# TARGET T0406 # 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 T0406.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 771 # Pos AA A B C E G H M P Q S T Y Z 10N 1S 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 1 M 0.001 0.011 0.667 0.001 0.012 0.195 0.001 0.001 0.002 0.057 0.039 0.005 0.009 2 Y 0.001 0.006 0.453 0.001 0.017 0.421 0.001 0.001 0.001 0.063 0.031 0.002 0.005 3 Q 0.001 0.003 0.131 0.001 0.027 0.714 0.001 0.001 0.001 0.082 0.036 0.004 0.002 4 T 0.001 0.002 0.050 0.001 0.020 0.877 0.001 0.001 0.001 0.013 0.032 0.001 0.003 5 I 0.001 0.001 0.018 0.001 0.005 0.961 0.001 0.001 0.001 0.006 0.007 0.001 0.001 6 E 0.001 0.001 0.006 0.001 0.002 0.984 0.001 0.001 0.001 0.002 0.005 0.001 0.001 7 G 0.001 0.001 0.003 0.001 0.002 0.987 0.001 0.001 0.001 0.001 0.005 0.001 0.001 8 F 0.001 0.001 0.003 0.001 0.002 0.989 0.001 0.001 0.001 0.001 0.005 0.001 0.001 9 L 0.001 0.001 0.002 0.001 0.003 0.989 0.001 0.001 0.001 0.001 0.006 0.001 0.001 10 Q 0.001 0.001 0.002 0.001 0.002 0.980 0.001 0.001 0.001 0.002 0.014 0.001 0.001 11 S 0.001 0.001 0.004 0.001 0.004 0.968 0.001 0.001 0.001 0.002 0.022 0.001 0.001 12 W 0.001 0.001 0.010 0.001 0.004 0.962 0.001 0.001 0.001 0.006 0.018 0.001 0.001 13 T 0.001 0.001 0.012 0.001 0.006 0.932 0.001 0.001 0.001 0.006 0.042 0.001 0.001 14 Y 0.001 0.001 0.012 0.001 0.010 0.883 0.001 0.001 0.001 0.013 0.080 0.001 0.001 15 E 0.001 0.001 0.085 0.001 0.010 0.814 0.001 0.001 0.001 0.030 0.059 0.001 0.001 16 T 0.001 0.001 0.020 0.001 0.008 0.947 0.001 0.001 0.001 0.008 0.016 0.001 0.001 17 E 0.001 0.001 0.005 0.001 0.007 0.964 0.001 0.001 0.001 0.003 0.020 0.001 0.001 18 S 0.001 0.001 0.003 0.001 0.005 0.971 0.001 0.001 0.001 0.001 0.019 0.001 0.001 19 T 0.001 0.001 0.003 0.001 0.002 0.989 0.001 0.001 0.001 0.001 0.005 0.001 0.001 20 Q 0.001 0.001 0.002 0.001 0.003 0.991 0.001 0.001 0.001 0.001 0.002 0.001 0.001 21 K 0.001 0.001 0.002 0.001 0.005 0.985 0.001 0.001 0.001 0.001 0.007 0.001 0.001 22 M 0.001 0.001 0.002 0.001 0.008 0.975 0.001 0.001 0.001 0.001 0.014 0.001 0.001 23 L 0.001 0.001 0.004 0.001 0.017 0.906 0.001 0.001 0.001 0.003 0.070 0.001 0.001 24 D 0.001 0.001 0.003 0.001 0.023 0.686 0.001 0.001 0.001 0.005 0.282 0.001 0.001 25 V 0.001 0.001 0.014 0.001 0.029 0.373 0.001 0.001 0.001 0.027 0.556 0.001 0.001 26 L 0.001 0.006 0.256 0.001 0.001 0.016 0.001 0.001 0.001 0.707 0.013 0.001 0.001 27 T 0.001 0.006 0.862 0.001 0.005 0.011 0.001 0.001 0.001 0.103 0.013 0.001 0.001 28 D 0.001 0.001 0.007 0.001 0.093 0.851 0.001 0.001 0.001 0.005 0.044 0.001 0.001 29 E 0.001 0.001 0.003 0.001 0.109 0.861 0.001 0.001 0.001 0.002 0.023 0.001 0.001 30 S 0.001 0.001 0.007 0.001 0.116 0.853 0.001 0.001 0.001 0.002 0.020 0.001 0.001 31 L 0.001 0.004 0.030 0.001 0.060 0.854 0.001 0.001 0.001 0.009 0.040 0.001 