# TARGET T0344 # Using neural net 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 T0344.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 2.36871 # 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 L 0.058 0.064 0.010 0.003 0.014 0.004 0.006 0.004 0.001 0.001 0.001 0.001 0.002 0.004 0.004 0.002 0.456 0.007 0.054 0.308 2 I 0.017 0.094 0.002 0.001 0.011 0.006 0.010 0.006 0.002 0.001 0.001 0.002 0.005 0.007 0.004 0.001 0.569 0.002 0.040 0.218 3 I 0.008 0.066 0.002 0.001 0.015 0.004 0.010 0.008 0.001 0.001 0.002 0.002 0.012 0.007 0.011 0.003 0.695 0.002 0.018 0.133 4 G 0.013 0.056 0.003 0.001 0.002 0.001 0.001 0.001 0.003 0.003 0.002 0.001 0.002 0.003 0.002 0.002 0.633 0.007 0.026 0.240 5 L 0.026 0.030 0.005 0.001 0.001 0.001 0.001 0.001 0.006 0.002 0.009 0.001 0.001 0.001 0.001 0.001 0.710 0.003 0.016 0.186 6 P 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 0.001 0.002 0.997 7 R 0.012 0.007 0.002 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.525 0.003 0.086 0.357 8 Y 0.133 0.020 0.002 0.001 0.002 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.322 0.009 0.046 0.463 9 M 0.098 0.023 0.003 0.002 0.007 0.003 0.004 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.004 0.646 0.009 0.014 0.179 10 E 0.037 0.007 0.004 0.001 0.003 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.002 0.325 0.008 0.068 0.534 11 V 0.019 0.004 0.003 0.001 0.001 0.003 0.001 0.003 0.001 0.001 0.001 0.004 0.012 0.087 0.004 0.002 0.565 0.002 0.021 0.266 12 N 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.036 0.002 0.536 0.067 0.004 0.001 0.184 0.001 0.016 0.147 13 I 0.002 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.096 0.003 0.001 0.002 0.001 0.001 0.001 0.407 0.003 0.041 0.435 14 K 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.752 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.073 0.001 0.041 0.114 15 D 0.004 0.004 0.001 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 0.059 0.005 0.074 0.849 16 G 0.071 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.088 0.025 0.083 0.705 17 K 0.723 0.003 0.016 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 0.026 0.023 0.044 0.164 18 I 0.010 0.012 0.006 0.018 0.010 0.002 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.267 0.002 0.096 0.571 19 I 0.001 0.001 0.001 0.001 0.743 0.086 0.043 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.059 0.001 0.005 0.053 20 G 0.015 0.009 0.001 0.001 0.005 0.026 0.010 0.007 0.003 0.001 0.001 0.001 0.002 0.002 0.005 0.009 0.225 0.007 0.056 0.617 21 R 0.070 0.006 0.005 0.001 0.001 0.001 0.004 0.009 0.001 0.001 0.001 0.003 0.001 0.006 0.003 0.005 0.331 0.007 0.114 0.432 22 S 0.031 0.012 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.003 0.003 0.002 0.008 0.005 0.028 0.012 0.177 0.006 0.104 0.602 23 L 0.039 0.021 0.004 0.002 0.004 0.001 0.004 0.002 0.002 0.005 0.001 0.003 0.001 0.004 0.006 0.004 0.395 0.010 0.072 0.421 24 D 0.019 0.015 0.001 0.001 0.002 0.001 0.001 0.001 0.009 0.005 0.167 0.016 0.035 0.022 0.003 0.002 0.088 0.004 0.156 0.456 25 P 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 0.001 0.002 0.996 26 R 0.014 0.007 0.001 0.001 0.001 0.002 0.001 0.001 0.027 0.024 0.001 0.002 0.006 0.003 0.004 0.002 0.065 0.008 0.441 0.392 27 E 0.368 0.016 0.003 0.001 0.001 0.001 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.023 0.015 0.096 0.466 28 G 0.111 0.151 0.002 0.001 0.002 0.002 0.004 0.001 0.015 0.006 0.013 0.002 0.008 0.004 0.001 0.002 0.085 0.018 0.052 0.520 29 G 0.442 0.020 0.054 0.001 0.003 0.003 0.003 0.006 0.003 0.004 0.001 0.001 0.005 0.001 0.001 0.001 0.029 0.030 0.060 0.335 30 L 0.059 0.023 0.061 0.006 0.001 0.005 0.001 0.001 0.006 0.001 0.002 0.001 0.003 0.001 0.001 0.001 0.221 0.003 0.123 0.482 31 Y 0.027 0.013 0.005 0.004 0.037 0.016 0.069 0.007 0.026 0.003 0.002 0.001 0.001 0.001 