# This file is the result of combining several RDB files, specifically # T0344.t06.dssp-ebghstl.rdb (weight 1.53986) # T0344.t06.stride-ebghtl.rdb (weight 1.24869) # T0344.t06.str2.rdb (weight 1.54758) # T0344.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 T0344.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0344 # 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 T0344.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 2.13026 # # ============================================ # Comments from T0344.t06.stride-ebghtl.rdb # ============================================ # TARGET T0344 # 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 T0344.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 2.13026 # # ============================================ # Comments from T0344.t06.str2.rdb # ============================================ # TARGET T0344 # 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 T0344.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 2.13026 # # ============================================ # Comments from T0344.t06.alpha.rdb # ============================================ # TARGET T0344 # 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 T0344.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 2.13026 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1627 0.0129 0.8244 2 R 0.7280 0.0115 0.2605 3 I 0.8918 0.0089 0.0993 4 V 0.8794 0.0167 0.1038 5 A 0.8289 0.0212 0.1499 6 A 0.6200 0.0625 0.3175 7 D 0.3393 0.0638 0.5970 8 T 0.1573 0.0585 0.7842 9 G 0.1068 0.0939 0.7994 10 G 0.1618 0.1439 0.6943 11 A 0.3574 0.1956 0.4470 12 V 0.4888 0.1972 0.3140 13 L 0.4405 0.1955 0.3640 14 D 0.2173 0.2123 0.5705 15 E 0.0501 0.3917 0.5582 16 T 0.0557 0.3018 0.6425 17 F 0.1195 0.2162 0.6644 18 E 0.1152 0.1814 0.7034 19 P 0.1691 0.3349 0.4959 20 I 0.1920 0.4653 0.3427 21 G 0.3449 0.4019 0.2532 22 L 0.4552 0.3907 0.1542 23 I 0.5073 0.3407 0.1520 24 A 0.5877 0.2436 0.1686 25 T 0.6468 0.1956 0.1575 26 V 0.6287 0.2499 0.1213 27 A 0.5776 0.3209 0.1015 28 V 0.5555 0.3455 0.0990 29 L 0.5504 0.3329 0.1167 30 V 0.5261 0.2683 0.2056 31 E 0.4128 0.2104 0.3767 32 K 0.2165 0.0900 0.6935 33 P 0.1344 0.1244 0.7412 34 Y 0.1298 0.1780 0.6922 35 R 0.1248 0.1822 0.6930 36 S 0.1242 0.1677 0.7081 37 A 0.1089 0.4160 0.4750 38 K 0.1719 0.3875 0.4406 39 E 0.4049 0.2816 0.3135 40 V 0.5566 0.1978 0.2456 41 M 0.6813 0.1450 0.1737 42 V 0.7075 0.1172 0.1754 43 K 0.6887 0.1154 0.1958 44 Y 0.6020 0.0670 0.3310 45 A 0.3162 0.0532 0.6306 46 N 0.1518 0.0162 0.8319 47 P 0.0460 0.1936 0.7604 48 Y 0.0883 0.1860 0.7257 49 D 0.1563 0.1926 0.6510 50 Y 0.2226 0.1570 0.6204 51 D 0.2394 0.1286 0.6320 52 L 0.1074 0.3175 0.5751 53 T 0.1045 0.3184 0.5770 54 G 0.0605 0.4139 0.5256 55 R 0.0681 0.6476 0.2843 56 Q 0.0961 0.7182 0.1856 57 A 0.0967 0.7358 0.1675 58 I 0.0750 0.7678 0.1571 59 R 0.0387 0.8356 0.1257 60 D 0.0181 0.8890 0.0929 61 E 0.0110 0.9350 0.0540 62 V 0.0101 0.9470 0.0429 63 L 0.0081 0.9540 0.0378 64 L 0.0081 0.9533 0.0386 65 A 