0.001 32 S 0.001 0.009 0.057 0.003 0.075 0.612 0.001 0.001 0.002 0.027 0.210 0.002 0.003 33 Q 0.001 0.009 0.123 0.001 0.055 0.490 0.001 0.001 0.003 0.121 0.184 0.003 0.009 34 E 0.001 0.010 0.436 0.001 0.019 0.233 0.001 0.001 0.003 0.205 0.074 0.005 0.010 35 I 0.001 0.066 0.509 0.001 0.015 0.162 0.001 0.001 0.011 0.172 0.050 0.002 0.010 36 A 0.001 0.015 0.796 0.001 0.004 0.031 0.001 0.001 0.003 0.128 0.017 0.004 0.001 37 P 0.001 0.005 0.140 0.001 0.035 0.056 0.001 0.001 0.001 0.081 0.679 0.001 0.002 38 G 0.001 0.004 0.068 0.001 0.025 0.022 0.001 0.001 0.001 0.093 0.785 0.001 0.001 39 H 0.001 0.027 0.416 0.001 0.034 0.068 0.001 0.001 0.006 0.308 0.127 0.005 0.007 40 W 0.001 0.070 0.481 0.001 0.008 0.141 0.001 0.001 0.011 0.222 0.041 0.011 0.013 41 T 0.001 0.044 0.415 0.001 0.007 0.396 0.001 0.001 0.007 0.076 0.022 0.005 0.027 42 L 0.001 0.001 0.004 0.001 0.006 0.982 0.001 0.001 0.001 0.001 0.006 0.001 0.001 43 G 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 0.001 0.001 0.001 0.001 44 R 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 45 V 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 0.001 0.001 0.001 0.001 46 A 0.001 0.001 0.001 0.001 0.001 0.995 0.001 0.001 0.001 0.001 0.002 0.001 0.001 47 W 0.001 0.001 0.001 0.001 0.002 0.988 0.001 0.001 0.001 0.001 0.007 0.001 0.001 48 H 0.001 0.001 0.003 0.001 0.003 0.971 0.001 0.001 0.001 0.003 0.019 0.001 0.001 49 I 0.001 0.001 0.005 0.001 0.007 0.970 0.001 0.001 0.001 0.002 0.016 0.001 0.001 50 V 0.001 0.001 0.009 0.001 0.006 0.956 0.001 0.001 0.002 0.004 0.020 0.001 0.001 51 T 0.001 0.002 0.012 0.001 0.005 0.928 0.001 0.001 0.002 0.007 0.039 0.002 0.001 52 A 0.001 0.001 0.018 0.001 0.005 0.939 0.001 0.001 0.002 0.008 0.025 0.001 0.002 53 I 0.001 0.001 0.020 0.001 0.005 0.959 0.001 0.001 0.001 0.006 0.006 0.001 0.001 54 P 0.001 0.001 0.007 0.001 0.017 0.961 0.001 0.001 0.001 0.003 0.008 0.001 0.001 55 V 0.001 0.001 0.003 0.001 0.011 0.975 0.001 0.001 0.001 0.002 0.007 0.001 0.001 56 I 0.001 0.001 0.002 0.001 0.007 0.980 0.001 0.001 0.001 0.001 0.009 0.001 0.001 57 L 0.001 0.001 0.002 0.001 0.013 0.959 0.001 0.001 0.001 0.002 0.022 0.001 0.001 58 S 0.001 0.001 0.003 0.001 0.023 0.867 0.001 0.001 0.001 0.003 0.101 0.001 0.001 59 G 0.001 0.002 0.013 0.001 0.063 0.659 0.001 0.001 0.001 0.012 0.247 0.001 0.002 60 T 0.001 0.019 0.257 0.001 0.029 0.361 0.001 0.001 0.006 0.118 0.199 0.003 0.006 61 G 0.001 0.023 0.403 0.008 0.043 0.073 0.001 0.001 0.004 0.153 0.280 0.005 0.007 62 L 0.001 0.017 0.546 0.004 0.025 0.026 0.001 0.001 0.003 0.291 0.065 0.011 0.010 63 K 0.001 0.020 0.542 0.002 0.100 0.032 0.001 0.001 0.004 0.140 0.136 0.005 0.017 64 F 0.001 0.025 0.502 0.003 0.072 0.037 0.001 0.001 0.005 0.222 0.114 0.007 0.012 65 E 0.001 0.016 0.518 0.005 0.080 0.037 0.001 0.001 0.004 0.175 0.151 