0.001 0.001 0.222 0.004 0.053 0.508 32 G 0.051 0.016 0.005 0.002 0.019 0.016 0.008 0.006 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.323 0.009 0.051 0.484 33 S 0.061 0.009 0.014 0.003 0.005 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.185 0.004 0.098 0.613 34 A 0.031 0.010 0.001 0.001 0.003 0.003 0.002 0.003 0.001 0.001 0.001 0.001 0.002 0.002 0.003 0.003 0.569 0.003 0.035 0.327 35 E 0.021 0.013 0.002 0.001 0.006 0.004 0.011 0.004 0.001 0.001 0.001 0.001 0.001 0.003 0.003 0.002 0.217 0.004 0.086 0.620 36 V 0.009 0.008 0.003 0.001 0.010 0.001 0.002 0.005 0.001 0.001 0.002 0.007 0.115 0.166 0.018 0.005 0.375 0.002 0.025 0.245 37 S 0.006 0.007 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.003 0.017 0.002 0.015 0.005 0.003 0.004 0.266 0.002 0.052 0.612 38 V 0.008 0.006 0.001 0.001 0.002 0.001 0.001 0.001 0.058 0.178 0.010 0.004 0.005 0.002 0.003 0.002 0.300 0.003 0.040 0.376 39 P 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 0.001 0.001 0.998 40 E 0.005 0.002 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 0.125 0.002 0.104 0.754 41 G 0.361 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 0.001 0.001 0.111 0.031 0.046 0.440 42 V 0.317 0.018 0.023 0.020 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.158 0.009 0.055 0.392 43 K 0.010 0.006 0.002 0.002 0.067 0.004 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.582 0.003 0.041 0.278 44 W 0.011 0.004 0.002 0.001 0.008 0.104 0.007 0.006 0.001 0.001 0.001 0.001 0.001 0.002 0.002 0.002 0.160 0.002 0.059 0.630 45 E 0.009 0.003 0.001 0.001 0.002 0.002 0.016 0.007 0.001 0.001 0.001 0.001 0.005 0.006 0.011 0.012 0.750 0.002 0.032 0.141 46 I 0.008 0.005 0.001 0.001 0.001 0.001 0.003 0.006 0.001 0.001 0.001 0.006 0.004 0.014 0.003 0.003 0.316 0.003 0.060 0.565 47 Y 0.005 0.005 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.003 0.012 0.006 0.011 0.005 0.012 0.006 0.613 0.004 0.059 0.252 48 P 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 0.001 0.002 0.997 49 N 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.011 0.001 0.011 0.001 0.001 0.001 0.001 0.001 0.161 0.004 0.154 0.645 50 P 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 0.001 0.002 0.997 51 V 0.027 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.051 0.008 0.306 0.593 52 A 0.193 0.045 0.002 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.071 0.008 0.212 0.462 53 R 0.023 0.416 0.001 0.001 0.002 0.004 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.132 0.003 0.035 0.370 54 R 0.046 0.311 0.006 0.001 0.009 0.029 0.013 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.091 0.011 0.065 0.406 55 F 0.046 0.426 0.003 0.001 0.001 0.001 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.258 0.009 0.022 0.227 56 M 0.055 0.298 0.009 0.001 0.001 0.001 0.015 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.373 0.013 0.034 0.196 57 I 0.012 0.284 0.017 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 0.397 0.004 0.027 0.250 58 F 0.006 0.188 0.002 0.001 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.661 0.003 0.009 0.111 59 E 0.017 0.195 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.005 0.009 0.005 0.516 0.006 0.032 0.205 60 I 0.022 0.213 0.010 0.001 0.001 0.001 0.001 0.001 0.003 0.002 0.001 0.001 0.005 0.008 0.007 0.008 0.424 0.008 0.028 0.258 61 F 0.020 0.229 0.008 0.001 0.001 0.001 0.001 0.001 0.006 0.007 0.003 0.003 0.010 0.006 0.005 0.008 0.346 0.010 0.024 0.314 62 S 0.038 0.169 0.005 0.001 0.001 0.001 0.001 0.001 0.009 0.009 0.004 0.003 0.005 0.005 0.004 0.002 0.244 0.020 0.038 0.443 63 K 0.066 0.106 0.015 0.001 0.001 0.001 0.001 0.001 0.005 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.088 0.023 0.068 0.621 64 R 0.067 0.076 0.013 0.001 0.001 0.001 0.001 0.001 0.005 0.002 0.002 0.001 0.003 0.001 0.001 0.001 0.070 0.026 0.124 0.605