# This file is the result of combining several RDB files, specifically # T0386.t06.dssp-ebghstl.rdb (weight 1.53986) # T0386.t06.stride-ebghtl.rdb (weight 1.24869) # T0386.t06.str2.rdb (weight 1.54758) # T0386.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 T0386.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0386 # 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 T0386.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 543 # # ============================================ # Comments from T0386.t06.stride-ebghtl.rdb # ============================================ # TARGET T0386 # 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 T0386.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 543 # # ============================================ # Comments from T0386.t06.str2.rdb # ============================================ # TARGET T0386 # 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 T0386.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 543 # # ============================================ # Comments from T0386.t06.alpha.rdb # ============================================ # TARGET T0386 # 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 T0386.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 543 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0407 0.1009 0.8583 2 P 0.0580 0.4494 0.4926 3 K 0.0619 0.6821 0.2561 4 A 0.0809 0.7270 0.1921 5 K 0.0723 0.7724 0.1553 6 A 0.0751 0.7152 0.2097 7 K 0.0969 0.6203 0.2827 8 T 0.1640 0.5011 0.3349 9 K 0.1619 0.4221 0.4160 10 N 0.1730 0.2616 0.5654 11 T 0.1226 0.2900 0.5874 12 E 0.0837 0.2758 0.6405 13 I 0.1939 0.1877 0.6185 14 I 0.2906 0.0414 0.6680 15 S 0.0962 0.0198 0.8840 16 P 0.0261 0.1569 0.8170 17 H 0.0364 0.1142 0.8494 18 H 0.1607 0.1153 0.7241 19 Y 0.2649 0.0376 0.6975 20 V 0.2352 0.0331 0.7317 21 Y 0.0850 0.2985 0.6165 22 P 0.0252 0.5757 0.3992 23 N 0.0422 0.5835 0.3743 24 T 0.0493 0.7666 0.1841 25 T 0.0229 0.8762 0.1009 26 T 0.0398 0.8819 0.0782 27 L 0.0354 0.8832 0.0814 28 K 0.0353 0.8531 0.1116 29 N 0.0286 0.7584 0.2130 30 K 0.0263 0.6225 0.3511 31 Y 0.0551 0.3139 0.6310 32 G 0.0660 0.1676 0.7664 33 I 0.1192 0.1714 0.7094 34 K 0.1031 0.2683 0.6286 35 N 0.1083 0.2665 0.6252 36 L 0.0281 0.6626 0.3093 37 N 0.0189 0.8069 0.1741 38 A 0.0148 0.8502 0.1350 39 F 0.0124 0.8756 0.1120 40 L 0.0154 0.8626 0.1220 41 E 0.0164 0.8535 0.1301 42 K 0.0156 0.8546 0.1298 43 C 0.0301 0.7933 0.1766 44 S 0.0247 0.7966 0.1787 45 H 0.0276 0.8062 0.1661 46 D 0.0177 0.7921 0.1902 47 T 0.0155 0.8232 0.1614 48 A 0.0047 0.9516 0.0437 49 K 0.0047 0.9595 0.0359 50 A 0.0047 0.9583 0.0370 51 M 0.0047 0.9579 0.0374 52 I 0.0047 0.9565 0.0388 53 N 0.0048 0.9474 0.0478 54 L 0.0049 0.9274 0.0677 55 R 0.0061 0.8962 0.0977 56 E 0.0097 0.8381 0.1523 57 E 0.0158 0.6956 0.2886 58 S 0.0309 0.5218 0.4473 59 L 0.0546 0.1867 0.7587 60 P 0.0346 0.2187 0.7466 61 E 0.0462 0.2167 0.7371 62 Y 0.0770 0.1468 0.7762 63 F 0.1139 0.0288 0.8573 64 D 0.0660 0.0220 0.9120 65 T 0.0048 0.9524 0.0428 66 A 0.0047 0.9584 0.0369 67 Y 0.0047 0.9597 0.0356 68 L 0.0047 0.9608 0.0346 69 C 0.0046 0.9609 0.0344 