# TARGET T0404 # 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 T0404.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 82.5734 # Pos AA E B G H T C 10N 1S 5N 5N 5N 5N 5N 5N 1 M 0.026 0.007 0.009 0.022 0.165 0.771 2 S 0.059 0.019 0.027 0.090 0.291 0.513 3 K 0.045 0.013 0.085 0.115 0.416 0.327 4 R 0.063 0.018 0.108 0.076 0.402 0.332 5 A 0.189 0.016 0.068 0.036 0.365 0.326 6 N 0.343 0.004 0.025 0.025 0.224 0.379 7 K 0.761 0.005 0.006 0.028 0.072 0.127 8 L 0.941 0.002 0.001 0.015 0.015 0.026 9 V 0.972 0.001 0.001 0.012 0.006 0.009 10 I 0.976 0.001 0.001 0.017 0.002 0.004 11 V 0.946 0.001 0.001 0.037 0.004 0.012 12 T 0.822 0.003 0.001 0.067 0.018 0.090 13 E 0.284 0.003 0.002 0.101 0.090 0.519 14 K 0.018 0.001 0.053 0.723 0.115 0.091 15 V 0.009 0.003 0.130 0.684 0.125 0.049 16 L 0.005 0.003 0.146 0.765 0.057 0.024 17 L 0.005 0.002 0.034 0.906 0.030 0.023 18 K 0.003 0.001 0.018 0.944 0.021 0.014 19 K 0.001 0.001 0.007 0.985 0.004 0.003 20 V 0.001 0.001 0.003 0.993 0.001 0.002 21 A 0.001 0.001 0.001 0.999 0.001 0.001 22 K 0.001 0.001 0.001 0.999 0.001 0.001 23 I 0.001 0.001 0.001 0.999 0.001 0.001 24 I 0.001 0.001 0.001 0.998 0.001 0.001 25 E 0.001 0.001 0.002 0.995 0.002 0.001 26 E 0.001 0.001 0.003 0.991 0.003 0.002 27 A 0.001 0.001 0.006 0.909 0.014 0.071 28 G 0.001 0.001 0.001 0.001 0.020 0.979 29 A 0.010 0.004 0.002 0.001 0.124 0.858 30 T 0.234 0.008 0.005 0.001 0.208 0.544 31 G 0.793 0.009 0.003 0.001 0.072 0.123 32 Y 0.928 0.002 0.001 0.001 0.020 0.048 33 T 0.969 0.001 0.001 0.001 0.007 0.022 34 V 0.966 0.001 0.001 0.001 0.007 0.024 35 V 0.937 0.002 0.002 0.002 0.013 0.044 36 D 0.882 0.003 0.003 0.002 0.034 0.077 37 T 0.725 0.013 0.005 0.004 0.082 0.170 38 G 0.515 0.021 0.015 0.005 0.215 0.230 39 G 0.401 0.019 0.020 0.004 0.264 0.292 40 K 0.389 0.022 0.029 0.006 0.291 0.263 41 G 0.328 0.028 0.021 0.004 0.318 0.300 42 S 0.194 0.028 0.031 0.013 0.560 0.174 43 R 0.116 0.016 0.028 0.021 0.638 0.181 44 N 0.106 0.012 0.031 0.027 0.658 0.166 45 V 0.354 0.055 0.021 0.033 0.370 0.166 46 R 0.547 0.061 0.017 0.028 0.145 0.201 47 S 0.451 0.052 0.018 0.025 0.253 0.200 48 T 0.253 0.018 0.017 0.023 0.358 0.332 49 G 0.117 0.011 0.008 0.007 0.350 0.506 50 K 0.187 0.013 0.012 0.007 0.325 0.456 51 P 0.314 0.026 0.028 0.013 0.204 0.415 52 N 0.457 0.042 0.036 0.013 0.175 0.278 53 T 0.521 0.038 0.028 0.014 0.197 0.202 