# This file is the result of combining several RDB files, specifically # T0210.t04.dssp-ebghstl.rdb (weight 1.53986) # T0210.t04.stride-ebghtl.rdb (weight 1.24869) # T0210.t04.str2.rdb (weight 1.54758) # T0210.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 T0210.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0210 # Using neural net t04-2621-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 T0210.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 15.4086 # # ============================================ # Comments from T0210.t04.stride-ebghtl.rdb # ============================================ # TARGET T0210 # 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 T0210.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 15.4086 # # ============================================ # Comments from T0210.t04.str2.rdb # ============================================ # TARGET T0210 # 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 T0210.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 15.4086 # # ============================================ # Comments from T0210.t04.alpha.rdb # ============================================ # TARGET T0210 # 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 T0210.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 15.4086 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0651 0.0240 0.9108 2 Q 0.0974 0.0368 0.8658 3 N 0.0955 0.0450 0.8595 4 A 0.0049 0.9375 0.0577 5 D 0.0047 0.9567 0.0386 6 D 0.0048 0.9541 0.0411 7 F 0.0054 0.9525 0.0421 8 I 0.0065 0.9429 0.0506 9 K 0.0092 0.9009 0.0899 10 F 0.0133 0.8207 0.1660 11 L 0.0644 0.4616 0.4740 12 E 0.0655 0.1058 0.8287 13 L 0.0939 0.0735 0.8326 14 E 0.1109 0.0584 0.8307 15 Q 0.1843 0.0977 0.7179 16 H 0.1371 0.0490 0.8140 17 V 0.0713 0.1685 0.7603 18 E 0.0914 0.1132 0.7954 19 G 0.1283 0.1158 0.7559 20 G 0.2503 0.0747 0.6750 21 F 0.6094 0.0656 0.3250 22 Y 0.7416 0.0586 0.1999 23 R 0.6927 0.0822 0.2251 24 S 0.7116 0.0596 0.2288 25 S 0.6490 0.0671 0.2839 26 Y 0.5673 0.0521 0.3806 27 R 0.3335 0.0666 0.5999 28 S 0.1614 0.0552 0.7834 29 E 0.0316 0.3637 0.6048 30 T 0.0558 0.3389 0.6054 31 A 0.1231 0.2985 0.5784 32 F 0.1747 0.1061 0.7192 33 D 0.0954 0.0354 0.8692 34 P 0.0277 0.1731 0.7992 35 S 0.0362 0.1619 0.8019 36 R 0.0776 0.2526 0.6699 37 Q 0.1067 0.2992 0.5941 38 L 0.1740 0.4522 0.3737 39 W 0.3153 0.4216 0.2632 40 S 0.4044 0.3914 0.2042 41 S 0.4406 0.4434 0.1160 42 I 0.4124 0.5022 0.0854 43 Y 0.4240 0.4928 0.0831 44 F 0.4415 0.4539 0.1046 45 L 0.3807 0.4278 0.1915 46 L 0.1671 0.2881 0.5448 47 R 0.0906 0.1660 0.7433 48 T 0.0641 0.1118 0.8241 49 G 0.0439 0.0984 0.8577 50 E 0.1073 0.1386 0.7541 51 V 0.1856 0.1840 0.6303 52 S 0.1524 0.2194 0.6282 53 H 0.1253 0.2961 0.5786 54 F 0.1855 0.2790 0.5356 55 H 0.3094 0.1815 0.5091 56 R 0.3354 