# TARGET TR469 # Using neural net dunbrack-40pc-3157-t06-IDGaaH13-3-13-7-13-9-13-11-n_sep-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 20 (1 n_sep ) # The input amino acid frequencies were determined from # alignment TR469.t06-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 20.0325 # 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 Q 0.036 0.005 0.003 0.001 0.002 0.001 0.002 0.001 0.001 0.001 0.002 0.003 0.002 0.005 0.002 0.002 0.039 0.007 0.103 0.783 2 K 0.009 0.003 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.009 0.006 0.008 0.002 0.024 0.004 0.034 0.888 3 F 0.040 0.011 0.004 0.002 0.005 0.003 0.003 0.002 0.003 0.005 0.003 0.001 0.001 0.001 0.001 0.001 0.136 0.005 0.088 0.685 4 T 0.038 0.054 0.001 0.001 0.003 0.004 0.003 0.002 0.115 0.052 0.006 0.002 0.002 0.001 0.001 0.002 0.152 0.007 0.114 0.439 5 K 0.046 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.053 0.007 0.050 0.826 6 D 0.030 0.024 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 0.043 0.011 0.310 0.574 7 M 0.622 0.015 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 0.054 0.079 0.050 0.169 8 T 0.030 0.071 0.011 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 0.073 0.007 0.525 0.277 9 F 0.014 0.036 0.024 0.002 0.063 0.008 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.214 0.006 0.076 0.550 10 A 0.006 0.116 0.002 0.001 0.002 0.049 0.015 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.126 0.004 0.249 0.424 11 Q 0.046 0.174 0.002 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.025 0.009 0.230 0.509 12 A 0.038 0.803 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 0.003 0.011 0.128 13 L 0.035 0.876 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 0.003 0.014 0.050 14 Q 0.051 0.854 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 0.009 0.012 0.005 0.064 15 T 0.109 0.713 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 0.001 0.007 0.079 0.003 0.084 16 H 0.177 0.616 0.014 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.008 0.050 0.005 0.126 17 P 0.001 0.005 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 0.001 0.003 0.981 18 G 0.014 0.039 0.015 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 0.045 0.008 0.112 0.764 19 V 0.488 0.089 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 0.001 0.014 0.011 0.040 0.351 20 A 0.080 0.479 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 0.001 0.126 0.007 0.030 0.269 21 G 0.034 0.362 0.004 0.001 0.004 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.078 0.014 0.071 0.424 22 V 0.060 0.462 0.008 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.088 0.010 0.026 0.333 23 L 0.025 0.707 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.116 0.007 0.017 0.118 24 R 0.051 0.767 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 0.100 0.007 0.013 0.055 25 S 0.041 0.766 0.002 0.001 0.001 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.060 0.023 0.012 0.088 26 Y 0.174 0.561 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 0.029 0.129 0.008 0.088 27 N 0.326 0.178 0.020 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.051 0.146 0.054 0.218 28 L 0.056 0.047 0.428 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 0.033 0.017 0.073 0.339 29 G 0.076 0.034 0.023 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 0.291 0.034 0.178 0.349 30 C 0.134 0.027 0.034 0.006 0.003 0.002 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.066 0.012 0.111 0.596 31 I 0.062 0.031 0.016 0.002 0.002 0.002 0.005 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.318 0.009 0.131 0.411 32 G 0.039 0.019 0.006 0.001 0.002 0.002 0.003 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.110 0.008 0.169 0.633 33 C 0.147 0.036 0.014 0.001 0.002 0.002 0.003 0.002 0.003 0.001 0.002 0.001 0.002 0.002 0.002 0.002 0.177 0.011 0.088 0.502 34 M 0.031 0.036 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 0.103 0.004 0.098 0.718 35 G 0.062 0.070 0.005 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.063 0.007 0.130 0.653 36 A 0.217 0.205 0.006 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.095 0.016 0.101 0.353 37 Q 0.224 0.321 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 0.043 0.014 0.064 0.322 38 N 0.192 0.276 0.022 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 0.048 0.024 0.058 0.374 39 E 0.142 0.259 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 0.001 0.046 0.019 0.075 0.443 40 S 0.056 0.147 0.018 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 0.009 0.012 0.177 0.579 41 L 0.058 0.442 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 0.045 0.005 0.056 0.384 42 E 0.008 0.477 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 0.011 0.002 0.117 0.382 43 Q 0.049 0.440 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 0.005 0.018 0.254 0.230 44 G 0.018 0.958 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 0.001 0.001 0.020 45 A 0.011 0.973 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 0.001 0.001 0.009 46 N 0.019 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 0.007 0.005 0.002 0.014 47 A 0.044 0.895 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 0.004 0.026 0.002 0.024 48 H 0.080 0.819 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 0.003 0.061 0.002 0.028 49 G 0.443 0.146 0.074 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 0.009 0.155 0.015 0.157 50 L 0.066 0.005 0.858 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 0.002 0.003 0.019 0.043 51 N 0.020 0.009 0.028 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 0.010 0.003 0.290 0.637 52 V 0.028 0.015 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 0.047 0.001 0.040 0.864 53 E 0.001 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 0.002 0.001 0.201 0.783 54 D 0.022 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 0.001 0.001 0.889 0.081 55 I 0.009 0.946 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 0.001 0.001 0.042 56 L 0.012 0.956 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 0.001 0.001 0.029 57 R 0.010 0.966 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 0.001 0.001 0.021 58 D 0.017 0.933 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 0.010 0.001 0.038 59 L 0.029 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 0.014 0.001 0.018 60 N 0.061 0.883 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 0.015 0.005 0.031 61 A 0.104 0.649 0.035 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 0.065 0.012 0.131 62 L 0.324 0.360 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 0.005 0.099 0.013 0.172 63 A 0.202 0.233 0.028 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 0.021 0.044 0.036 0.428