54 S 0.506 0.028 0.021 0.013 0.194 0.239 55 D 0.359 0.016 0.020 0.010 0.345 0.250 56 T 0.193 0.018 0.063 0.016 0.410 0.300 57 D 0.141 0.018 0.063 0.005 0.645 0.129 58 S 0.069 0.007 0.077 0.004 0.749 0.094 59 N 0.099 0.003 0.020 0.001 0.546 0.332 60 V 0.828 0.016 0.001 0.001 0.082 0.073 61 K 0.946 0.001 0.001 0.001 0.009 0.043 62 F 0.994 0.001 0.001 0.001 0.001 0.005 63 E 0.995 0.001 0.001 0.001 0.001 0.003 64 V 0.994 0.001 0.001 0.001 0.001 0.005 65 L 0.974 0.001 0.001 0.001 0.005 0.020 66 T 0.718 0.005 0.001 0.002 0.050 0.225 67 E 0.154 0.005 0.001 0.006 0.231 0.603 68 N 0.023 0.004 0.015 0.071 0.273 0.615 69 R 0.004 0.001 0.051 0.769 0.132 0.043 70 E 0.001 0.001 0.057 0.895 0.039 0.007 71 M 0.002 0.001 0.036 0.929 0.022 0.010 72 A 0.002 0.001 0.013 0.973 0.007 0.005 73 E 0.001 0.001 0.009 0.978 0.006 0.006 74 K 0.001 0.001 0.008 0.979 0.005 0.006 75 I 0.001 0.001 0.003 0.992 0.002 0.002 76 A 0.001 0.001 0.001 0.996 0.001 0.001 77 D 0.001 0.001 0.001 0.996 0.002 0.001 78 Q 0.001 0.001 0.001 0.996 0.001 0.001 79 V 0.001 0.001 0.001 0.995 0.002 0.002 80 A 0.001 0.001 0.004 0.989 0.004 0.002 81 I 0.002 0.001 0.005 0.987 0.004 0.002 82 K 0.004 0.001 0.007 0.966 0.009 0.012 83 F 0.013 0.002 0.011 0.887 0.027 0.059 84 F 0.113 0.014 0.023 0.563 0.141 0.146 85 T 0.144 0.017 0.019 0.223 0.221 0.376 86 D 0.062 0.015 0.022 0.020 0.799 0.081 87 Y 0.022 0.004 0.025 0.006 0.907 0.037 88 A 0.018 0.001 0.011 0.003 0.923 0.044 89 G 0.406 0.011 0.002 0.001 0.527 0.053 90 I 0.895 0.003 0.001 0.001 0.021 0.080 91 I 0.995 0.001 0.001 0.001 0.001 0.003 92 Y 0.998 0.001 0.001 0.001 0.001 0.001 93 I 0.995 0.001 0.001 0.001 0.001 0.004 94 C 0.949 0.001 0.001 0.001 0.011 0.039 95 E 0.699 0.002 0.001 0.001 0.089 0.207 96 A 0.524 0.003 0.012 0.003 0.199 0.259 97 E 0.523 0.005 0.027 0.006 0.222 0.217 98 V 0.808 0.006 0.016 0.007 0.087 0.076 99 L 0.874 0.005 0.004 0.007 0.042 0.069 100 Y 0.895 0.005 0.002 0.006 0.033 0.059 101 G 0.841 0.013 0.003 0.008 0.047 0.088 102 R 0.648 0.013 0.010 0.012 0.143 0.174 103 T 0.403 0.016 0.022 0.015 0.306 0.238 104 F 0.226 0.024 0.018 0.009 0.420 0.303 105 C 0.185 0.068 0.015 0.010 0.370 0.353 106 G 0.065 0.027 0.014 0.009 0.619 0.266 107 P 0.006 0.004 0.268 0.032 0.614 0.076 108 D 0.009 0.006 0.362 0.044 0.499 0.080 109 G 0.012 0.014 0.340 0.053 0.491 0.091 110 C 0.014 0.022 0.033 0.026 0.403 0.502