70 H 0.0046 0.9608 0.0345 71 I 0.0046 0.9607 0.0346 72 H 0.0047 0.9586 0.0367 73 Q 0.0048 0.9529 0.0423 74 Q 0.0052 0.9316 0.0632 75 L 0.0069 0.8948 0.0982 76 F 0.0142 0.7917 0.1941 77 K 0.0171 0.6645 0.3184 78 N 0.0314 0.4246 0.5440 79 T 0.0672 0.3718 0.5610 80 F 0.1082 0.3248 0.5671 81 E 0.0925 0.3469 0.5606 82 W 0.1146 0.3037 0.5817 83 A 0.1143 0.2517 0.6340 84 G 0.1803 0.1334 0.6862 85 Y 0.5428 0.0793 0.3780 86 L 0.7269 0.0362 0.2369 87 R 0.6878 0.0248 0.2873 88 H 0.5983 0.0211 0.3807 89 I 0.4960 0.0175 0.4865 90 P 0.4977 0.0283 0.4740 91 F 0.5634 0.0317 0.4048 92 T 0.6708 0.0288 0.3004 93 F 0.5979 0.0511 0.3509 94 A 0.4163 0.0643 0.5193 95 D 0.2156 0.0612 0.7232 96 G 0.2396 0.0572 0.7032 97 T 0.3840 0.0676 0.5484 98 T 0.6040 0.0557 0.3403 99 A 0.6895 0.0441 0.2664 100 A 0.6989 0.0491 0.2519 101 M 0.4425 0.0744 0.4831 102 P 0.2598 0.1585 0.5817 103 E 0.1897 0.2366 0.5737 104 M 0.3025 0.1854 0.5120 105 K 0.2690 0.1744 0.5566 106 R 0.1964 0.1949 0.6088 107 T 0.1193 0.1024 0.7783 108 G 0.1113 0.0649 0.8237 109 W 0.2681 0.0565 0.6754 110 K 0.4868 0.0569 0.4564 111 N 0.6662 0.0420 0.2917 112 A 0.7097 0.0525 0.2379 113 F 0.6603 0.0463 0.2933 114 A 0.3995 0.0462 0.5544 115 I 0.1927 0.0551 0.7522 116 G 0.0582 0.3148 0.6270 117 D 0.0109 0.6656 0.3235 118 E 0.0110 0.7324 0.2566 119 I 0.0105 0.7804 0.2090 120 Q 0.0054 0.8996 0.0950 121 E 0.0049 0.9130 0.0821 122 G 0.0049 0.8991 0.0960 123 L 0.0048 0.9287 0.0665 124 Q 0.0047 0.9448 0.0505 125 R 0.0048 0.9417 0.0535 126 L 0.0047 0.9463 0.0490 127 D 0.0047 0.9537 0.0416 128 Q 0.0047 0.9511 0.0442 129 T 0.0048 0.9451 0.0502 130 L 0.0051 0.9235 0.0714 131 A 0.0060 0.8405 0.1535 132 E 0.0073 0.7455 0.2471 133 K 0.0133 0.6561 0.3306 134 N 0.0231 0.5274 0.4494 135 N 0.0280 0.4796 0.4924 136 L 0.0495 0.4606 0.4899 137 Q 0.0314 0.3339 0.6347 138 G 0.0326 0.2102 0.7572 139 L 0.0748 0.1329 0.7923 140 T 0.0842 0.1057 0.8102 141 R 0.0389 0.5893 0.3718 142 E 0.0163 0.7926 0.1911 143 E 0.0068 0.9005 0.0928 144 F 0.0053 0.9282 0.0665 145 N 0.0057 0.9353 0.0590 146 S 0.0048 0.9541 0.0411 147 E 0.0048 0.9570 0.0382 148 A 0.0047 0.9594 0.0359 149 I 0.0047 0.9597 0.0356 150 E 0.0047 0.9599 0.0354 151 L 0.0048 0.9559 0.0393 152 F 0.0056 0.9527 0.0418 153 N 0.0078 0.9378 0.0544 154 S 0.0103 0.9082 0.0815 155 L 0.0165 0.8631 0.1204 156 N 0.0315 0.7941 0.1744 157 Q 0.1038 0.6776 0.2186 158 L 0.1705 0.5252 0.3043 159 H 0.1712 0.1212 0.7076 160 P 0.0893 0.1248 0.7860 161 F 0.1042 0.1193 0.7765 162 R 0.0902 0.1575 0.7522 163 E 0.0558 0.1418 0.8025 164 G 0.0463 0.1235 0.8302 165 N 0.0464 0.1398 0.8138 166 G 0.0268 0.3407 0.6325 167 R 0.0095 0.9000 0.0904 168 T 0.0090 0.9463 0.0447 169 Q 0.0047 0.9591 0.0362 170 R 0.0047 0.9612 0.0342 171 L 0.0047 0.9609 0.0344 172 F 0.0047 0.9605 0.0349 173 F 0.0047 0.9608 0.0346 174 E 0.0046 0.9606 0.0348 175 N 0.0047 0.9594 0.0360 176 L 0.0047 0.9587 0.0367 177 A 0.0047 0.9598 0.0355 178 K 0.0049 0.9539 0.0412 179 A 0.0062 0.9209 0.0729 180 A 0.0441 0.4248 0.5311 181 G 0.0334 0.0203 0.9463 182 H 0.0659 0.0101 0.9240 183 Q 0.1907 0.0154 0.7939 184 L 0.3711 0.0157 0.6132 185 N 0.3785 