# TARGET T0335 # 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 T0335.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 10.373 # 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 0.004 0.022 0.581 0.001 0.021 0.212 0.001 0.001 0.003 0.056 0.052 0.015 0.031 2 I 0.002 0.026 0.571 0.001 0.020 0.228 0.001 0.001 0.002 0.068 0.052 0.010 0.020 3 S 0.001 0.006 0.425 0.001 0.023 0.406 0.001 0.001 0.001 0.071 0.056 0.005 0.007 4 N 0.001 0.001 0.026 0.001 0.026 0.892 0.001 0.001 0.001 0.014 0.039 0.001 0.001 5 A 0.001 0.001 0.013 0.001 0.017 0.935 0.001 0.001 0.001 0.008 0.025 0.001 0.001 6 K 0.001 0.001 0.012 0.001 0.015 0.953 0.001 0.001 0.001 0.003 0.014 0.001 0.001 7 I 0.001 0.001 0.018 0.001 0.005 0.963 0.001 0.001 0.001 0.006 0.005 0.001 0.001 8 A 0.001 0.001 0.010 0.001 0.003 0.971 0.001 0.001 0.001 0.006 0.009 0.001 0.001 9 R 0.001 0.001 0.005 0.001 0.002 0.978 0.001 0.001 0.001 0.003 0.011 0.001 0.001 10 I 0.001 0.001 0.004 0.001 0.001 0.986 0.001 0.001 0.001 0.002 0.006 0.001 0.001 11 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 12 E 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 13 L 0.001 0.001 0.001 0.001 0.001 0.995 0.001 0.001 0.001 0.001 0.004 0.001 0.001 14 A 0.001 0.001 0.002 0.001 0.001 0.989 0.001 0.001 0.001 0.001 0.006 0.001 0.001 15 A 0.001 0.001 0.002 0.001 0.002 0.983 0.001 0.001 0.001 0.001 0.012 0.001 0.001 16 K 0.001 0.001 0.002 0.001 0.004 0.962 0.001 0.001 0.001 0.003 0.028 0.001 0.001 17 A 0.001 0.001 0.022 0.001 0.009 0.902 0.001 0.001 0.001 0.013 0.052 0.001 0.001 18 K 0.001 0.004 0.042 0.001 0.028 0.807 0.001 0.001 0.001 0.017 0.099 0.001 0.001 19 A 0.001 0.004 0.068 0.001 0.027 0.633 0.001 0.001 0.002 0.034 0.229 0.001 0.001 20 G 0.001 0.002 0.044 0.001 0.025 0.107 0.001 0.001 0.001 0.135 0.684 0.001 0.001 21 V 0.001 0.013 0.469 0.001 0.009 0.029 0.001 0.001 0.006 0.173 0.288 0.003 0.008 22 I 0.001 0.095 0.717 0.001 0.001 0.006 0.001 0.001 0.011 0.142 0.011 0.008 0.007 23 T 0.001 0.017 0.860 0.001 0.001 0.023 0.001 0.001 0.006 0.078 0.005 0.001 0.009 24 E 0.001 0.001 0.003 0.001 0.011 0.970 0.001 0.001 0.001 0.003 0.013 0.001 0.001 25 E 0.001 0.001 0.003 0.001 0.017 0.967 0.001 0.001 0.001 0.002 0.010 0.001 0.001 26 E 0.001 0.001 0.004 0.001 0.008 0.984 0.001 0.001 0.001 0.002 0.002 0.001 0.001 27 K 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 28 A 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 29 E 0.001 0.001 0.001 0.001 0.001 0.993 0.001 0.001 0.001 0.001 0.006 0.001 0.001 30 Q 0.001 0.001 0.004 0.001 0.001 0.990 0.001 0.001 0.001 0.002 0.003 0.001 0.001 31 Q 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 32 K 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 33 L 0.001 0.001 0.001 0.001 0.001 0.995 0.001 0.001 0.001 0.001 0.004 0.001 0.001 34 R 0.001 0.001 0.001 0.001 0.001 0.995 0.001 0.001 0.001 0.001 0.003 0.001 0.001 35 Q 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 36 E 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 37 Y 0.001 0.001 0.002 0.001 0.001 0.984 0.001 0.001 0.001 0.001 0.013 0.001 0.001 38 L 0.001 0.001 0.003 0.001 0.002 0.986 0.001 0.001 0.001 0.001 0.008 0.001 0.001 39 K 0.001 0.001 0.001 0.001 0.002 