# TARGET T0311 # 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 T0311.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 61.1882 # 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 0.004 0.954 0.003 0.001 0.002 0.001 0.001 0.001 0.013 0.003 0.006 0.012 2 K 0.001 0.021 0.871 0.001 0.005 0.010 0.001 0.001 0.006 0.014 0.012 0.023 0.037 3 M 0.003 0.028 0.628 0.011 0.023 0.031 0.003 0.001 0.011 0.121 0.039 0.018 0.083 4 A 0.002 0.025 0.570 0.004 0.022 0.032 0.002 0.001 0.018 0.199 0.050 0.045 0.031 5 N 0.001 0.017 0.595 0.001 0.012 0.015 0.001 0.001 0.019 0.235 0.042 0.009 0.053 6 H 0.001 0.015 0.780 0.002 0.002 0.004 0.001 0.001 0.010 0.140 0.024 0.010 0.013 7 P 0.001 0.039 0.816 0.001 0.001 0.002 0.001 0.001 0.006 0.116 0.008 0.006 0.006 8 R 0.001 0.025 0.852 0.001 0.001 0.002 0.001 0.001 0.003 0.114 0.001 0.001 0.002 9 P 0.001 0.001 0.025 0.001 0.030 0.740 0.001 0.001 0.001 0.031 0.171 0.001 0.001 10 G 0.001 0.001 0.011 0.001 0.025 0.847 0.001 0.001 0.001 0.014 0.101 0.001 0.001 11 D 0.001 0.001 0.020 0.001 0.017 0.938 0.001 0.001 0.001 0.009 0.013 0.001 0.001 12 I 0.001 0.006 0.027 0.001 0.009 0.942 0.001 0.001 0.001 0.005 0.008 0.001 0.002 13 I 0.001 0.002 0.018 0.001 0.010 0.950 0.001 0.001 0.001 0.004 0.011 0.001 0.002 14 Q 0.001 0.001 0.004 0.001 0.027 0.935 0.001 0.001 0.001 0.003 0.028 0.001 0.001 15 E 0.001 0.001 0.009 0.001 0.025 0.903 0.001 0.001 0.001 0.006 0.053 0.001 0.001 16 S 0.001 0.001 0.007 0.001 0.039 0.848 0.001 0.001 0.001 0.005 0.098 0.001 0.001 17 L 0.001 0.002 0.015 0.001 0.038 0.872 0.001 0.001 0.001 0.020 0.051 0.001 0.001 18 D 0.001 0.001 0.016 0.001 0.062 0.831 0.001 0.001 0.001 0.013 0.074 0.001 0.001 19 E 0.001 0.001 0.013 0.001 0.084 0.783 0.001 0.001 0.001 0.007 0.110 0.001 0.001 20 L 0.001 0.002 0.009 0.001 0.042 0.299 0.001 0.001 0.001 0.038 0.609 0.001 0.001 21 N 0.001 0.002 0.065 0.003 0.009 0.023 0.001 0.001 0.001 0.042 0.854 0.001 0.001 22 V 0.001 0.028 0.732 0.001 0.001 0.006 0.001 0.001 0.003 0.201 0.010 0.012 0.005 23 S 0.001 0.058 0.825 0.001 0.001 0.008 0.001 0.001 0.008 0.080 0.004 0.002 0.015 24 L 0.001 0.001 0.006 0.001 0.009 0.966 0.001 0.001 0.001 0.004 0.013 0.001 0.001 25 R 0.001 0.001 0.001 0.001 0.002 0.995 0.001 0.001 0.001 0.001 0.002 0.001 0.001 26 E 0.001 0.001 0.001 0.001 0.002 0.997 0.001 0.001 0.001 0.001 0.001 0.001 0.001 27 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 28 A 0.001 0.001 0.001 0.001 0.004 0.991 0.001 0.001 0.001 0.001 0.004 0.001 0.001 29 R 0.001 0.001 0.001 0.001 0.008 0.964 0.001 0.001 0.001 0.001 0.026 0.001 0.001 30 A 0.001 0.001 0.002 0.001 0.009 0.874 0.001 0.001 0.001 0.003 0.111 0.001 0.001 31 M 0.001 0.001 0.032 0.001 0.029 0.270 0.001 0.001 0.001 0.060 0.608 0.001 0.001 32 