0.004 0.009 66 G 0.001 0.019 0.472 0.002 0.063 0.038 0.001 0.001 0.004 0.285 0.098 0.010 0.009 67 E 0.001 0.033 0.594 0.002 0.060 0.047 0.001 0.001 0.005 0.124 0.110 0.007 0.017 68 T 0.001 0.050 0.494 0.003 0.115 0.063 0.001 0.001 0.005 0.125 0.109 0.008 0.027 69 K 0.001 0.022 0.327 0.005 0.076 0.054 0.001 0.001 0.005 0.240 0.226 0.030 0.012 70 D 0.001 0.025 0.428 0.007 0.060 0.037 0.001 0.001 0.006 0.196 0.206 0.004 0.027 71 Y 0.001 0.017 0.620 0.001 0.006 0.009 0.001 0.001 0.006 0.283 0.033 0.020 0.004 72 P 0.001 0.018 0.736 0.002 0.005 0.006 0.001 0.001 0.006 0.139 0.063 0.001 0.024 73 V 0.001 0.015 0.556 0.001 0.003 0.003 0.001 0.001 0.008 0.377 0.021 0.014 0.003 74 P 0.001 0.016 0.884 0.001 0.002 0.002 0.001 0.001 0.006 0.067 0.011 0.001 0.011 75 T 0.001 0.078 0.770 0.001 0.002 0.005 0.001 0.001 0.005 0.117 0.016 0.005 0.003 76 S 0.001 0.017 0.865 0.001 0.001 0.014 0.001 0.001 0.001 0.090 0.005 0.001 0.007 77 A 0.001 0.001 0.002 0.001 0.005 0.989 0.001 0.001 0.001 0.001 0.003 0.001 0.001 78 K 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 79 T 0.001 0.001 0.001 0.001 0.002 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 80 I 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 81 A 0.001 0.001 0.001 0.001 0.001 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 82 D 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 83 G 0.001 0.001 0.001 0.001 0.001 0.996 0.001 0.001 0.001 0.001 0.003 0.001 0.001 84 Y 0.001 0.001 0.003 0.001 0.001 0.994 0.001 0.001 0.001 0.002 0.002 0.001 0.001 85 R 0.001 0.001 0.001 0.001 0.001 0.996 0.001 0.001 0.001 0.001 0.002 0.001 0.001 86 K 0.001 0.001 0.001 0.001 0.001 0.994 0.001 0.001 0.001 0.001 0.005 0.001 0.001 87 V 0.001 0.001 0.002 0.001 0.001 0.991 0.001 0.001 0.001 0.001 0.006 0.001 0.001 88 N 0.001 0.001 0.003 0.001 0.001 0.992 0.001 0.001 0.001 0.002 0.002 0.001 0.001 89 T 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 0.001 0.002 0.001 0.001 90 A 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.002 0.001 0.001 91 F 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 92 V 0.001 0.001 0.001 0.001 0.001 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 93 E 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.002 0.001 0.001 94 A 0.001 0.001 0.001 0.001 0.001 0.992 0.001 0.001 0.001 0.001 0.006 0.001 0.001 95 L 0.001 0.001 0.003 0.001 0.002 0.961 0.001 0.001 0.001 0.002 0.033 0.001 0.001 96 Q 0.001 0.001 0.005 0.001 0.017 0.738 0.001 0.001 0.001 0.005 0.235 0.001 0.001 97 S 0.001 0.001 0.008 0.001 0.024 0.387 0.001 0.001 0.001 0.026 0.554 0.001 0.001 98 E 0.001 0.003 0.103 0.001 0.030 0.134 0.001 0.001 0.001 0.125 0.603 0.001 0.001 99 W 0.001 0.024 0.475 0.001 0.001 0.008 0.001 0.001 0.002 0.479 0.008 0.001 0.001 100 T 0.001 0.014 0.927 0.001 0.001 0.005 0.001 0.001 