# TARGET T0303 # 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 T0303.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 29.889 # 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 N 0.001 0.029 0.280 0.001 0.035 0.047 0.001 0.001 0.004 0.322 0.272 0.004 0.005 2 S 0.001 0.028 0.453 0.001 0.020 0.085 0.001 0.001 0.005 0.319 0.083 0.002 0.006 3 L 0.001 0.010 0.187 0.001 0.018 0.583 0.001 0.001 0.001 0.145 0.054 0.001 0.001 4 P 0.001 0.003 0.045 0.001 0.008 0.902 0.001 0.001 0.001 0.019 0.023 0.001 0.001 5 D 0.001 0.001 0.017 0.001 0.003 0.969 0.001 0.001 0.001 0.005 0.004 0.001 0.001 6 L 0.001 0.001 0.003 0.001 0.001 0.995 0.001 0.001 0.001 0.001 0.001 0.001 0.001 7 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 8 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 9 S 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 10 I 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 11 N 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 12 S 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 13 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 14 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 15 K 0.001 0.001 0.001 0.001 0.001 0.992 0.001 0.001 0.001 0.001 0.007 0.001 0.001 16 D 0.001 0.001 0.001 0.001 0.002 0.937 0.001 0.001 0.001 0.001 0.059 0.001 0.001 17 V 0.001 0.001 0.006 0.001 0.005 0.503 0.001 0.001 0.001 0.006 0.479 0.001 0.001 18 N 0.001 0.003 0.079 0.001 0.005 0.047 0.001 0.001 0.001 0.042 0.825 0.001 0.001 19 L 0.001 0.006 0.703 0.001 0.003 0.004 0.001 0.001 0.001 0.262 0.020 0.001 0.001 20 P 0.001 0.009 0.599 0.001 0.024 0.004 0.001 0.001 0.003 0.236 0.120 0.001 0.003 21 Q 0.001 0.014 0.584 0.001 0.044 0.007 0.001 0.001 0.005 0.105 0.227 0.002 0.010 22 A 0.001 0.035 0.761 0.001 0.011 0.007 0.001 0.001 0.006 0.150 0.019 0.004 0.005 23 S 0.001 0.011 0.921 0.001 0.003 0.009 0.001 0.001 0.003 0.039 0.003 0.001 0.010 24 E 0.001 0.001 0.006 0.001 0.108 0.857 0.001 0.001 0.001 0.003 0.023 0.001 0.001 25 N 0.001 0.001 0.006 0.002 0.151 0.779 0.001 0.001 0.001 0.008 0.047 0.002 0.001 26 L 0.002 0.001 0.007 0.001 0.182 0.752 0.002 0.002 0.011 0.003 0.028 0.003 0.006 27 V 0.004 0.005 0.043 0.002 0.026 0.861 0.002 0.005 0.016 0.009 0.012 0.003 0.014 28 M 0.012 0.007 0.018 0.018 0.037 0.805 0.003 0.018 0.030 0.014 0.016 0.013 0.009 29 T 0.009 0.003 0.018 0.009 0.040 0.786 0.004 0.027 0.015 0.016 0.048 0.004 0.021 30 W 0.020 0.008 0.045 0.002 0.050 0.686 0.009 0.027 0.014 0.029 0.070 0.018 0.022 31 I 0.002 0.036 0.214 0.002 0.029 0.433 0.003 0.027 0.072 0.065 0.091 0.007 0.019 32 G 0.001 0.011 0.364 0.001 0.036 0.306 0.001 0.004 0.017 0.130 0.116 0.008 0.005 33 N 0.001 0.007 0.128 0.002 0.016 0.461 0.001 0.002 0.002 0.192 0.185 0.001 0.003 34 G 0.001 0.004 0.104 0.001 0.027 0.639 0.001 0.001 0.001 0.037 0.185 0.001 0.002 35 A 0.001 0.002 0.107 0.001 0.003 0.866 0.001 0.001 0.004 0.010 0.003 0.001 0.002 36 D 0.001 0.001 0.029 0.001 0.003 0.916 0.001 0.001 0.001 0.046 0.002 0.001 0.001 37 V 0.001 0.001 0.002 0.001 0.001 0.978 0.002 0.005 0.004 0.002 0.002 0.001 0.001 38 L 0.001 0.001 0.001 0.001 0.001 0.982 0.002 0.005 0.001 0.001 0.007 0.001 0.001 39 S 0.002 0.001 0.006 0.001 0.001 0.974 0.002 0.005 0.003 0.001 0.006 0.001 0.001 40 Q 0.002 0.001 0.017 0.001 0.001 0.957 0.001 