# TARGET T0335 # 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 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 12.359 # 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 0.432 0.102 0.163 0.147 0.038 0.038 0.040 0.015 0.018 0.005 0.001 2 I 0.466 0.155 0.178 0.123 0.012 0.030 0.009 0.001 0.020 0.004 0.001 3 S 0.452 0.109 0.308 0.047 0.026 0.019 0.007 0.002 0.009 0.019 0.001 4 N 0.936 0.002 0.010 0.024 0.002 0.003 0.014 0.007 0.001 0.001 0.001 5 A 0.952 0.003 0.007 0.029 0.001 0.001 0.003 0.003 0.001 0.001 0.001 6 K 0.976 0.002 0.003 0.016 0.001 0.002 0.001 0.001 0.001 0.001 0.001 7 I 0.989 0.002 0.005 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.001 8 A 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 9 R 0.993 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 10 I 0.996 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 11 N 0.995 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 12 E 0.997 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 13 L 0.995 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 14 A 0.995 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 15 A 0.977 0.001 0.001 0.021 0.001 0.001 0.001 0.001 0.001 0.001 0.001 16 K 0.977 0.002 0.007 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 17 A 0.918 0.004 0.007 0.063 0.001 0.001 0.002 0.001 0.001 0.001 0.001 18 K 0.885 0.013 0.019 0.062 0.003 0.004 0.009 0.001 0.003 0.001 0.001 19 A 0.557 0.013 0.042 0.343 0.005 0.006 0.025 0.005 0.003 0.001 0.001 20 G 0.317 0.028 0.125 0.216 0.041 0.013 0.088 0.143 0.012 0.016 0.001 21 V 0.251 0.115 0.245 0.198 0.034 0.041 0.080 0.008 0.023 0.005 0.001 22 I 0.039 0.162 0.642 0.059 0.015 0.067 0.005 0.001 0.008 0.001 0.001 23 T 0.008 0.138 0.722 0.001 0.100 0.015 0.001 0.001 0.011 0.004 0.001 24 E 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 25 E 0.996 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 26 E 0.991 0.001 0.001 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 27 K 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 28 A 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 29 E 0.987 0.001 0.001 0.013 0.001 0.001 0.001 0.001 0.001 0.001 0.001 30 Q 0.996 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 31 Q 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 32 K 0.998 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 33 L 0.993 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 34 R 0.997 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 35 Q 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 36 E 0.991 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 37 Y 0.983 0.001 0.001 0.016 0.001 0.001 0.001 0.001 0.001 0.001 0.001 38 L 0.990 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 39 K 0.989 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 40 G 0.977 0.001 0.001 0.016 0.001 0.001 0.001 0.004 0.001 0.001 0.001 41 F 0.941 0.001 0.003 0.051 0.001 0.001 0.001 0.001 0.001 0.001 0.001 42 R 0.968 0.003 0.006 0.016 0.001 0.003 0.002 0.001 0.001 0.001 0.001 43 S 0.966 0.003 0.007 0.018 0.002 0.001 0.002 0.001 0.001 0.001 0.001 44 S 0.903 0.004 0.007 0.071 0.004 0.004 0.003 0.002 0.003 0.001 0.001 45 M 0.955 0.002 0.002 0.038 0.001 0.001 0.001 0.001 0.001 0.001 0.001 46 K 0.979 0.002 0.004 0.011 0.001 0.002 0.002 0.001 0.001 0.001 0.001 47 N 0.916 0.003 0.003 0.068 0.002 0.002 0.005 0.002 0.001 0.001 0.001 48 T 0.747 0.010 0.009 0.220 0.001 0.005 0.005 0.001 0.003 0.001 0.001 49 L 0.365 0.100 0.380 0.052 0.004 0.069 0.003 0.001 0.025 0.001 0.001 50 K 0.785 0.004 0.004 0.204 0.001 0.001 0.001 0.001 0.001 0.001 0.001 51 S 0.102 0.277 0.062 0.198 0.283 0.008 0.053 0.006 0.009 0.001 0.001 52 V 0.022 0.692 0.186 0.020 0.029 0.013 0.001 0.001 0.036 0.001 0.001 53 K 0.017 0.678 0.171 0.004 0.021 0.051 0.002 0.001 0.056 0.001 0.001 54 I 0.006 0.586 0.325 0.005 0.014 0.046 0.001 0.001 0.017 0.001 0.001 55 I 0.010 0.619 0.241 0.021 0.036 0.049 0.002 0.001 0.021 0.001 0.001 56 D 0.001 0.097 0.753 0.001 0.037 0.064 0.001 0.001 0.046 0.001 0.001 57 P 0.981 0.001 0.001 0.016 0.001 0.001 0.001 0.001 0.001 0.001 0.001 58 E 0.330 0.002 0.014 0.644 0.001 0.001 0.006 0.001 0.002 0.001 0.001 59 G 0.066 0.004 0.083 0.173 0.015 0.004 0.150 0.468 0.003 0.035 0.001 60 N 0.390 0.042 0.380 0.091 0.012 0.010 0.048 0.010 0.005 0.012 0.001 61 D 0.139 0.036 0.316 0.284 0.018 0.084 0.072 0.023 0.021 0.006 0.001 62 V 0.182 0.225 0.421 0.127 0.017 0.023 0.002 0.001 0.003 0.001 0.001 63 T 0.034 0.238 0.528 0.012 0.083 0.043 0.001 0.001 0.056 0.006 0.001 64 P 0.978 0.001 0.016 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 65 E 0.991 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 66 K 0.985 0.001 0.001 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.001 67 L 0.979 0.001 0.004 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.001 68 K 0.986 0.001 0.003 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 69 R 0.986 0.002 0.002 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 70 E 0.954 0.002 0.003 0.038 0.001 0.001 0.001 0.001 0.001 0.001 0.001 71 Q 0.922 0.004 0.006 0.053 0.001 0.003 0.005 0.002 0.003 0.001 0.001 72 R 0.899 0.011 0.013 0.055 0.002 0.005 0.011 0.001 0.001 0.001 0.001 73 N 0.705 0.012 0.025 0.193 0.006 0.010 0.040 0.003 0.004 0.002 0.001 74 N 0.264 0.026 0.047 0.465 0.014 0.020 0.125 0.023 0.014 0.002 0.001 75 K 0.389 0.036 0.059 0.084 0.017 0.020 0.346 0.029 0.012 0.007 0.001 76 L 0.538 0.116 0.163 0.116 0.013 0.028 0.010 0.002 0.011 0.002 0.001 77 H 0.491 0.143 0.119 0.145 0.025 0.033 0.019 0.003 0.019 0.002 0.001 78 L 0.530 0.114 0.155 0.094 0.024 0.031 0.024 0.004 0.019 0.004 0.001 79 E 0.502 0.149 0.160 0.122 0.018 0.022 0.008 0.002 0.015 0.001 0.001 80 H 0.321 0.152 0.213 0.172 0.031 0.041 0.031 0.005 0.031 0.002 0.001 81 H 0.376 0.144 0.189 0.183 0.024 0.032 0.023 0.004 0.020 0.003 0.001 82 H 0.286 0.110 0.151 0.246 0.028 0.065 0.063 0.007 0.037 0.005 0.001 83 H 0.246 0.142 0.193 0.273 0.029 0.042 0.033 0.007 0.032 0.004 0.001 84 H 0.198 0.124 0.262 0.254 0.023 0.045 0.050 0.012 0.027 0.005 0.001 85 H 0.172 0.156 0.271 0.133 0.074 0.024 0.069 0.050 0.017 0.034 0.001