# This file is the result of combining several RDB files, specifically # T0341.t04.dssp-ebghstl.rdb (weight 1.53986) # T0341.t04.stride-ebghtl.rdb (weight 1.24869) # T0341.t04.str2.rdb (weight 1.54758) # T0341.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 T0341.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0341 # 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 T0341.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 2264 # # ============================================ # Comments from T0341.t04.stride-ebghtl.rdb # ============================================ # TARGET T0341 # 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 T0341.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 2264 # # ============================================ # Comments from T0341.t04.str2.rdb # ============================================ # TARGET T0341 # 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 T0341.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 2264 # # ============================================ # Comments from T0341.t04.alpha.rdb # ============================================ # TARGET T0341 # 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 T0341.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 2264 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0520 0.1459 0.8021 2 A 0.0483 0.2656 0.6862 3 A 0.0435 0.3754 0.5811 4 R 0.0491 0.4013 0.5496 5 R 0.0723 0.3510 0.5767 6 A 0.1388 0.1375 0.7238 7 L 0.2720 0.0184 0.7096 8 K 0.3785 0.0357 0.5858 9 A 0.9230 0.0035 0.0735 10 V 0.9331 0.0033 0.0636 11 L 0.9337 0.0031 0.0632 12 V 0.9192 0.0038 0.0769 13 D 0.7045 0.0045 0.2910 14 L 0.2724 0.0470 0.6807 15 N 0.0901 0.0437 0.8662 16 G 0.1000 0.0492 0.8507 17 T 0.3238 0.0465 0.6297 18 L 0.6886 0.0408 0.2706 19 H 0.6580 0.0526 0.2894 20 I 0.4202 0.0711 0.5088 21 E 0.1402 0.1482 0.7116 22 D 0.0763 0.2557 0.6680 23 A 0.0518 0.3669 0.5813 24 A 0.0459 0.3496 0.6045 25 V 0.0376 0.4716 0.4908 26 P 0.0066 0.8800 0.1134 27 G 0.0064 0.8974 0.0962 28 A 0.0050 0.9459 0.0491 29 Q 0.0047 0.9590 0.0363 30 E 0.0047 0.9596 0.0358 31 A 0.0047 0.9600 0.0354 32 L 0.0047 0.9602 0.0351 33 K 0.0047 0.9600 0.0353 34 R 0.0047 0.9593 0.0360 35 L 0.0048 0.9556 0.0396 36 R 0.0050 0.9443 0.0507 37 A 0.0065 0.8661 0.1274 38 T 0.0440 0.3887 0.5673 39 S 0.0459 0.0345 0.9196 40 V 0.0948 0.0250 0.8802 41 M 0.3582 0.0232 0.6185 42 V 0.7088 0.0297 0.2615 43 R 0.7957 0.0305 0.1739 44 F 0.8525 0.0253 0.1222 45 V 0.7352 0.0417 0.2231 46 T 0.4603 0.0553 0.4845 47 N 0.1743 0.0726 0.7531 48 T 0.0915 0.0783 0.8302 49 T 0.0840 0.0961 0.8199 50 K 0.0816 0.0849 0.8335 51 E 0.1027 0.0307 0.8666 52 T 0.0776 0.0387 0.8838 53 K 0.0051 0.9372 0.0577 54 K 0.0047 0.9569 0.0385 55 D 0.0047 0.9577 0.0377 56 