# This file is the result of combining several RDB files, specifically # T0365.t04.dssp-ebghstl.rdb (weight 1.53986) # T0365.t04.stride-ebghtl.rdb (weight 1.24869) # T0365.t04.str2.rdb (weight 1.54758) # T0365.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 T0365.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0365 # 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 T0365.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 164 # # ============================================ # Comments from T0365.t04.stride-ebghtl.rdb # ============================================ # TARGET T0365 # 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 T0365.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 164 # # ============================================ # Comments from T0365.t04.str2.rdb # ============================================ # TARGET T0365 # 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 T0365.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 164 # # ============================================ # Comments from T0365.t04.alpha.rdb # ============================================ # TARGET T0365 # 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 T0365.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 164 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0657 0.0148 0.9195 2 P 0.1019 0.0425 0.8556 3 V 0.0841 0.5034 0.4125 4 N 0.0879 0.5891 0.3229 5 S 0.1174 0.6440 0.2387 6 I 0.1347 0.6318 0.2334 7 L 0.1301 0.5640 0.3059 8 G 0.0841 0.3175 0.5985 9 V 0.1220 0.2684 0.6095 10 F 0.1517 0.1608 0.6875 11 A 0.0891 0.1669 0.7439 12 K 0.0642 0.1402 0.7956 13 S 0.0782 0.0514 0.8703 14 P 0.0363 0.2231 0.7406 15 I 0.0373 0.3218 0.6409 16 K 0.0208 0.6264 0.3528 17 P 0.0132 0.8104 0.1764 18 L 0.0059 0.9247 0.0695 19 Q 0.0051 0.9492 0.0457 20 E 0.0051 0.9497 0.0452 21 H 0.0050 0.9507 0.0442 22 M 0.0047 0.9587 0.0366 23 D 0.0047 0.9591 0.0362 24 K 0.0047 0.9578 0.0375 25 V 0.0047 0.9582 0.0371 26 Y 0.0047 0.9604 0.0349 27 D 0.0046 0.9580 0.0374 28 C 0.0047 0.9556 0.0397 29 A 0.0047 0.9566 0.0387 30 S 0.0048 0.9466 0.0486 31 L 0.0048 0.9168 0.0784 32 L 0.0051 0.9288 0.0661 33 V 0.0047 0.9531 0.0422 34 P 0.0047 0.9554 0.0399 35 F 0.0047 0.9557 0.0396 36 F 0.0051 0.9508 0.0441 37 E 0.0051 0.9486 0.0463 38 A 0.0055 0.9419 0.0526 39 T 0.0087 0.9197 0.0717 40 I 0.0176 0.8198 0.1626 41 T 0.0375 0.5227 0.4397 42 G 0.0351 0.1285 0.8364 43 N 0.0733 0.0555 0.8711 44 W 0.0125 0.7788 0.2087 45 D 0.0069 0.8760 0.1171 46 D 0.0073 0.9063 0.0864 47 A 0.0047 0.9566 0.0387 48 V 0.0047 0.9607 0.0346 49 Q 0.0047 0.9611 0.0342 50 I 0.0047 0.9590 0.0362 51 R 0.0047 0.9593 0.0360 52 K 0.0047 0.9569 0.0383 53 Q 0.0048 0.9536 0.0417 54 I 0.0052 0.9533 0.0415 55 S 0.0048 0.9563 0.0390 56 L 0.0048 0.9515 0.0438 57 A 0.0051 0.9444 0.0505 58 E 0.0054 0.9325 0.0622 59 K 0.0063 0.9186 0.0751 60 Q 0.0084 0.8928 0.0988 61 G 0.0080 0.9123 0.0797 62 D 0.0056 0.9367 0.0577 63 S 0.0053 0.9511 0.0435 64 L 0.0054 0.9539 0.0407 65 K 0.0050 0.9587 0.0363 66 R 0.0050 0.9599 0.0351 67 E 0.0051 0.9584 0.0366 68 I 0.0051 0.9541 0.0408 69 R 0.0057 0.9461 0.0483 70 L 0.0081 0.9066 0.0853 71 T 0.0179 0.7031 0.2791 72 L 0.0717 0.1597 0.7686 73 P 0.0406 0.1916 0.7677 74 S 0.0603 0.2285 0.7112 75 G 0.1928 0.1809 0.6263 76 L 0.4905 0.0682 0.4413 77 F 0.5442 0.0242 0.4316 78 M 0.4180 0.0158 0.5661 79 P 0.2459 0.0466 0.7076 80 V 0.1416 0.0924 0.7660 81 E 0.0970 0.0801 0.8229 82 R 0.0073 0.9227 0.0700 83 T 0.0057 0.9399 0.0544 84 D 0.0054 0.9443 0.0503 85 L 0.0048 0.9576 0.0376 86 L 0.0047 0.9596 0.0357 87 E 0.0047 0.9603 0.0350 88 L 0.0047 0.9588 0.0364 89 L 0.0048 0.9549 0.0404 90 T 0.0056 0.9288 0.0655 91 Q 0.0062 