0.980 0.001 0.001 0.001 0.001 0.017 0.001 0.001 40 G 0.001 0.001 0.002 0.001 0.004 0.957 0.001 0.001 0.001 0.001 0.035 0.001 0.001 41 F 0.001 0.001 0.019 0.001 0.008 0.948 0.001 0.001 0.001 0.009 0.016 0.001 0.001 42 R 0.001 0.001 0.007 0.001 0.007 0.974 0.001 0.001 0.001 0.003 0.006 0.001 0.001 43 S 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 44 S 0.001 0.001 0.002 0.001 0.006 0.982 0.001 0.001 0.001 0.001 0.009 0.001 0.001 45 M 0.001 0.001 0.006 0.001 0.007 0.976 0.001 0.001 0.001 0.002 0.009 0.001 0.001 46 K 0.001 0.001 0.004 0.001 0.024 0.941 0.001 0.001 0.001 0.003 0.025 0.001 0.001 47 N 0.001 0.001 0.007 0.001 0.026 0.852 0.001 0.001 0.001 0.010 0.103 0.001 0.001 48 T 0.001 0.002 0.055 0.001 0.066 0.692 0.001 0.001 0.003 0.017 0.156 0.001 0.005 49 L 0.002 0.014 0.320 0.001 0.056 0.458 0.002 0.002 0.036 0.045 0.034 0.008 0.022 50 K 0.001 0.007 0.120 0.157 0.095 0.241 0.001 0.001 0.019 0.143 0.177 0.028 0.010 51 S 0.008 0.004 0.079 0.097 0.098 0.074 0.003 0.003 0.045 0.171 0.336 0.033 0.050 52 V 0.043 0.007 0.274 0.014 0.021 0.020 0.016 0.012 0.187 0.053 0.024 0.070 0.257 53 K 0.063 0.009 0.094 0.008 0.003 0.009 0.037 0.024 0.431 0.030 0.013 0.165 0.114 54 I 0.105 0.008 0.056 0.001 0.001 0.005 0.061 0.049 0.297 0.011 0.002 0.133 0.272 55 I 0.158 0.206 0.099 0.010 0.001 0.005 0.047 0.026 0.133 0.017 0.003 0.082 0.215 56 D 0.001 0.029 0.867 0.001 0.001 0.001 0.001 0.001 0.007 0.022 0.002 0.014 0.055 57 P 0.001 0.001 0.009 0.001 0.009 0.015 0.001 0.001 0.001 0.013 0.954 0.001 0.001 58 E 0.001 0.001 0.005 0.001 0.009 0.005 0.001 0.001 0.001 0.024 0.956 0.001 0.001 59 G 0.001 0.007 0.144 0.001 0.012 0.004 0.001 0.001 0.001 0.736 0.091 0.004 0.001 60 N 0.001 0.014 0.455 0.001 0.028 0.014 0.001 0.001 0.001 0.190 0.255 0.002 0.039 61 D 0.005 0.267 0.302 0.005 0.033 0.011 0.002 0.001 0.001 0.152 0.108 0.015 0.099 62 V 0.007 0.235 0.526 0.005 0.015 0.013 0.001 0.001 0.001 0.093 0.023 0.036 0.044 63 T 0.002 0.021 0.871 0.001 0.002 0.017 0.001 0.001 0.001 0.044 0.003 0.009 0.031 64 P 0.001 0.001 0.027 0.001 0.050 0.867 0.001 0.001 0.001 0.009 0.043 0.001 0.002 65 E 0.001 0.001 0.006 0.001 0.051 0.912 0.001 0.001 0.001 0.003 0.027 0.001 0.001 66 K 0.001 0.001 0.007 0.001 0.050 0.921 0.001 0.001 0.001 0.003 0.015 0.001 0.001 67 L 0.001 0.002 0.025 0.001 0.009 0.942 0.001 0.001 0.001 0.007 0.012 0.001 0.002 68 K 0.001 0.002 0.030 0.001 0.007 0.935 0.001 0.001 0.001 0.009 0.015 0.001 0.001 69 R 0.001 0.001 0.009 0.001 0.006 0.961 0.001 0.001 0.001 0.004 0.017 0.001 0.002 70 E 0.001 0.001 0.015 0.001 0.006 0.953 0.001 0.001 0.001 0.006 0.017 0.001 0.001 71 Q 0.001 0.002 0.029 0.001 0.013 0.924 0.001 0.001 0.001 0.009 0.019 0.001 0.002 72 R 0.001 0.003 0.035 0.001 0.018 0.873 0.001 0.001 0.001 0.011 0.053 0.003 0.003 73 N 0.001 0.002 0.055 0.001 0.031 0.680 0.001 0.001 0.001 0.024 0.198 0.003 0.003 74 N 0.001 0.004 0.137 0.001 0.040 0.424 0.001 0.001 0.001 0.097 0.288 0.004 0.005 75 K 0.001 0.010 0.282 0.001 0.048 0.253 0.001 0.001 0.001 0.122 0.264 0.007 0.011 76 L 0.001 0.019 0.586 0.002 0.024 0.100 0.001 0.001 0.001 0.152 0.098 0.004 0.015 77 H 0.001 0.007 0.885 0.001 0.007 0.018 0.001 0.001 0.001 0.059 0.014 0.005 0.003