# TARGET T0352 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-bys-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 11 (1 Bystroff ) # The input amino acid frequencies were determined from # alignment T0352.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 15.1991 # Pos AA H E P G Y N L T D S C 10N 1S 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 1 M 0.219 0.155 0.302 0.111 0.067 0.051 0.038 0.010 0.038 0.008 0.001 2 T 0.276 0.150 0.337 0.113 0.041 0.043 0.014 0.005 0.012 0.009 0.002 3 T 0.417 0.162 0.119 0.221 0.024 0.019 0.008 0.004 0.015 0.010 0.001 4 H 0.585 0.060 0.223 0.037 0.034 0.014 0.011 0.006 0.010 0.020 0.001 5 D 0.919 0.002 0.014 0.023 0.001 0.016 0.013 0.008 0.002 0.001 0.001 6 R 0.986 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 7 V 0.994 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 8 R 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 9 L 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 10 Q 0.990 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 11 L 0.997 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 12 Q 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 13 A 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 14 L 0.996 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 15 E 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 16 A 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 17 L 0.997 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 18 L 0.985 0.001 0.001 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.001 19 R 0.992 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 20 E 0.961 0.002 0.002 0.034 0.001 0.001 0.001 0.001 0.001 0.001 0.001 21 H 0.481 0.007 0.013 0.488 0.002 0.002 0.003 0.001 0.003 0.001 0.001 22 Q 0.159 0.007 0.019 0.051 0.005 0.019 0.671 0.053 0.014 0.002 0.001 23 H 0.509 0.104 0.091 0.234 0.021 0.022 0.009 0.002 0.007 0.001 0.001 24 W 0.441 0.116 0.186 0.151 0.046 0.030 0.009 0.005 0.012 0.003 0.001 25 R 0.416 0.169 0.148 0.162 0.029 0.036 0.012 0.003 0.022 0.002 0.001 26 N 0.274 0.183 0.131 0.268 0.038 0.034 0.034 0.009 0.029 0.001 0.001 27 D 0.110 0.293 0.350 0.074 0.045 0.044 0.027 0.004 0.049 0.004 0.001 28 E 0.046 0.132 0.684 0.004 0.012 0.032 0.010 0.001 0.075 0.002 0.004 29 P 0.107 0.006 0.799 0.008 0.001 0.023 0.001 0.001 0.001 0.001 0.052 30 Q 0.055 0.070 0.769 0.004 0.013 0.037 0.003 0.001 0.042 0.003 0.003 31 P 0.797 0.005 0.151 0.020 0.001 0.013 0.001 0.001 0.001 0.001 0.011 32 H 0.834 0.015 0.035 0.079 0.011 0.004 0.010 0.006 0.004 0.002 0.001 33 Q 0.616 0.024 0.057 0.267 0.009 0.013 0.006 0.002 0.004 0.001 0.001 34 F 0.331 0.124 0.240 0.179 0.039 0.055 0.010 0.004 0.017 0.002 0.001 35 N 0.181 0.110 0.090 0.465 0.037 0.049 0.029 0.004 0.033 0.002 0.001 36 S 0.149 0.235 0.343 0.087 0.152 0.017 0.004 0.003 0.005 0.005 0.001 37 T 0.242 0.039 0.044 0.639 0.009 0.008 0.005 0.005 0.008 0.001 0.001 38 Q 0.004 0.461 0.256 0.001 0.038 0.011 0.011 0.001 0.218 0.001 0.001 39 P 0.051 0.015 0.802 0.003 0.001 0.053 0.001 0.001 0.002 0.001 0.074 40 F 0.091 0.402 0.235 0.052 0.083 0.053 0.025 0.013 0.043 0.003 0.001 41 F 0.082 0.437 0.270 0.026 0.064 0.076 0.011 0.003 0.026 0.004 0.001 42 M 0.204 0.355 0.172 0.119 0.067 0.045 0.006 0.001 0.030 0.002 0.001 43 D 0.191 0.099 0.179 0.126 0.052 0.198 0.084 0.004 0.059 0.007 0.001 44 T 0.297 0.132 0.096 0.404 0.021 0.029 0.007 0.002 0.011 0.001 0.001 45 M 0.306 0.104 0.292 0.059 0.075 0.016 0.059 0.029 0.023 0.035 0.001 46 E 0.217 0.042 0.620 0.008 0.011 0.043 0.008 0.002 0.035 0.006 0.007 47 P 0.955 0.001 0.028 0.009 0.001 0.004 0.001 0.001 0.001 0.001 0.002 48 L 0.953 0.001 0.004 0.038 0.001 0.002 0.001 0.001 0.001 0.001 0.001 49 E 0.962 0.006 0.011 0.016 0.001 0.002 0.001 0.001 0.001 0.001 0.001 50 W 0.991 0.001 0.003 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 51 L 0.993 0.002 0.002 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 52 Q 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 53 W 