0.001 0.047 0.003 0.001 0.002 101 D 0.001 0.001 0.010 0.001 0.112 0.822 0.001 0.001 0.001 0.003 0.053 0.001 0.001 102 K 0.001 0.001 0.005 0.001 0.168 0.777 0.001 0.001 0.001 0.004 0.044 0.001 0.001 103 D 0.001 0.001 0.012 0.001 0.250 0.707 0.001 0.001 0.001 0.004 0.026 0.001 0.001 104 L 0.001 0.007 0.050 0.001 0.120 0.768 0.001 0.001 0.002 0.009 0.039 0.001 0.004 105 T 0.001 0.006 0.056 0.008 0.138 0.629 0.001 0.001 0.002 0.026 0.126 0.003 0.004 106 T 0.002 0.007 0.089 0.002 0.105 0.520 0.001 0.002 0.007 0.080 0.160 0.009 0.017 107 I 0.003 0.021 0.336 0.010 0.036 0.317 0.002 0.001 0.006 0.149 0.074 0.009 0.037 108 N 0.001 0.069 0.544 0.004 0.009 0.081 0.001 0.002 0.033 0.161 0.034 0.040 0.021 109 D 0.001 0.030 0.708 0.009 0.014 0.038 0.001 0.002 0.021 0.067 0.061 0.007 0.043 110 F 0.002 0.047 0.420 0.005 0.046 0.039 0.001 0.001 0.021 0.185 0.191 0.024 0.018 111 F 0.001 0.011 0.236 0.006 0.034 0.022 0.001 0.001 0.007 0.179 0.482 0.008 0.012 112 G 0.001 0.013 0.328 0.006 0.013 0.005 0.001 0.001 0.003 0.452 0.167 0.004 0.008 113 R 0.001 0.007 0.587 0.001 0.002 0.002 0.001 0.001 0.006 0.350 0.021 0.017 0.007 114 P 0.001 0.051 0.684 0.002 0.002 0.002 0.001 0.001 0.005 0.141 0.032 0.002 0.079 115 M 0.001 0.063 0.748 0.001 0.001 0.004 0.001 0.001 0.004 0.111 0.007 0.058 0.002 116 P 0.001 0.037 0.792 0.001 0.001 0.028 0.001 0.001 0.003 0.070 0.007 0.001 0.059 117 N 0.001 0.001 0.022 0.001 0.010 0.939 0.001 0.001 0.001 0.007 0.019 0.001 0.001 118 S 0.001 0.001 0.001 0.001 0.002 0.994 0.001 0.001 0.001 0.001 0.002 0.001 0.001 119 I 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 0.001 0.001 0.001 0.001 120 F 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 121 L 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 122 M 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 123 T 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 0.001 0.001 0.001 0.001 124 L 0.001 0.001 0.001 0.001 0.001 0.995 0.001 0.001 0.001 0.001 0.002 0.001 0.001 125 I 0.001 0.001 0.003 0.001 0.001 0.985 0.001 0.001 0.001 0.001 0.009 0.001 0.001 126 N 0.001 0.001 0.003 0.001 0.003 0.948 0.001 0.001 0.001 0.003 0.040 0.001 0.001 127 H 0.001 0.001 0.008 0.001 0.006 0.900 0.001 0.001 0.001 0.007 0.077 0.001 0.001 128 Q 0.001 0.001 0.029 0.001 0.019 0.872 0.001 0.001 0.001 0.012 0.067 0.001 0.001 129 N 0.001 0.002 0.039 0.001 0.063 0.743 0.001 0.001 0.001 0.025 0.124 0.001 0.002 130 H 0.001 0.002 0.043 0.001 0.062 0.708 0.001 0.001 0.001 0.047 0.133 0.001 0.002 131 H 0.001 0.003 0.039 0.001 0.020 0.825 0.001 0.001 0.002 0.046 0.061 0.002 0.002 132 R 0.001 0.001 0.022 0.001 0.006 0.889 0.001 0.001 0.001 0.020 0.057 0.001 0.002 133 G 0.001 0.001 0.014 0.001 0.001 0.960 0.001 0.001 0.001 0.009 0.011 0.001 0.001 134 Q 0.001 0.001 0.002 0.001 0.001 0.995 0.001 0.001 0.001 