# TARGET T0335 # Using neural net dunbrack-30pc-1763-t2k-thin90-IDGaaH13-3-13-7-13-9-13-11-t2c3-n_notor2-from-empty.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 11 (1 n_notor2 ) # 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 G H I P A B S F J M N 10N 1S 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 1 M 0.223 0.118 0.019 0.014 0.008 0.011 0.035 0.009 0.001 0.004 0.559 2 I 0.112 0.092 0.026 0.019 0.018 0.024 0.147 0.006 0.001 0.007 0.549 3 S 0.053 0.061 0.007 0.010 0.007 0.013 0.178 0.003 0.001 0.004 0.663 4 N 0.030 0.118 0.003 0.011 0.004 0.006 0.086 0.002 0.001 0.003 0.736 5 A 0.038 0.147 0.002 0.004 0.003 0.006 0.348 0.002 0.001 0.010 0.441 6 K 0.070 0.465 0.003 0.006 0.007 0.012 0.269 0.008 0.001 0.011 0.150 7 I 0.044 0.904 0.003 0.002 0.001 0.002 0.006 0.002 0.001 0.001 0.034 8 A 0.007 0.947 0.001 0.001 0.001 0.001 0.004 0.002 0.001 0.001 0.036 9 R 0.074 0.789 0.001 0.001 0.001 0.001 0.003 0.029 0.001 0.001 0.102 10 I 0.053 0.917 0.013 0.001 0.001 0.001 0.002 0.002 0.001 0.001 0.012 11 N 0.002 0.936 0.001 0.001 0.001 0.001 0.007 0.006 0.001 0.001 0.047 12 E 0.010 0.889 0.001 0.001 0.001 0.001 0.014 0.003 0.001 0.001 0.083 13 L 0.006 0.971 0.001 0.001 0.001 0.001 0.005 0.001 0.001 0.001 0.014 14 A 0.017 0.950 0.001 0.001 0.001 0.001 0.010 0.009 0.001 0.001 0.010 15 A 0.013 0.974 0.003 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.007 16 K 0.010 0.972 0.001 0.001 0.001 0.001 0.001 0.005 0.001 0.001 0.013 17 A 0.026 0.948 0.001 0.001 0.001 0.001 0.001 0.015 0.001 0.001 0.009 18 K 0.075 0.743 0.008 0.001 0.001 0.001 0.002 0.108 0.001 0.001 0.063 19 A 0.119 0.658 0.065 0.006 0.002 0.004 0.006 0.054 0.001 0.001 0.086 20 G 0.242 0.251 0.020 0.024 0.006 0.006 0.031 0.117 0.001 0.001 0.301 21 V 0.351 0.057 0.213 0.026 0.002 0.003 0.029 0.012 0.001 0.003 0.304 22 I 0.052 0.032 0.103 0.175 0.012 0.018 0.112 0.006 0.001 0.003 0.487 23 T 0.031 0.012 0.003 0.061 0.004 0.006 0.383 0.001 0.001 0.002 0.498 24 E 0.003 0.006 0.001 0.004 0.001 0.001 0.027 0.001 0.001 0.001 0.960 25 E 0.003 0.022 0.001 0.004 0.001 0.002 0.656 0.001 0.001 0.005 0.307 26 E 0.026 0.034 0.001 0.002 0.001 0.004 0.868 0.002 0.001 0.018 0.047 27 K 0.044 0.913 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.038 28 A 0.004 0.982 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.014 29 E 0.008 0.963 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.027 30 Q 0.033 0.947 0.001 0.001 0.001 0.001 0.001 0.009 0.001 0.001 0.010 31 Q 0.008 0.983 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.006 32 K 0.006 0.966 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.025 33 L 0.012 0.960 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.024 34 R 0.012 0.971 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.012 35 Q 0.010 0.973 0.002 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.011 36 E 0.015 0.943 0.001 0.001 0.001 0.001 0.001 0.008 0.001 0.001 0.033 37 Y 0.022 0.959 0.001 0.001 0.001 0.001 0.001 0.006 0.001 0.001 0.013 38 L 0.012 0.963 0.004 0.001 0.001 0.001 0.001 0.005 0.001 0.001 0.014 39 K 0.011 0.942 0.003 0.001 0.001 0.001 0.002 0.007 0.001 0.001 0.032 40 G 0.062 0.835 0.003 0.001 0.001 0.001 0.003 0.010 0.001 