0.1086 0.5560 57 L 0.2885 0.0329 0.6786 58 T 0.1473 0.0181 0.8346 59 A 0.0490 0.5769 0.3740 60 D 0.0531 0.5710 0.3758 61 E 0.2414 0.5876 0.1710 62 M 0.4380 0.4585 0.1035 63 W 0.5119 0.3955 0.0926 64 Y 0.5664 0.3055 0.1281 65 F 0.5232 0.2383 0.2384 66 H 0.3196 0.1743 0.5061 67 A 0.1232 0.0941 0.7827 68 G 0.0497 0.0534 0.8969 69 Q 0.1289 0.0317 0.8394 70 S 0.3365 0.0199 0.6436 71 L 0.7042 0.0075 0.2883 72 T 0.9089 0.0036 0.0875 73 I 0.9254 0.0032 0.0714 74 Y 0.9228 0.0036 0.0735 75 M 0.9204 0.0038 0.0758 76 I 0.8737 0.0068 0.1194 77 S 0.3751 0.0121 0.6128 78 P 0.0282 0.0911 0.8807 79 E 0.0435 0.0275 0.9291 80 G 0.0528 0.0346 0.9126 81 E 0.2348 0.0297 0.7354 82 L 0.7453 0.0209 0.2338 83 T 0.7783 0.0368 0.1849 84 T 0.8485 0.0343 0.1172 85 A 0.8533 0.0352 0.1115 86 Q 0.8006 0.0624 0.1370 87 L 0.5984 0.1019 0.2997 88 G 0.3388 0.0954 0.5658 89 L 0.2924 0.1713 0.5363 90 D 0.3242 0.2290 0.4467 91 L 0.1463 0.5214 0.3322 92 A 0.0936 0.4092 0.4973 93 A 0.0512 0.1637 0.7851 94 G 0.0347 0.0443 0.9210 95 E 0.1529 0.0248 0.8223 96 R 0.3285 0.0146 0.6570 97 P 0.3721 0.0208 0.6071 98 Q 0.7147 0.0231 0.2622 99 F 0.8556 0.0108 0.1336 100 L 0.8891 0.0054 0.1055 101 V 0.7384 0.0082 0.2534 102 P 0.3651 0.0123 0.6226 103 K 0.0425 0.0779 0.8796 104 G 0.0406 0.0508 0.9087 105 C 0.4171 0.0530 0.5299 106 I 0.7433 0.0341 0.2226 107 F 0.7341 0.0624 0.2035 108 G 0.6093 0.0989 0.2918 109 S 0.5213 0.1129 0.3658 110 A 0.5221 0.1133 0.3646 111 M 0.4504 0.0690 0.4805 112 N 0.2145 0.0524 0.7331 113 Q 0.0503 0.2009 0.7488 114 D 0.0430 0.1132 0.8438 115 G 0.1001 0.0944 0.8055 116 F 0.5707 0.0187 0.4105 117 S 0.8656 0.0075 0.1268 118 L 0.9144 0.0050 0.0805 119 V 0.8655 0.0151 0.1193 120 G 0.8162 0.0134 0.1704 121 C 0.7557 0.0221 0.2222 122 M 0.7248 0.0219 0.2533 123 V 0.5529 0.0365 0.4106 124 S 0.2316 0.0384 0.7300 125 P 0.0917 0.1024 0.8059 126 G 0.1199 0.0708 0.8093 127 F 0.3537 0.0302 0.6161 128 T 0.3983 0.0191 0.5826 129 F 0.1680 0.3676 0.4643 130 D 0.0593 0.3606 0.5801 131 D 0.0543 0.4018 0.5439 132 F 0.1382 0.3689 0.4929 133 E 0.1695 0.3924 0.4381 134 L 0.2105 0.3570 0.4325 135 F 0.1744 0.1459 0.6797 136 S 0.1062 0.1012 0.7926 137 Q 0.0089 0.8997 0.0914 138 E 0.0060 0.9429 0.0511 139 A 0.0058 0.9463 0.0479 140 L 0.0056 0.9447 0.0497 141 L 0.0055 0.9323 0.0622 142 A 0.0059 0.8424 0.1517 143 M 0.0114 0.7145 0.2741 144 Y 0.0523 0.2102 0.7375 145 P 0.0141 0.5056 0.4803 146 Q 0.0162 0.6448 0.3390 147 H 0.0237 0.8008 0.1754 148 K 0.0081 0.9259 0.0661 149 A 0.0071 0.9412 0.0517 150 V 0.0082 0.9445 0.0473 151 V 0.0087 0.9446 0.0468 152 Q 0.0079 0.9348 0.0573 153 K 0.0095 0.8870 0.1035 154 L 0.0214 0.7158 0.2628 155 S 0.0496 0.3125 0.6379 156 R 0.0600 0.1091 0.8308 157 P 0.0563 0.1687 0.7749 158 E 0.0760 0.1886 0.7354 159 V 0.0848 0.0914 0.8238 160 N 0.0554 0.0436 0.9010