0.8802 0.1136 92 Q 0.0054 0.9053 0.0894 93 D 0.0051 0.9021 0.0928 94 K 0.0048 0.9300 0.0652 95 I 0.0049 0.9390 0.0561 96 A 0.0048 0.9415 0.0537 97 N 0.0049 0.9386 0.0566 98 K 0.0051 0.9389 0.0560 99 A 0.0049 0.9504 0.0447 100 K 0.0053 0.9520 0.0427 101 D 0.0053 0.9501 0.0446 102 I 0.0059 0.9379 0.0562 103 S 0.0059 0.9362 0.0579 104 G 0.0072 0.9151 0.0777 105 R 0.0137 0.8945 0.0917 106 V 0.0389 0.8618 0.0993 107 I 0.0688 0.7654 0.1658 108 G 0.1041 0.6644 0.2315 109 R 0.1193 0.5098 0.3709 110 Q 0.1926 0.3071 0.5003 111 L 0.2971 0.1317 0.5712 112 L 0.2784 0.0796 0.6420 113 I 0.1425 0.0392 0.8183 114 P 0.0804 0.0713 0.8482 115 Q 0.0259 0.4606 0.5135 116 A 0.0256 0.4977 0.4768 117 L 0.0480 0.4049 0.5471 118 Q 0.0376 0.3909 0.5715 119 V 0.0089 0.8896 0.1015 120 P 0.0067 0.9192 0.0741 121 F 0.0047 0.9554 0.0399 122 I 0.0047 0.9605 0.0349 123 A 0.0046 0.9612 0.0341 124 Y 0.0047 0.9604 0.0349 125 L 0.0047 0.9608 0.0345 126 Q 0.0046 0.9613 0.0341 127 R 0.0046 0.9610 0.0344 128 C 0.0046 0.9609 0.0344 129 I 0.0047 0.9608 0.0346 130 D 0.0046 0.9612 0.0341 131 A 0.0047 0.9600 0.0354 132 V 0.0047 0.9603 0.0350 133 G 0.0046 0.9603 0.0351 134 L 0.0046 0.9587 0.0366 135 A 0.0047 0.9600 0.0353 136 Q 0.0047 0.9601 0.0352 137 Q 0.0047 0.9568 0.0386 138 V 0.0048 0.9498 0.0455 139 I 0.0047 0.9502 0.0451 140 N 0.0049 0.9396 0.0555 141 E 0.0051 0.9094 0.0855 142 L 0.0048 0.9289 0.0663 143 D 0.0047 0.9522 0.0431 144 D 0.0047 0.9523 0.0431 145 L 0.0048 0.9454 0.0498 146 L 0.0056 0.9331 0.0612 147 E 0.0075 0.8904 0.1020 148 A 0.0357 0.6608 0.3034 149 G 0.0349 0.2321 0.7330 150 F 0.0595 0.1399 0.8005 151 R 0.0467 0.1163 0.8370 152 G 0.0312 0.1052 0.8637 153 R 0.0650 0.1078 0.8272 154 E 0.1179 0.2000 0.6821 155 V 0.0096 0.8841 0.1063 156 D 0.0048 0.9465 0.0487 157 F 0.0047 0.9558 0.0395 158 V 0.0047 0.9586 0.0367 159 A 0.0047 0.9600 0.0353 160 K 0.0047 0.9584 0.0370 161 M 0.0049 0.9531 0.0421 162 I 0.0047 0.9557 0.0396 163 N 0.0048 0.9501 0.0451 164 E 0.0050 0.9448 0.0503 165 L 0.0056 0.9492 0.0451 166 D 0.0049 0.9496 0.0455 167 I 0.0054 0.9471 0.0475 168 I 0.0065 0.9329 0.0606 169 E 0.0062 0.9172 0.0767 170 E 0.0081 0.8946 0.0973 171 D 0.0148 0.8475 0.1377 172 T 0.0137 0.8801 0.1061 173 D 0.0054 0.9161 0.0785 174 D 0.0047 0.9575 0.0378 175 L 0.0047 0.9601 0.0353 176 Q 0.0046 0.9607 0.0346 177 I 0.0046 0.9616 0.0338 178 Q 0.0046 0.9613 0.0341 179 L 0.0047 0.9600 0.0353 180 R 0.0047 0.9605 0.0348 181 R 0.0047 0.9603 0.0350 182 Q 0.0047 0.9549 0.0403 183 L 0.0048 0.9400 0.0552 184 F 0.0053 0.9028 0.0919 185 A 0.0069 0.8284 0.1647 186 L 0.0113 0.7574 0.2313 187 E 0.0229 0.6280 0.3491 188 S 0.0172 0.4499 0.5329 189 E 0.0272 0.2847 0.6880 190 L 0.0852 0.0895 0.8253 191 N 0.0716 0.0296 0.8988 192 P 0.0059 0.9362 0.0578 193 V 0.0050 0.9544 0.0405 194 D 0.0055 0.9556 0.0389 195 V 0.0054 0.9584 0.0362 196 M 0.0049 0.9601 0.0349 197 F 0.0046 0.9597 0.0357 198 L 0.0047 0.9601 0.0352 199 Y 0.0047 0.9604 0.0349 200 K 0.0047 0.9606 0.0348 201 T 0.0047 0.9594 0.0360 202 I 0.0047 0.9601 0.0352 203 E 0.0047 0.9604 0.0349 204 W 0.0047 0.9586 0.0367 205 V 0.0048 0.9545 0.0407 206 G 0.0049 0.9513 0.0438 207 G 0.0049 0.9351 0.0599 208 L 0.0055 0.9300 0.0645 209 A 0.0050 0.9444 0.0506 210 D 0.0049 0.9431 0.0520 211 L 0.0048 0.9420 0.0532 212 A 0.0048 0.9413 0.0539 213 E 0.0047 0.9402 0.0551 214 R 0.0047 0.9382 0.0571 215 V 0.0049 0.9346 0.0606 216 G 0.0048 0.9419 0.0533 217 S 0.0053 0.9339 0.0609 218 R 0.0092 0.9149 0.0758 219 L 0.0196 0.9070 0.0734 220 E 0.0696 0.8457 0.0847 221 L 0.0941 0.8383 0.0676 222 M 0.1193 0.8056 0.0751 223 L 0.2931 0.5902 0.1167 224 A 0.4142 0.3880 0.1978 225 R 0.3458 0.1268 0.5274 226 V 0.1031 0.0303 0.8666