E 0.001 0.005 0.124 0.001 0.021 0.019 0.001 0.001 0.001 0.082 0.747 0.001 0.001 33 I 0.001 0.031 0.698 0.001 0.005 0.009 0.001 0.001 0.003 0.225 0.022 0.002 0.006 34 A 0.001 0.008 0.890 0.001 0.002 0.009 0.001 0.001 0.003 0.079 0.003 0.001 0.006 35 P 0.001 0.001 0.009 0.001 0.155 0.772 0.001 0.001 0.001 0.007 0.055 0.001 0.001 36 S 0.001 0.001 0.005 0.001 0.192 0.751 0.001 0.001 0.001 0.007 0.044 0.001 0.001 37 T 0.001 0.001 0.003 0.001 0.111 0.870 0.001 0.001 0.001 0.003 0.012 0.001 0.001 38 A 0.001 0.001 0.003 0.001 0.011 0.977 0.001 0.001 0.001 0.001 0.006 0.001 0.001 39 S 0.001 0.001 0.003 0.001 0.020 0.964 0.001 0.001 0.001 0.002 0.009 0.001 0.001 40 R 0.001 0.001 0.002 0.001 0.025 0.949 0.001 0.001 0.001 0.004 0.017 0.001 0.001 41 L 0.001 0.001 0.006 0.001 0.036 0.933 0.001 0.001 0.001 0.003 0.019 0.001 0.001 42 L 0.001 0.004 0.012 0.001 0.014 0.895 0.001 0.001 0.003 0.010 0.056 0.001 0.001 43 T 0.001 0.002 0.015 0.001 0.019 0.402 0.001 0.001 0.001 0.019 0.538 0.001 0.001 44 G 0.001 0.001 0.074 0.001 0.015 0.069 0.001 0.001 0.001 0.114 0.723 0.001 0.001 45 K 0.001 0.026 0.593 0.001 0.026 0.056 0.001 0.001 0.011 0.195 0.076 0.002 0.014 46 A 0.001 0.018 0.315 0.002 0.070 0.058 0.001 0.001 0.025 0.351 0.135 0.016 0.008 47 A 0.001 0.025 0.532 0.003 0.033 0.050 0.002 0.001 0.040 0.128 0.130 0.005 0.049 48 L 0.001 0.067 0.697 0.001 0.007 0.032 0.001 0.001 0.024 0.117 0.027 0.017 0.009 49 T 0.001 0.012 0.836 0.001 0.001 0.054 0.001 0.001 0.006 0.073 0.003 0.001 0.013 50 P 0.001 0.001 0.002 0.001 0.002 0.988 0.001 0.001 0.001 0.002 0.005 0.001 0.001 51 E 0.001 0.001 0.001 0.001 0.002 0.994 0.001 0.001 0.001 0.001 0.003 0.001 0.001 52 M 0.001 0.001 0.001 0.001 0.002 0.995 0.001 0.001 0.001 0.001 0.002 0.001 0.001 53 A 0.001 0.001 0.002 0.001 0.001 0.996 0.001 0.001 0.001 0.001 0.001 0.001 0.001 54 I 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 55 K 0.001 0.001 0.001 0.001 0.001 0.993 0.001 0.001 0.001 0.001 0.004 0.001 0.001 56 L 0.001 0.001 0.001 0.001 0.001 0.989 0.001 0.001 0.001 0.001 0.008 0.001 0.001 57 S 0.001 0.001 0.001 0.001 0.004 0.979 0.001 0.001 0.001 0.002 0.013 0.001 0.001 58 V 0.001 0.001 0.001 0.001 0.011 0.958 0.001 0.001 0.001 0.002 0.028 0.001 0.001 59 V 0.001 0.001 0.003 0.001 0.013 0.911 0.001 0.001 0.001 0.003 0.068 0.001 0.001 60 I 0.001 0.004 0.055 0.001 0.016 0.460 0.001 0.001 0.001 0.119 0.344 0.001 0.001 61 G 0.001 0.008 0.248 0.002 0.013 0.037 0.001 0.001 0.001 0.249 0.439 0.001 0.001 62 S 0.001 0.023 0.530 0.001 0.003 0.013 0.001 0.001 0.002 0.394 0.030 0.002 0.002 63 S 0.001 0.009 0.806 0.001 0.001 0.012 0.001 0.001 0.001 0.163 0.004 0.001 0.003 64 P 0.001 0.001 0.006 0.001 0.015 0.941 0.001 0.001 0.001 0.005 0.033 0.001 0.001 65 Q 0.001 