0.001 0.086 41 F 0.081 0.855 0.007 0.001 0.001 0.001 0.004 0.007 0.001 0.001 0.043 42 R 0.022 0.855 0.014 0.006 0.002 0.005 0.011 0.010 0.001 0.001 0.073 43 S 0.030 0.661 0.005 0.004 0.003 0.004 0.014 0.013 0.001 0.001 0.266 44 S 0.134 0.684 0.004 0.001 0.001 0.001 0.014 0.005 0.001 0.001 0.153 45 M 0.048 0.832 0.006 0.002 0.002 0.003 0.015 0.007 0.001 0.001 0.083 46 K 0.030 0.809 0.008 0.004 0.004 0.007 0.017 0.008 0.001 0.002 0.110 47 N 0.068 0.708 0.005 0.002 0.005 0.009 0.036 0.014 0.001 0.002 0.149 48 T 0.150 0.700 0.004 0.002 0.005 0.004 0.007 0.020 0.001 0.001 0.108 49 L 0.089 0.775 0.011 0.005 0.008 0.010 0.010 0.019 0.001 0.003 0.071 50 K 0.067 0.522 0.022 0.010 0.027 0.042 0.032 0.033 0.001 0.004 0.240 51 S 0.220 0.256 0.019 0.021 0.034 0.062 0.027 0.074 0.001 0.005 0.281 52 V 0.368 0.138 0.070 0.080 0.075 0.062 0.024 0.027 0.001 0.006 0.149 53 K 0.046 0.035 0.047 0.149 0.172 0.172 0.095 0.011 0.001 0.004 0.269 54 I 0.011 0.006 0.016 0.107 0.277 0.316 0.028 0.003 0.001 0.001 0.236 55 I 0.009 0.003 0.002 0.216 0.188 0.385 0.051 0.002 0.001 0.002 0.142 56 D 0.015 0.002 0.001 0.119 0.262 0.219 0.139 0.001 0.001 0.003 0.238 57 P 0.001 0.001 0.001 0.016 0.007 0.009 0.018 0.001 0.001 0.001 0.947 58 E 0.002 0.001 0.001 0.010 0.009 0.019 0.745 0.001 0.001 0.010 0.205 59 G 0.756 0.001 0.001 0.008 0.002 0.002 0.057 0.001 0.001 0.111 0.062 60 N 0.432 0.029 0.006 0.014 0.004 0.004 0.321 0.002 0.001 0.027 0.162 61 D 0.113 0.007 0.013 0.022 0.007 0.010 0.323 0.001 0.001 0.013 0.491 62 V 0.132 0.010 0.028 0.081 0.021 0.060 0.175 0.001 0.001 0.012 0.479 63 T 0.014 0.004 0.001 0.018 0.039 0.049 0.606 0.001 0.001 0.002 0.267 64 P 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.997 65 E 0.001 0.002 0.001 0.003 0.003 0.010 0.623 0.001 0.001 0.004 0.354 66 K 0.129 0.011 0.001 0.004 0.002 0.007 0.664 0.001 0.001 0.036 0.146 67 L 0.127 0.779 0.001 0.011 0.001 0.002 0.006 0.001 0.001 0.001 0.071 68 K 0.035 0.877 0.001 0.002 0.001 0.002 0.004 0.002 0.001 0.001 0.076 69 R 0.064 0.823 0.001 0.001 0.001 0.001 0.003 0.004 0.001 0.001 0.103 70 E 0.063 0.830 0.001 0.001 0.001 0.001 0.001 0.016 0.001 0.001 0.087 71 Q 0.059 0.873 0.003 0.001 0.001 0.002 0.004 0.018 0.001 0.001 0.037 72 R 0.061 0.763 0.015 0.001 0.002 0.005 0.012 0.011 0.001 0.001 0.129 73 N 0.069 0.740 0.007 0.005 0.004 0.007 0.013 0.024 0.001 0.001 0.130 74 N 0.196 0.510 0.007 0.005 0.003 0.004 0.019 0.028 0.001 0.002 0.226 75 K 0.205 0.322 0.035 0.006 0.005 0.005 0.061 0.025 0.001 0.005 0.330 76 L 0.131 0.207 0.067 0.016 0.012 0.014 0.115 0.016 0.001 0.007 0.414 77 H 0.100 0.123 0.015 0.028 0.020 0.030 0.190 0.012 0.001 0.007 0.476 78 L 0.085 0.116 0.012 0.024 0.016 0.026 0.067 0.005 0.001 0.006 0.641 79 E 0.090 0.128 0.005 0.019 0.020 0.029 0.117 0.006 0.001 0.006 0.581 80 H 0.266 0.093 0.005 0.015 0.019 0.024 0.126 0.011 0.001 0.010 0.431 81 H 0.212 0.126 0.012 0.026 0.019 0.028 0.074 0.010 0.001 0.008 0.484 82 H 0.111 0.078 0.010 0.024 0.021 0.032 0.150 0.009 0.001 0.008 0.556 83 H 0.195 0.042 0.010 0.015 0.010 0.018 0.087 0.007 0.001 0.008 0.608 84 H 0.127 0.030 0.009 0.015 0.010 0.013 0.071 0.004 0.001 0.005 0.717 85 H 0.076 0.018 0.007 0.015 0.011 0.015 0.137 0.002 0.001 0.007 0.711