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 54 V 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 55 L 0.954 0.001 0.001 0.043 0.001 0.001 0.001 0.001 0.001 0.001 0.001 56 I 0.888 0.007 0.015 0.029 0.001 0.008 0.003 0.001 0.049 0.001 0.001 57 P 0.971 0.001 0.009 0.011 0.001 0.002 0.002 0.003 0.001 0.001 0.001 58 R 0.958 0.001 0.003 0.031 0.001 0.003 0.001 0.001 0.001 0.001 0.001 59 M 0.982 0.001 0.001 0.017 0.001 0.001 0.001 0.001 0.001 0.001 0.001 60 H 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 61 D 0.993 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 62 L 0.988 0.001 0.001 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 63 L 0.972 0.002 0.002 0.023 0.001 0.001 0.001 0.001 0.001 0.001 0.001 64 D 0.887 0.006 0.011 0.083 0.001 0.003 0.006 0.001 0.001 0.001 0.001 65 N 0.297 0.012 0.029 0.645 0.004 0.001 0.007 0.002 0.001 0.001 0.001 66 K 0.039 0.005 0.013 0.147 0.003 0.022 0.688 0.071 0.010 0.002 0.001 67 Q 0.007 0.432 0.342 0.001 0.015 0.027 0.007 0.001 0.169 0.001 0.001 68 P 0.078 0.005 0.762 0.010 0.001 0.079 0.001 0.001 0.002 0.001 0.063 69 L 0.036 0.198 0.586 0.003 0.010 0.050 0.007 0.001 0.108 0.001 0.001 70 P 0.119 0.008 0.805 0.010 0.001 0.037 0.001 0.001 0.003 0.001 0.017 71 G 0.270 0.022 0.143 0.064 0.070 0.005 0.042 0.244 0.002 0.137 0.001 72 A 0.471 0.114 0.130 0.159 0.056 0.020 0.021 0.015 0.008 0.005 0.001 73 F 0.234 0.244 0.223 0.180 0.063 0.022 0.010 0.004 0.016 0.004 0.001 74 A 0.325 0.220 0.227 0.045 0.064 0.067 0.013 0.004 0.025 0.006 0.001 75 V 0.428 0.252 0.172 0.065 0.012 0.043 0.002 0.001 0.022 0.001 0.001 76 A 0.658 0.062 0.173 0.004 0.019 0.013 0.009 0.003 0.041 0.017 0.001 77 P 0.924 0.002 0.045 0.005 0.001 0.009 0.001 0.001 0.001 0.001 0.014 78 Y 0.962 0.007 0.007 0.014 0.001 0.003 0.002 0.002 0.001 0.001 0.001 79 Y 0.973 0.007 0.005 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 80 E 0.990 0.002 0.002 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 81 M 0.984 0.002 0.002 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 82 A 0.978 0.002 0.002 0.017 0.001 0.001 0.001 0.001 0.001 0.001 0.001 83 L 0.928 0.006 0.010 0.048 0.001 0.003 0.001 0.001 0.001 0.001 0.001 84 A 0.806 0.020 0.030 0.118 0.004 0.009 0.006 0.001 0.004 0.001 0.001 85 T 0.633 0.032 0.075 0.220 0.019 0.005 0.009 0.003 0.002 0.002 0.001 86 D 0.201 0.021 0.058 0.513 0.008 0.073 0.090 0.011 0.023 0.002 0.001 87 H 0.073 0.157 0.352 0.009 0.019 0.049 0.009 0.001 0.329 0.002 0.001 88 P 0.913 0.001 0.051 0.021 0.001 0.005 0.002 0.001 0.001 0.001 0.006 89 Q 0.788 0.006 0.012 0.161 0.003 0.005 0.009 0.009 0.003 0.002 0.001 90 R 0.879 0.014 0.040 0.057 0.002 0.005 0.002 0.001 0.002 0.001 0.001 91 A 0.938 0.005 0.020 0.015 0.002 0.004 0.008 0.005 0.001 0.001 0.001 92 L 0.978 0.002 0.005 0.010 0.001 0.002 0.001 0.001 0.001 0.001 0.001 93 I 0.991 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 94 L 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 95 A 0.998 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 96 E 0.988 0.001 0.001 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 97 L 0.993 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 98 E 0.997 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 99 K 0.990 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 100 L 0.993 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 101 D 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 102 A 0.997 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 103 L 0.963 0.001 0.001 0.036 0.001 0.001 0.001 0.001 0.001 0.001 0.001 104 F 0.826 0.005 0.015 0.142 0.001 0.004 0.001 0.001 0.005 0.001 0.001 105 A 0.593 0.032 0.092 0.233 0.006 0.015 0.013 0.004 0.007 0.004 0.001 106 D 0.551 0.032 0.144 0.183 0.015 0.015 0.034 0.008 0.009 0.006 0.001 107 D 0.416 0.032 0.091 0.318 0.014 0.040 0.055 0.012 0.019 0.002 0.001 108 A 0.332 0.074 0.149 0.301 0.024 0.038 0.043 0.012 0.023 0.004 0.001 109 S 0.290 0.099 0.229 0.180 0.058 0.026 0.042 0.033 0.013 0.029 0.001