L 0.0047 0.9586 0.0368 57 L 0.0047 0.9599 0.0354 58 E 0.0047 0.9575 0.0378 59 R 0.0048 0.9538 0.0415 60 L 0.0050 0.9369 0.0582 61 K 0.0057 0.8838 0.1105 62 K 0.0098 0.6590 0.3312 63 L 0.0548 0.3466 0.5986 64 E 0.0608 0.1156 0.8236 65 F 0.0843 0.0508 0.8648 66 E 0.1838 0.0597 0.7565 67 I 0.1616 0.0712 0.7672 68 S 0.1095 0.0664 0.8241 69 E 0.0461 0.3858 0.5681 70 D 0.0534 0.3291 0.6174 71 E 0.1238 0.3562 0.5201 72 I 0.2428 0.3113 0.4458 73 F 0.2089 0.2616 0.5295 74 T 0.1224 0.2296 0.6479 75 S 0.0472 0.5785 0.3743 76 L 0.0062 0.9291 0.0647 77 T 0.0055 0.9524 0.0421 78 A 0.0057 0.9550 0.0392 79 A 0.0052 0.9564 0.0384 80 R 0.0047 0.9577 0.0376 81 N 0.0048 0.9545 0.0408 82 L 0.0048 0.9516 0.0436 83 I 0.0049 0.9459 0.0491 84 E 0.0055 0.9257 0.0688 85 Q 0.0087 0.8454 0.1459 86 K 0.0429 0.6011 0.3560 87 Q 0.0336 0.2062 0.7602 88 V 0.0613 0.1266 0.8122 89 R 0.0719 0.1168 0.8112 90 P 0.0757 0.3688 0.5556 91 M 0.0938 0.5594 0.3468 92 L 0.1335 0.5504 0.3161 93 L 0.1571 0.4469 0.3960 94 L 0.1192 0.3509 0.5300 95 D 0.0714 0.2090 0.7195 96 D 0.0144 0.6040 0.3816 97 R 0.0193 0.6060 0.3748 98 A 0.0215 0.6912 0.2873 99 L 0.0257 0.7472 0.2270 100 P 0.0111 0.8474 0.1415 101 E 0.0129 0.8713 0.1158 102 F 0.0249 0.8532 0.1219 103 T 0.0257 0.7823 0.1921 104 G 0.0264 0.6802 0.2934 105 V 0.0435 0.6387 0.3178 106 Q 0.0823 0.4943 0.4234 107 T 0.0964 0.3226 0.5809 108 Q 0.0811 0.1912 0.7277 109 D 0.1016 0.0326 0.8658 110 P 0.0370 0.2733 0.6897 111 N 0.0701 0.2706 0.6593 112 A 0.4222 0.2186 0.3592 113 V 0.7069 0.0949 0.1982 114 V 0.7355 0.0709 0.1935 115 I 0.5175 0.1001 0.3824 116 G 0.2435 0.0868 0.6697 117 L 0.1655 0.1252 0.7093 118 A 0.1108 0.1446 0.7447 119 P 0.0449 0.3002 0.6549 120 E 0.0408 0.3930 0.5661 121 H 0.0684 0.3710 0.5606 122 F 0.0774 0.3353 0.5874 123 H 0.0746 0.3449 0.5805 124 Y 0.0305 0.6179 0.3515 125 Q 0.0067 0.8687 0.1246 126 L 0.0069 0.8823 0.1108 127 L 0.0048 0.9457 0.0495 128 N 0.0047 0.9561 0.0392 129 Q 0.0047 0.9590 0.0363 130 A 0.0047 0.9602 0.0352 131 F 0.0048 0.9578 0.0374 132 R 0.0047 0.9581 0.0372 133 L 0.0054 0.9478 0.0468 134 L 0.0058 0.9288 0.0653 135 L 0.0089 0.8367 0.1544 136 D 0.0397 0.3229 0.6374 137 G 0.0358 0.0330 0.9312 138 A 0.0689 0.0089 0.9222 139 P 0.2411 0.0120 0.7469 140 L 0.8739 0.0049 0.1212 141 I 0.9136 0.0038 0.0826 142 A 0.9069 0.0039 0.0892 143 I 0.7181 0.0134 0.2684 144 H 0.2357 0.0213 0.7431 145 K 0.0889 0.1101 0.8010 146 A 0.0696 0.2948 0.6355 147 R 0.0607 0.5528 0.3865 148 Y 0.0785 0.6184 0.3031 149 Y 0.1161 0.5942 0.2897 150 K 0.1285 0.5708 0.3007 151 R 0.1250 0.5472 0.3277 152 K 0.0683 0.6137 0.3180 153 D 0.0713 0.5161 0.4126 154 G 0.0694 0.5428 0.3879 155 L 0.0945 0.4809 0.4246 156 A 0.1107 0.4048 0.4845 157 L 0.1150 0.1943 0.6907 158 G 0.0701 0.0581 