0.0090 0.9527 0.0383 66 I 0.0130 0.9466 0.0404 67 E 0.0140 0.9401 0.0459 68 L 0.0108 0.9225 0.0666 69 A 0.0123 0.8822 0.1055 70 R 0.0223 0.7984 0.1793 71 K 0.0416 0.6058 0.3526 72 V 0.0978 0.2765 0.6258 73 K 0.0932 0.0321 0.8747 74 P 0.0835 0.0846 0.8319 75 D 0.1431 0.1041 0.7528 76 V 0.7676 0.0366 0.1957 77 I 0.8682 0.0168 0.1150 78 H 0.8523 0.0164 0.1313 79 L 0.6593 0.0466 0.2941 80 D 0.2945 0.0735 0.6320 81 S 0.1536 0.1542 0.6922 82 T 0.1619 0.1822 0.6558 83 L 0.2202 0.1665 0.6133 84 G 0.1427 0.1034 0.7539 85 G 0.3175 0.0800 0.6025 86 I 0.6244 0.0663 0.3093 87 E 0.7231 0.0671 0.2098 88 L 0.6595 0.1120 0.2285 89 R 0.5735 0.1321 0.2944 90 K 0.4686 0.1053 0.4261 91 L 0.2047 0.0829 0.7124 92 D 0.1090 0.0602 0.8308 93 E 0.0545 0.4541 0.4914 94 P 0.0585 0.5442 0.3973 95 T 0.0768 0.6167 0.3065 96 I 0.0930 0.6948 0.2122 97 D 0.1208 0.6284 0.2507 98 A 0.1349 0.6202 0.2449 99 L 0.1938 0.3986 0.4076 100 G 0.2301 0.1241 0.6458 101 I 0.2972 0.0808 0.6220 102 S 0.2183 0.0996 0.6821 103 D 0.0858 0.2250 0.6891 104 K 0.0468 0.2502 0.7030 105 G 0.0434 0.2608 0.6958 106 K 0.0625 0.6384 0.2991 107 E 0.1705 0.6731 0.1564 108 V 0.1121 0.7554 0.1324 109 W 0.0772 0.8073 0.1155 110 K 0.0452 0.8431 0.1117 111 E 0.0447 0.7970 0.1583 112 L 0.0233 0.7521 0.2247 113 S 0.0255 0.6761 0.2985 114 K 0.0093 0.6468 0.3438 115 D 0.0145 0.5486 0.4369 116 L 0.0183 0.6698 0.3118 117 Q 0.0102 0.7860 0.2039 118 P 0.0066 0.8906 0.1028 119 L 0.0061 0.9149 0.0790 120 A 0.0112 0.9040 0.0848 121 R 0.0106 0.9015 0.0879 122 K 0.0137 0.8740 0.1123 123 F 0.0234 0.8462 0.1303 124 W 0.0367 0.8298 0.1335 125 E 0.0251 0.8387 0.1362 126 E 0.0365 0.7590 0.2045 127 T 0.0664 0.3750 0.5586 128 N 0.0949 0.0332 0.8719 129 I 0.3790 0.0083 0.6127 130 E 0.7856 0.0060 0.2083 131 I 0.9172 0.0042 0.0786 132 V 0.9015 0.0095 0.0890 133 A 0.8946 0.0076 0.0978 134 I 0.7298 0.0272 0.2430 135 G 0.3371 0.0233 0.6396 136 K 0.1691 0.0985 0.7325 137 S 0.1413 0.0994 0.7594 138 S 0.2030 0.1046 0.6924 139 V 0.2941 0.0726 0.6333 140 P 0.3470 0.1177 0.5354 141 V 0.4466 0.2498 0.3036 142 R 0.4996 0.2595 0.2409 143 I 0.3414 0.5172 0.1413 144 A 0.2759 0.6048 0.1192 145 E 0.3068 0.5885 0.1047 146 I 0.2541 0.6275 0.1183 147 Y 0.1824 0.6596 0.1580 148 A 0.1127 0.6337 0.2536 149 G 0.1104 0.5469 0.3427 150 I 0.1944 0.5644 0.2412 151 Y 0.2292 0.5644 0.2064 152 S 0.2294 0.5453 0.2253 153 A 0.1325 0.6949 0.1726 154 K 0.1183 0.7393 0.1424 155 W 0.1983 0.6145 0.1873 156 G 0.2728 0.5083 0.2189 157 I 0.2792 0.5114 0.2094 158 E 0.2750 0.4691 0.2559 159 N 0.2819 0.4554 0.2627 160 V 0.3136 0.4048 0.2815 161 E 0.2596 0.3968 0.3436 162 K 0.2150 0.3689 0.4161 163 E 0.0670 0.1138 0.8192 164 G 0.0573 0.0405 0.9022 165 H 0.4230 0.0172 0.5597 166 L 0.8508 0.0063 0.1429 167 I 0.8940 0.0066 0.0994 168 I 0.8245 0.0234 0.1521 169 G 0.6435 0.0222 0.3344 170 L 0.3590 0.0282 0.6127 171 P 0.2278 0.1361 0.6361 172 R 0.2122 0.2560 0.5318 173 Y 0.3153 0.2828 0.4019 174 M 0.4211 0.1589 0.4200 175 E 0.3610 0.1053 0.5337 176 V 0.1152 0.0368 0.8480