# TARGET T0379 # 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 T0379.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 6.62079 # 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 H 0.141 0.065 0.129 0.226 0.017 0.110 0.215 0.004 0.089 0.002 0.002 2 L 0.359 0.139 0.261 0.181 0.020 0.026 0.004 0.001 0.008 0.001 0.001 3 N 0.075 0.066 0.353 0.059 0.042 0.310 0.017 0.003 0.063 0.011 0.001 4 R 0.915 0.004 0.006 0.065 0.001 0.003 0.002 0.001 0.002 0.001 0.001 5 E 0.981 0.001 0.004 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 6 E 0.980 0.001 0.002 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.001 7 S 0.985 0.001 0.002 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 8 I 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 9 R 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 10 R 0.991 0.001 0.001 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 11 F 0.981 0.001 0.001 0.016 0.001 0.001 0.001 0.001 0.001 0.001 0.001 12 K 0.996 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 13 A 0.989 0.001 0.001 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 14 I 0.594 0.001 0.005 0.399 0.001 0.001 0.001 0.001 0.001 0.001 0.001 15 G 0.103 0.002 0.010 0.029 0.009 0.007 0.168 0.649 0.009 0.014 0.001 16 V 0.438 0.145 0.149 0.198 0.009 0.046 0.004 0.001 0.007 0.003 0.001 17 A 0.453 0.136 0.166 0.140 0.062 0.022 0.007 0.003 0.007 0.003 0.001 18 D 0.061 0.040 0.243 0.029 0.063 0.278 0.014 0.001 0.267 0.002 0.001 19 I 0.968 0.001 0.001 0.025 0.001 0.003 0.001 0.001 0.001 0.001 0.001 20 E 0.961 0.001 0.003 0.034 0.001 0.001 0.001 0.001 0.001 0.001 0.001 21 E 0.894 0.003 0.007 0.090 0.001 0.001 0.002 0.001 0.001 0.001 0.001 22 M 0.709 0.004 0.021 0.244 0.001 0.003 0.013 0.002 0.002 0.001 0.001 23 L 0.474 0.050 0.151 0.272 0.010 0.021 0.010 0.002 0.007 0.004 0.001 24 D 0.162 0.101 0.503 0.010 0.039 0.056 0.009 0.001 0.090 0.026 0.001 25 P 0.983 0.001 0.003 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 26 Y 0.946 0.001 0.003 0.043 0.001 0.001 0.002 0.002 0.001 0.001 0.001 27 L 0.869 0.003 0.010 0.105 0.001 0.006 0.003 0.001 0.002 0.001 0.001 28 Q 0.812 0.029 0.039 0.054 0.004 0.023 0.022 0.003 0.012 0.002 0.001 29 K 0.866 0.024 0.041 0.053 0.003 0.006 0.003 0.001 0.001 0.001 0.001 30 G 0.859 0.007 0.010 0.020 0.021 0.002 0.024 0.046 0.001 0.011 0.001 31 L 0.955 0.009 0.006 0.027 0.001 0.001 0.001 0.001 0.001 0.001 0.001 32 F 0.921 0.022 0.013 0.029 0.003 0.006 0.002 0.001 0.003 0.001 0.001 33 L 0.945 0.012 0.012 0.026 0.001 0.002 0.001 0.001 0.001 0.001 0.001 34 D 0.875 0.014 0.038 0.050 0.003 0.009 0.007 0.001 0.002 0.001 0.001 35 L 0.832 0.021 0.024 0.101 0.002 0.008 0.005 0.001 0.005 0.001 0.001 36 E 0.599 0.144 0.144 0.052 0.016 0.019 0.007 0.002 0.015 0.001 0.001 37 S 0.398 0.034 0.100 0.439 0.008 0.006 0.010 0.001 0.004 0.001 0.001 38 G 0.036 0.004 0.026 0.026 0.039 0.001 0.116 0.684 0.003 0.064 0.001 39 R 0.188 0.207 0.425 0.065 0.032 0.059 0.011 0.001 0.008 0.002 0.002 40 K 0.082 0.365 0.391 0.091 0.027 0.033 0.003 0.001 0.007 0.001 0.001 41 S 0.004 0.185 0.565 0.003 0.167 0.031 0.001 0.001 0.041 0.003 0.001 42 E 0.987 0.001 0.006 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 43 E 0.995 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 44 E 0.971 0.001 0.001 0.028 0.001 0.001 0.001 0.001 0.001 0.001 0.001 45 F 0.900 0.001 0.005 0.085 0.001 0.002 0.004 0.001 0.001 0.001 0.001 46 R 0.970 0.003 0.007 0.013 0.001 0.003 0.002 0.001 0.001 0.001 0.001 47 T 0.984 0.002 0.005 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 48 E 0.957 0.002 0.003 0.034 0.001 0.001 0.001 0.001 0.001 0.001 0.001 49 L 0.963 0.001 0.003 0.030 0.001 0.001 0.001 0.001 0.001 0.001 0.001 50 S 0.984 0.001 0.003 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 51 R 0.974 0.002 0.004 0.018 0.001 0.001 0.001 0.001 0.001 0.001 0.001 52 Y 0.915 0.004 0.007 0.069 0.001 0.001 0.001 0.001 0.001 0.001 0.001 53 I 0.631 0.011 0.040 0.297 0.002 0.004 0.007 0.001 0.006 0.001 0.001 54 G 0.317 0.004 0.040 0.098 0.008 0.004 0.174 0.308 0.002 0.044 0.001 55 K 0.585 0.082 0.232 0.064 0.011 0.013 0.006 0.001 0.004 0.001 0.001 56 E 0.513 0.055 0.215 0.145 0.006 0.038 0.011 0.004 0.011 0.001 0.001 57 L 0.217 0.185 0.487 0.043 0.019 0.035 0.004 0.001 0.010 0.001 0.001 58 T 0.182 0.265 0.358 0.036 0.095 0.032 0.002 0.001 0.019 0.011 0.001 59 Y 0.988 0.002 0.004 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 60 Q 0.997 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 61 Q 0.998 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 62 V 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 63 Y 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 64 D 0.998 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 65 A 0.989 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 66 L 0.993 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 67 L 0.994 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 68 G 0.988 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 69 F 0.924 0.001 0.001 0.072 0.001 0.001 0.001 0.001 0.001 0.001 0.001 70 L 0.701 0.018 0.055 0.198 0.002 0.013 0.004 0.001 0.008 0.001 0.001 71 E 0.558 0.043 0.122 0.200 0.011 0.022 0.026 0.005 0.008 0.006 0.001 72 E 0.542 0.052 0.122 0.144 0.032 0.016 0.056 0.017 0.010 0.009 0.001