0.8719 159 P 0.0714 0.2575 0.6711 160 G 0.0750 0.2890 0.6360 161 P 0.0789 0.4685 0.4526 162 F 0.0421 0.7267 0.2312 163 V 0.0347 0.7893 0.1760 164 T 0.0388 0.7792 0.1821 165 A 0.0386 0.7830 0.1784 166 L 0.1138 0.6843 0.2020 167 E 0.0979 0.6687 0.2334 168 Y 0.2025 0.6316 0.1659 169 A 0.3628 0.4901 0.1471 170 T 0.3697 0.3835 0.2468 171 D 0.2505 0.1665 0.5830 172 T 0.0729 0.4413 0.4858 173 K 0.0663 0.4886 0.4450 174 A 0.1271 0.5056 0.3672 175 M 0.2024 0.3916 0.4060 176 V 0.2349 0.3352 0.4299 177 V 0.1602 0.2374 0.6024 178 G 0.0982 0.1008 0.8009 179 K 0.0872 0.0330 0.8798 180 P 0.0986 0.0386 0.8628 181 E 0.0662 0.0908 0.8430 182 K 0.0083 0.8979 0.0938 183 T 0.0060 0.9373 0.0567 184 F 0.0049 0.9518 0.0434 185 F 0.0047 0.9575 0.0378 186 L 0.0047 0.9603 0.0350 187 E 0.0047 0.9604 0.0350 188 A 0.0047 0.9609 0.0345 189 L 0.0047 0.9585 0.0367 190 R 0.0050 0.9475 0.0475 191 D 0.0063 0.8836 0.1101 192 A 0.0475 0.3629 0.5896 193 D 0.0459 0.0149 0.9392 194 C 0.0610 0.0080 0.9310 195 A 0.0688 0.0101 0.9211 196 P 0.0309 0.6682 0.3009 197 E 0.0532 0.6258 0.3210 198 E 0.2358 0.4390 0.3252 199 A 0.8513 0.0205 0.1282 200 V 0.9009 0.0120 0.0871 201 M 0.9132 0.0075 0.0792 202 I 0.8235 0.0347 0.1418 203 G 0.4984 0.0259 0.4757 204 D 0.1785 0.0491 0.7724 205 D 0.1125 0.0687 0.8188 206 C 0.0395 0.3624 0.5982 207 R 0.0173 0.6522 0.3306 208 D 0.0263 0.6534 0.3204 209 D 0.0163 0.7249 0.2589 210 V 0.0054 0.9308 0.0638 211 D 0.0048 0.9499 0.0453 212 G 0.0047 0.9578 0.0375 213 A 0.0047 0.9573 0.0380 214 Q 0.0048 0.9518 0.0434 215 N 0.0054 0.9166 0.0780 216 I 0.0442 0.4241 0.5317 217 G 0.0441 0.0218 0.9341 218 M 0.1011 0.0080 0.8910 219 L 0.3020 0.0319 0.6661 220 G 0.8680 0.0085 0.1235 221 I 0.9221 0.0040 0.0739 222 L 0.9257 0.0034 0.0709 223 V 0.8739 0.0067 0.1194 224 K 0.5880 0.0124 0.3995 225 T 0.1867 0.0538 0.7595 226 G 0.0868 0.0575 0.8557 227 K 0.1346 0.0820 0.7834 228 Y 0.1608 0.0824 0.7568 229 K 0.1350 0.1097 0.7552 230 A 0.0610 0.4660 0.4730 231 A 0.0462 0.5687 0.3851 232 D 0.0397 0.6229 0.3373 233 E 0.0315 0.7170 0.2515 234 E 0.0394 0.6433 0.3173 235 K 0.0422 0.5243 0.4336 236 I 0.0794 0.2319 0.6887 237 N 0.0587 0.0406 0.9007 238 P 0.0603 0.0189 0.9208 239 P 0.0868 0.0168 0.8965 240 P 0.2264 0.0249 0.7486 241 Y 0.5545 0.0418 0.4036 242 L 0.8508 0.0120 0.1371 243 T 0.8746 0.0127 0.1127 244 C 0.7070 0.0253 0.2678 245 E 0.3140 0.0724 0.6136 246 S 0.1147 0.0510 0.8343 247 F 0.0261 0.6551 0.3189 248 P 0.0061 0.8856 0.1083 249 H 0.0058 0.9151 0.0791 250 A 0.0058 0.9286 0.0656 251 V 0.0048 0.9502 0.0451 252 D 0.0047 0.9530 0.0423 253 H 0.0048 0.9544 0.0408 254 I 0.0048 0.9495 0.0457 255 L 0.0050 0.9317 0.0633 256 Q 0.0068 0.8704 0.1229 257 H 0.0149 0.7245 0.2606 258 L 0.0304 0.3005 0.6692 259 L 0.0352 0.0603 0.9045