.5438 0.3904 182 P 0.0121 0.9017 0.0863 183 L 0.0071 0.9369 0.0560 184 Y 0.0051 0.9523 0.0426 185 A 0.0047 0.9582 0.0371 186 A 0.0047 0.9578 0.0374 187 V 0.0054 0.9523 0.0422 188 R 0.0061 0.9322 0.0617 189 L 0.0138 0.7928 0.1934 190 F 0.0500 0.4451 0.5049 191 G 0.0441 0.0891 0.8668 192 K 0.0905 0.0423 0.8672 193 A 0.1783 0.1217 0.7000 194 N 0.2679 0.1414 0.5908 195 D 0.6126 0.0992 0.2882 196 A 0.8193 0.0311 0.1497 197 T 0.8821 0.0179 0.1000 198 Y 0.8838 0.0132 0.1029 199 H 0.8311 0.0199 0.1490 200 A 0.7889 0.0323 0.1789 201 Q 0.6966 0.0508 0.2526 202 Q 0.6747 0.0526 0.2727 203 L 0.4690 0.0779 0.4531 204 D 0.2072 0.0839 0.7089 205 N 0.0874 0.0830 0.8296 206 S 0.1228 0.0617 0.8155 207 I 0.3025 0.0581 0.6394 208 D 0.4200 0.0498 0.5302 209 L 0.5057 0.0722 0.4221 210 N 0.6204 0.0348 0.3448 211 G 0.7260 0.0143 0.2598 212 D 0.8429 0.0090 0.1482 213 G 0.9100 0.0044 0.0856 214 I 0.9263 0.0035 0.0702 215 L 0.9248 0.0038 0.0713 216 F 0.9095 0.0046 0.0859 217 Y 0.6425 0.0100 0.3475 218 P 0.0772 0.0768 0.8460 219 D 0.0412 0.0375 0.9213 220 Y 0.2263 0.0236 0.7501 221 Q 0.5518 0.0092 0.4390 222 V 0.8878 0.0037 0.1085 223 H 0.9184 0.0036 0.0780 224 I 0.9222 0.0040 0.0738 225 K 0.9064 0.0047 0.0889 226 A 0.8188 0.0116 0.1695 227 G 0.5988 0.0301 0.3711 228 K 0.4604 0.0706 0.4690 229 N 0.4524 0.0806 0.4670 230 I 0.3951 0.0823 0.5225 231 T 0.2296 0.0905 0.6798 232 S 0.1429 0.0819 0.7751 233 N 0.1055 0.0430 0.8515 234 L 0.1756 0.0118 0.8126 235 P 0.3707 0.0073 0.6220 236 C 0.8458 0.0046 0.1496 237 E 0.9192 0.0035 0.0772 238 I 0.9264 0.0034 0.0703 239 Y 0.8952 0.0051 0.0997 240 T 0.7167 0.0079 0.2754 241 T 0.3581 0.0597 0.5822 242 D 0.1448 0.0399 0.8154 243 G 0.3439 0.0260 0.6302 244 T 0.7912 0.0085 0.2003 245 L 0.8995 0.0042 0.0963 246 T 0.8954 0.0054 0.0992 247 L 0.8242 0.0130 0.1628 248 N 0.5229 0.0349 0.4422 249 T 0.3347 0.0410 0.6243 250 I 0.2826 0.1584 0.5590 251 E 0.2316 0.2322 0.5362 252 H 0.2686 0.2486 0.4827 253 I 0.4130 0.1953 0.3917 254 R 0.4865 0.2075 0.3060 255 S 0.6082 0.1738 0.2180 256 A 0.6697 0.1612 0.1692 257 I 0.6851 0.1384 0.1764 258 F 0.6309 0.1075 0.2617 259 T 0.4709 0.1047 0.4244 260 D 0.2310 0.1196 0.6494 261 H 0.1409 0.1208 0.7383 262 Q 0.1089 0.0897 0.8014 263 G 0.0982 0.0755 0.8263 264 N 0.2122 0.0704 0.7174 265 Q 0.4455 0.0663 0.4882 266 V 0.5188 0.0531 0.4281 267 Q 0.5054 0.0486 0.4460 268 L 0.3332 0.0380 0.6288 269 P 0.2443 0.0644 0.6913 270 I 0.1882 0.1575 0.6542 271 Q 0.1559 0.1706 0.6735 272 Q 0.1126 0.1619 0.7255 273 A 0.0731 0.0754 0.8515 274 P 0.0357 0.2639 0.7004 275 H 0.0362 0.2982 0.6656 276 T 0.0451 0.4384 0.5165 277 M 0.0214 0.7541 0.2244 278 T 0.0061 0.9317 0.0623 279 E 0.0047 0.9554 0.0399 280 E 0.0047 0.9589 0.0364 281 V 0.0047 0.9606 0.0347 282 A 0.0046 0.9607 0.0347 283 A 0.0047 0.9574 0.0379 284 F 0.0047 0.9574 0.0379 285 A 0.0047 0.9571 0.0382 286 H 0.0048 0.9541 0.0411 287 M 0.0055 0.9343 0.0602 288 I 0.0074 0.8732 0.1194 289 Q 0.0174 0.6045 0.3782 290 Q 0.0561 0.1548 0.7891 291 P 0.0271 0.1503 0.8225 292 D 0.0473 0.1636 0.7890 293 L 0.0756 0.2426 0.6818 294 N 0.0798 0.2827 0.6375 295 L 0.0909 0.3672 0.5419 296 Y 0.1119 0.3173 0.5709 297 Q 0.1352 0.3192 0.5456 298 T 0.1274 0.2812 0.5914 299 W 0.0999 0.3223 0.5778 300 L 0.0077 0.9216 0.0707 301 Y 0.0060 0.9405 0.0534 302 D 0.0063 0.9365 0.0572 303 A 0.0049 0.9510 0.0442 304 G 0.0048 0.9572 0.0380 305 S 0.0047 0.9595 0.0358 306 V 0.0047 0.9601 0.0352 307 H 0.0047 0.9603 0.0350 308 E 0.0046 0.9613 0.0341 309 L 0.0046 0.9609 0.0344 310 L 0.0046 0.9614 0.0340 311 Y 0.0046 0.9616 0.0337 312 T 0.0046 0.9611 0.0342 313 M 0.0047 0.9588 0.0365 314 R 0.0049 0.9539 0.0413 315 Q 0.0055 0.9380 0.0565 316 T 0.0095 0.8783 0.1122 317 A 0.0263 0.7177 0.2560 318 G 0.0231 0.3389 0.6380 319 I 0.0660 0.2022 0.7318 320 R 0.0826 0.0970 0.8204 321 F 0.1601 0.0396 0.8003 322 E 0.3588 0.0387 0.6024 323 A 0.2673 0.0430 0.6897 324 E 0.1297 0.0337 0.8366 325 K 0.0654 0.0453 0.8893