0.001 0.002 0.001 0.012 0.969 0.001 0.001 0.001 0.002 0.015 0.001 0.001 66 M 0.001 0.001 0.003 0.001 0.015 0.970 0.001 0.001 0.001 0.004 0.008 0.001 0.001 67 W 0.001 0.001 0.004 0.001 0.005 0.985 0.001 0.001 0.001 0.001 0.005 0.001 0.001 68 L 0.001 0.001 0.002 0.001 0.004 0.983 0.001 0.001 0.001 0.001 0.010 0.001 0.001 69 N 0.001 0.001 0.001 0.001 0.001 0.987 0.001 0.001 0.001 0.001 0.009 0.001 0.001 70 L 0.001 0.001 0.001 0.001 0.001 0.988 0.001 0.001 0.001 0.001 0.009 0.001 0.001 71 Q 0.001 0.001 0.004 0.001 0.002 0.981 0.001 0.001 0.001 0.003 0.009 0.001 0.001 72 N 0.001 0.001 0.003 0.001 0.003 0.968 0.001 0.001 0.001 0.002 0.024 0.001 0.001 73 A 0.001 0.001 0.003 0.001 0.003 0.945 0.001 0.001 0.001 0.004 0.045 0.001 0.001 74 W 0.001 0.001 0.022 0.001 0.002 0.921 0.001 0.001 0.001 0.020 0.033 0.001 0.001 75 S 0.001 0.002 0.046 0.001 0.003 0.912 0.001 0.001 0.001 0.013 0.023 0.001 0.001 76 L 0.001 0.001 0.004 0.001 0.001 0.984 0.001 0.001 0.001 0.002 0.008 0.001 0.001 77 A 0.001 0.001 0.002 0.001 0.001 0.988 0.001 0.001 0.001 0.001 0.006 0.001 0.001 78 E 0.001 0.001 0.002 0.001 0.002 0.987 0.001 0.001 0.001 0.001 0.008 0.001 0.001 79 A 0.001 0.001 0.006 0.001 0.003 0.976 0.001 0.001 0.001 0.002 0.011 0.001 0.001 80 E 0.001 0.001 0.010 0.001 0.007 0.936 0.001 0.001 0.001 0.005 0.040 0.001 0.001 81 K 0.001 0.001 0.020 0.001 0.009 0.835 0.001 0.001 0.001 0.023 0.109 0.001 0.001 82 T 0.001 0.001 0.066 0.001 0.013 0.789 0.001 0.001 0.001 0.022 0.105 0.001 0.002 83 V 0.001 0.006 0.151 0.001 0.012 0.632 0.001 0.001 0.001 0.083 0.108 0.002 0.004 84 D 0.001 0.003 0.414 0.001 0.018 0.405 0.001 0.001 0.001 0.056 0.088 0.004 0.008 85 V 0.002 0.003 0.207 0.002 0.062 0.580 0.001 0.001 0.002 0.060 0.064 0.006 0.012 86 S 0.005 0.005 0.146 0.003 0.060 0.635 0.001 0.001 0.005 0.043 0.058 0.016 0.022 87 R 0.010 0.005 0.110 0.004 0.075 0.596 0.004 0.001 0.015 0.040 0.060 0.030 0.049 88 L 0.010 0.005 0.200 0.017 0.033 0.511 0.004 0.002 0.023 0.059 0.047 0.027 0.062 89 R 0.016 0.004 0.220 0.013 0.026 0.408 0.007 0.002 0.044 0.075 0.050 0.077 0.058 90 R 0.034 0.011 0.204 0.008 0.017 0.308 0.013 0.003 0.072 0.061 0.032 0.052 0.186 91 L 0.028 0.014 0.330 0.008 0.012 0.181 0.010 0.001 0.077 0.041 0.016 0.172 0.109 92 V 0.027 0.025 0.371 0.004 0.011 0.127 0.014 0.001 0.071 0.024 0.022 0.084 0.220 93 T 0.039 0.023 0.334 0.012 0.029 0.134 0.014 0.002 0.036 0.050 0.065 0.045 0.216 94 Q 0.017 0.011 0.425 0.007 0.024 0.073 0.005 0.001 0.018 0.165 0.070 0.128 0.056 95 S 0.003 0.009 0.533 0.001 0.021 0.044 0.001 0.001 0.005 0.193 0.104 0.008 0.078 96 T 0.001 0.008 0.846 0.001 0.004 0.013 0.001 0.001 0.003 0.087 0.021 0.010 0.008 97 P 0.001 0.002 0.986 0.001 0.001 0.001 0.001 0.001 0.001 0.007 0.001 0.001 0.002