0.001 0.001 0.001 0.001 135 M 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 136 T 0.001 0.001 0.001 0.001 0.001 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 137 V 0.001 0.001 0.001 0.001 0.001 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 138 L 0.001 0.001 0.001 0.001 0.001 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 139 M 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 0.001 0.002 0.001 0.001 140 R 0.001 0.001 0.001 0.001 0.002 0.988 0.001 0.001 0.001 0.001 0.009 0.001 0.001 141 Q 0.001 0.001 0.004 0.001 0.004 0.939 0.001 0.001 0.001 0.001 0.051 0.001 0.001 142 A 0.001 0.001 0.015 0.001 0.005 0.394 0.001 0.001 0.001 0.011 0.572 0.001 0.001 143 G 0.001 0.001 0.044 0.001 0.005 0.023 0.001 0.001 0.001 0.048 0.877 0.001 0.001 144 L 0.001 0.016 0.741 0.001 0.006 0.011 0.001 0.001 0.009 0.158 0.040 0.005 0.011 145 T 0.001 0.053 0.674 0.001 0.007 0.009 0.001 0.001 0.038 0.165 0.024 0.007 0.018 146 V 0.001 0.032 0.677 0.004 0.007 0.008 0.001 0.001 0.035 0.194 0.024 0.009 0.009 147 P 0.001 0.019 0.639 0.010 0.037 0.010 0.001 0.001 0.017 0.105 0.154 0.002 0.006 148 G 0.001 0.031 0.399 0.004 0.106 0.020 0.001 0.002 0.021 0.201 0.203 0.004 0.006 149 V 0.001 0.023 0.445 0.002 0.063 0.030 0.001 0.002 0.026 0.228 0.161 0.008 0.011 150 Y 0.002 0.041 0.445 0.002 0.039 0.038 0.002 0.003 0.022 0.249 0.125 0.005 0.026 151 G 0.001 0.020 0.490 0.002 0.007 0.020 0.001 0.001 0.011 0.385 0.027 0.032 0.005 152 P 0.001 0.028 0.735 0.001 0.009 0.039 0.001 0.001 0.006 0.095 0.052 0.003 0.030 153 A 0.001 0.049 0.626 0.002 0.018 0.097 0.001 0.001 0.003 0.123 0.062 0.009 0.010 154 K 0.001 0.010 0.391 0.001 0.040 0.390 0.001 0.001 0.001 0.111 0.046 0.003 0.007 155 E 0.001 0.001 0.019 0.001 0.050 0.864 0.001 0.001 0.001 0.011 0.054 0.001 0.001 156 E 0.001 0.002 0.018 0.001 0.052 0.864 0.001 0.001 0.001 0.013 0.048 0.001 0.001 157 W 0.001 0.003 0.031 0.001 0.062 0.849 0.001 0.001 0.001 0.013 0.036 0.001 0.002 158 A 0.001 0.005 0.029 0.001 0.037 0.873 0.001 0.001 0.002 0.011 0.039 0.001 0.003 159 T 0.001 0.005 0.050 0.001 0.064 0.757 0.001 0.001 0.001 0.018 0.095 0.003 0.004 160 A 0.001 0.006 0.037 0.001 0.047 0.492 0.001 0.001 0.002 0.023 0.384 0.002 0.004 161 G 0.002 0.008 0.112 0.003 0.046 0.132 0.001 0.001 0.001 0.063 0.623 0.005 0.005 162 M 0.004 0.021 0.401 0.001 0.070 0.111 0.001 0.001 0.005 0.115 0.219 0.018 0.033 163 E 0.006 0.026 0.347 0.004 0.081 0.106 0.001 0.001 0.009 0.135 0.233 0.022 0.028 164 A 0.001 0.013 0.581 0.004 0.070 0.038 0.001 0.001 0.004 0.186 0.081 0.006 0.015 165 P 0.001 0.010 0.530 0.002 0.076 0.030 0.001 0.001 0.003 0.157 0.167 0.014 0.009 166 K 0.001 0.016 0.671 0.002 0.046 0.026 0.001 0.001 0.004 0.084 0.121 0.004 0.024 167 M 0.001 0.008 0.917 0.001 0.006 0.006 0.001 0.001 0.001 0.049 0.006 0.002 0.003