# TARGET T0335 # Using neural net t06-IDGaaH13-3-13-7-13-9-13-11-o_sep-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 20 (1 o_sep ) # The input amino acid frequencies were determined from # alignment T0335.t2k-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 10.3373 # Pos AA G H I J K L M N P Q R S T U V W A B C D 10N 1S 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 1 M 0.038 0.363 0.014 0.001 0.002 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.037 0.093 0.083 0.362 2 I 0.050 0.525 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.014 0.048 0.042 0.308 3 S 0.026 0.828 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.016 0.011 0.114 4 N 0.009 0.879 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.026 0.008 0.075 5 A 0.006 0.893 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.040 0.008 0.049 6 K 0.007 0.935 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.019 0.003 0.032 7 I 0.006 0.863 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.099 0.004 0.025 8 A 0.004 0.929 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.023 0.004 0.037 9 R 0.006 0.941 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.008 0.003 0.040 10 I 0.005 0.952 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.016 0.002 0.023 11 N 0.006 0.930 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.015 0.004 0.042 12 E 0.015 0.925 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.007 0.003 0.051 13 L 0.009 0.929 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.022 0.003 0.033 14 A 0.013 0.890 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.021 0.008 0.063 15 A 0.049 0.784 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.022 0.009 0.128 16 K 0.040 0.389 0.053 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.176 0.037 0.290 17 A 0.332 0.047 0.061 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.105 0.053 0.399 18 K 0.214 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.032 0.069 0.669 19 A 0.028 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.007 0.023 0.068 0.873 20 G 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.018 0.027 0.092 0.859 21 V 0.003 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.019 0.005 0.118 0.844 22 I 0.001 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.034 0.007 0.104 0.842 23 T 0.014 0.921 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.040 0.002 0.022 24 E 0.008 0.955 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.019 0.001 0.017 25 E 0.002 0.914 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.024 0.002 0.058 26 E 0.004 0.943 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.017 0.001 0.035 27 K 0.003 0.957 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.013 0.001 0.025 28 A 0.002 0.953 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.020 0.002 0.024 29 E 0.002 0.942 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.027 0.002 0.027 30 Q 0.003 0.940 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.032 0.002 0.023 31 Q 0.002 0.935 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.035 0.002 0.026 32 K 0.001 0.942 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.027 0.003 0.026 33 L 0.004 0.900 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.065 0.003 0.023 34 R 0.010 0.937 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.023 0.002 0.027 35 Q 0.003 0.929 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.023 0.002 0.042 36 E 0.002 0.897 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.050 0.005 0.043 37 Y 0.014 0.909 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.025 0.006 0.041 38 L 0.015 0.926 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.033 0.002 0.023 39 K 0.015 0.530 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.316 0.020 0.117 40 G 0.005 0.323 0.013 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.551 0.029 0.079 41 F 0.021 0.846 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.044 0.016 0.066 42 R 0.033 0.862 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.029 0.005 0.069 43 S 0.018 0.512 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.199 0.034 0.235 44 S 0.006 0.065 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.841 0.028 0.055 45 M 0.048 0.472 0.023 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.235 0.060 0.154 46 K 0.091 0.489 0.010 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.061 0.033 0.307 47 N 0.058 0.098 0.045 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.011 0.225 0.085 0.474 48 T 0.071 0.111 0.011 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.022 0.105 0.118 0.558 49 L 0.306 0.013 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.021 0.085 0.083 0.483 50 K 0.024 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.079 0.036 0.112 0.744 51 S 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.154 0.051 0.075 0.714 52 V 0.001 0.003 0.001 0.001 0.001 0.001 0.002 0.003 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.385 0.065 0.077 0.459 53 K 0.001 0.002 0.001 0.001 0.001 0.003 0.002 0.017 0.001 0.001 0.001 0.001 0.001 0.001 0.007 0.005 0.717 0.059 0.020 0.162 54 I 0.001 0.001 0.001 0.001 0.086 0.375 0.135 0.013 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.071 0.096 0.031 0.187 55 I 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.698 0.032 0.019 0.245 56 D 0.738 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.008 0.079 0.016 0.148 57 P 0.053 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.018 0.013 0.077 0.837 58 E 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.014 0.007 0.069 0.905 59 G 0.032 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.032 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.018 0.050 0.119 0.745 60 N 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.477 0.001 0.001 0.001 0.001 0.001 0.001 0.022 0.016 0.055 0.415 61 D 0.015 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.123 0.001 0.025 0.001 0.002 0.001 0.025 0.007 0.087 0.711 62 V 0.003 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.015 0.001 0.067 0.001 0.003 0.034 0.010 0.124 0.732 63 T 0.047 0.695 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.011 0.001 0.004 0.059 0.025 0.156 64 P 0.039 0.877 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.035 0.004 0.044 65 E 0.011 0.856 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.024 0.005 0.101 66 K 0.007 0.904 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.014 0.004 0.069 67 L 0.006 0.930 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.018 0.004 0.040 68 K 0.014 0.879 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.043 0.006 0.057 69 R 0.014 0.522 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.343 0.022 0.088 70 E 0.020 0.308 0.059 0.023 0.003 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.436 0.046 0.100 71 Q 0.065 0.079 0.390 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.287 0.032 0.139 72 R 0.526 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.028 0.041 0.390 73 N 0.004 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.006 0.013 0.054 0.915 74 N 0.006 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.029 0.020 0.104 0.829 75 K 0.021 0.026 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.078 0.040 0.098 0.728 76 L 0.019 0.027 0.001 0.001 0.001 0.001 0.002 0.001 0.002 0.005 0.003 0.001 0.001 0.001 0.001 0.001 0.065 0.041 0.101 0.730 77 H 0.096 0.060 0.003 0.001 0.001 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.160 0.082 0.070 0.518 78 L 0.129 0.057 0.004 0.001 0.004 0.003 0.008 0.004 0.001 0.001 0.001 0.001 0.001 0.004 0.006 0.001 0.062 0.088 0.089 0.536 79 E 0.075 0.043 0.002 0.002 0.002 0.006 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.091 0.056 0.083 0.629 80 H 0.126 0.026 0.004 0.002 0.003 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.044 0.069 0.077 0.642 81 H 0.072 0.010 0.001 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.040 0.052 0.085 0.731 82 H 0.054 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.027 0.022 0.069 0.820 83 H 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.033 0.020 0.086 0.840 84 H 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.022 0.014 0.090 0.865 85 H 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.002 0.004 0.001 0.002 0.001 0.002 0.001 0.025 0.020 0.107 0.827