0.002 0.004 0.005 0.008 0.002 0.002 41 R 0.001 0.001 0.016 0.001 0.003 0.956 0.001 0.001 0.002 0.006 0.014 0.001 0.001 42 A 0.001 0.001 0.029 0.001 0.009 0.915 0.001 0.001 0.001 0.012 0.028 0.001 0.003 43 V 0.002 0.002 0.021 0.001 0.013 0.901 0.001 0.001 0.001 0.012 0.040 0.003 0.002 44 D 0.004 0.002 0.022 0.001 0.017 0.844 0.001 0.001 0.001 0.013 0.090 0.002 0.004 45 W 0.001 0.001 0.038 0.001 0.021 0.831 0.001 0.001 0.001 0.019 0.083 0.001 0.002 46 A 0.001 0.003 0.067 0.001 0.027 0.742 0.001 0.001 0.001 0.033 0.121 0.002 0.003 47 C 0.001 0.006 0.085 0.002 0.058 0.626 0.001 0.001 0.004 0.053 0.156 0.003 0.007 48 T 0.003 0.008 0.123 0.002 0.064 0.541 0.001 0.001 0.006 0.086 0.140 0.016 0.011 49 Q 0.003 0.020 0.143 0.002 0.080 0.437 0.002 0.001 0.016 0.084 0.179 0.009 0.024 50 A 0.002 0.018 0.221 0.002 0.047 0.379 0.001 0.001 0.023 0.079 0.198 0.013 0.015 51 E 0.002 0.015 0.250 0.005 0.075 0.203 0.001 0.001 0.008 0.176 0.238 0.006 0.020 52 K 0.002 0.008 0.170 0.003 0.081 0.174 0.001 0.001 0.007 0.304 0.218 0.017 0.015 53 E 0.001 0.026 0.383 0.001 0.079 0.147 0.001 0.001 0.011 0.107 0.204 0.006 0.034 54 L 0.001 0.068 0.588 0.001 0.011 0.040 0.001 0.001 0.005 0.213 0.061 0.007 0.005 55 T 0.001 0.004 0.906 0.001 0.001 0.018 0.001 0.001 0.001 0.064 0.004 0.001 0.002 56 E 0.001 0.001 0.001 0.001 0.008 0.984 0.001 0.001 0.001 0.001 0.007 0.001 0.001 57 D 0.001 0.001 0.001 0.001 0.009 0.987 0.001 0.001 0.001 0.001 0.004 0.001 0.001 58 E 0.001 0.001 0.001 0.001 0.022 0.974 0.001 0.001 0.001 0.001 0.003 0.001 0.001 59 F 0.001 0.001 0.004 0.001 0.004 0.989 0.001 0.001 0.001 0.002 0.001 0.001 0.001 60 K 0.001 0.001 0.001 0.001 0.001 0.994 0.001 0.001 0.001 0.001 0.003 0.001 0.001 61 Y 0.001 0.001 0.001 0.001 0.001 0.986 0.001 0.001 0.001 0.001 0.012 0.001 0.001 62 F 0.001 0.001 0.003 0.001 0.002 0.982 0.001 0.001 0.001 0.001 0.012 0.001 0.001 63 K 0.001 0.001 0.006 0.001 0.005 0.981 0.001 0.001 0.001 0.003 0.005 0.001 0.001 64 R 0.001 0.001 0.002 0.001 0.004 0.984 0.001 0.001 0.001 0.001 0.009 0.001 0.001 65 Q 0.001 0.001 0.001 0.001 0.003 0.976 0.001 0.001 0.001 0.001 0.018 0.001 0.001 66 F 0.001 0.001 0.006 0.001 0.004 0.960 0.001 0.001 0.001 0.002 0.026 0.001 0.001 67 G 0.001 0.001 0.007 0.001 0.022 0.935 0.001 0.001 0.001 0.005 0.030 0.001 0.001 68 F 0.001 0.001 0.007 0.001 0.024 0.909 0.001 0.001 0.001 0.007 0.051 0.001 0.001 69 Y 0.001 0.001 0.006 0.001 0.023 0.918 0.001 0.001 0.001 0.006 0.044 0.001 0.001 70 Y 0.001 0.002 0.018 0.001 0.011 0.910 0.001 0.001 0.002 0.012 0.044 0.001 0.001 71 G 0.001 0.002 0.024 0.001 0.034 0.853 0.001 0.001 0.001 0.013 0.070 0.001 0.001 72 E 0.001 0.001 0.018 0.001 0.039 0.806 0.001 0.001 0.001 0.016 0.115 0.001 0.002 73 N 0.001 0.003 0.040 0.001 0.048 0.743 0.001 0.001 0.002 0.034 0.126 0.001 0.002 74 L 0.001 0.010 0.092 0.001 0.053 0.634 0.001 0.001 0.004 0.051 0.148 0.002 0.004 75 C 0.001 0.008 0.122 0.004 0.103 0.449 0.001 0.001 0.003 0.082 0.212 0.006 0.008 76 N 0.005 0.006 0.123 0.002 0.148 0.407 0.001 0.002 0.003 0.068 0.212 0.010 0.013 77 I 0.004 0.018 0.144 0.001 0.081 0.402 0.001 0.002 0.005 0.103 0.211 0.011 0.018 78 S 0.001 0.020 0.593 0.005 0.019 0.136 0.001 0.001 0.003 0.094 0.099 0.005 0.023 79 R 0.001 0.009 0.765 0.002 0.013 0.066 0.001 0.001 0.002 0.095 0.030 0.011 0.007