0.0220 0.5996 186 F 0.3666 0.1219 0.5116 187 S 0.3955 0.1135 0.4909 188 L 0.3544 0.1236 0.5220 189 I 0.2104 0.0638 0.7258 190 T 0.1148 0.0348 0.8504 191 K 0.0072 0.9376 0.0552 192 E 0.0054 0.9538 0.0408 193 R 0.0048 0.9574 0.0379 194 M 0.0047 0.9602 0.0352 195 M 0.0047 0.9602 0.0351 196 V 0.0047 0.9585 0.0368 197 A 0.0048 0.9551 0.0401 198 S 0.0049 0.9484 0.0467 199 V 0.0056 0.9335 0.0609 200 A 0.0076 0.9145 0.0779 201 V 0.0180 0.8540 0.1280 202 A 0.0265 0.7091 0.2644 203 E 0.0231 0.5205 0.4564 204 N 0.0481 0.1665 0.7854 205 G 0.0273 0.0608 0.9119 206 D 0.0878 0.0470 0.8651 207 L 0.0636 0.4815 0.4549 208 E 0.0174 0.8362 0.1464 209 P 0.0108 0.9218 0.0675 210 M 0.0052 0.9499 0.0449 211 Q 0.0050 0.9555 0.0395 212 H 0.0047 0.9549 0.0404 213 L 0.0048 0.9510 0.0442 214 F 0.0049 0.9459 0.0492 215 E 0.0055 0.9320 0.0625 216 D 0.0077 0.8606 0.1317 217 I 0.0132 0.7073 0.2795 218 S 0.0287 0.4911 0.4802 219 N 0.0496 0.3193 0.6311 220 P 0.0050 0.8883 0.1068 221 E 0.0049 0.9243 0.0708 222 K 0.0048 0.9473 0.0480 223 I 0.0047 0.9553 0.0400 224 R 0.0047 0.9513 0.0440 225 L 0.0048 0.9477 0.0476 226 L 0.0047 0.9542 0.0411 227 K 0.0047 0.9581 0.0372 228 E 0.0047 0.9557 0.0395 229 F 0.0048 0.9524 0.0428 230 M 0.0048 0.9516 0.0436 231 H 0.0052 0.9383 0.0565 232 T 0.0063 0.9235 0.0702 233 M 0.0105 0.9073 0.0822 234 K 0.0136 0.8422 0.1442 235 N 0.0227 0.7387 0.2386 236 T 0.0426 0.5059 0.4515 237 G 0.0522 0.2423 0.7055 238 R 0.0896 0.2195 0.6908 239 N 0.1639 0.2106 0.6255 240 V 0.1284 0.2852 0.5863 241 N 0.0768 0.2111 0.7122 242 D 0.0575 0.1672 0.7753 243 R 0.0634 0.1696 0.7670 244 P 0.0661 0.4018 0.5321 245 V 0.1348 0.6089 0.2563 246 M 0.2346 0.6411 0.1243 247 V 0.3257 0.5780 0.0963 248 A 0.3315 0.5540 0.1145 249 K 0.2941 0.5159 0.1900 250 E 0.1862 0.5811 0.2326 251 G 0.1155 0.5583 0.3261 252 E 0.1174 0.5412 0.3414 253 T 0.1755 0.5444 0.2801 254 Y 0.2053 0.4984 0.2963 255 T 0.1278 0.3628 0.5093 256 G 0.1316 0.2146 0.6538 257 T 0.1971 0.2030 0.5999 258 Y 0.2160 0.1729 0.6111 259 R 0.1351 0.1489 0.7161 260 G 0.1108 0.1205 0.7687 261 A 0.1121 0.1979 0.6900 262 G 0.1735 0.1692 0.6573 263 L 0.2194 0.3265 0.4540 264 E 0.2816 0.3515 0.3669 265 G 0.4175 0.2873 0.2952 266 F 0.5413 0.2123 0.2464 267 A 0.5140 0.2064 0.2796 268 L 0.3822 0.2373 0.3804 269 N 0.2106 0.1827 0.6066 270 V 0.1707 0.1696 0.6596 271 K 0.0795 0.2124 0.7081 272 G 0.0198 0.6486 0.3317 273 A 0.0214 0.7770 0.2016 274 Y 0.0580 0.7896 0.1524 275 I 0.0810 0.7846 0.1344 276 I 0.0799 0.7325 0.1876 277 G 0.0621 0.6607 0.2772 278 N 0.0535 0.6238 0.3227 279 I 0.0228 0.7621 0.2150 280 D 0.0123 0.6426 0.3452 281 H 0.0166 0.4339 0.5494 282 L 0.0803 0.0425 0.8771 283 P 0.0659 0.0274 0.9067 284 P 0.0500 0.5768 0.3732 285 E 0.0613 0.5555 0.3832 286 Q 0.1383 0.4762 0.3854 287 L 0.4602 0.1968 0.3430 288 K 0.6751 0.1413 0.1836 289 I 0.7374 0.1079 0.1547 290 L 0.7205 0.0636 0.2159 291 K 0.3607 0.0287 0.6106 292 P 0.0974 0.0797 0.8230 293 G 0.0647 0.0509 0.8844 294 D 0.1588 0.0480 0.7933 295 K 0.2873 0.0808 0.6319 296 I 0.5288 0.0523 0.4189 297 T 0.6326 0.0457 0.3218 298 F 0.5294 0.0277 0.4429 299 T 0.1793 0.0188 0.8019