# TARGET TR469 # Using neural net dunbrack-40pc-3157-t2k-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.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 15.0408 # 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 0.058 0.026 0.020 0.003 0.007 0.008 0.005 0.002 0.001 0.001 0.001 0.001 0.003 0.003 0.001 0.001 0.155 0.020 0.123 0.564 2 K 0.027 0.014 0.008 0.001 0.012 0.011 0.006 0.003 0.001 0.001 0.004 0.001 0.011 0.002 0.002 0.002 0.100 0.009 0.093 0.691 3 F 0.017 0.017 0.006 0.001 0.012 0.022 0.007 0.004 0.003 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.188 0.004 0.076 0.636 4 T 0.031 0.031 0.004 0.001 0.005 0.013 0.009 0.003 0.069 0.009 0.009 0.002 0.002 0.002 0.001 0.002 0.167 0.008 0.209 0.423 5 K 0.042 0.025 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 0.110 0.008 0.107 0.699 6 D 0.061 0.027 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 0.068 0.026 0.232 0.580 7 M 0.563 0.021 0.060 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 0.040 0.052 0.074 0.186 8 T 0.033 0.115 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 0.037 0.003 0.489 0.318 9 F 0.021 0.163 0.026 0.001 0.020 0.003 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.171 0.019 0.127 0.445 10 A 0.027 0.237 0.004 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.033 0.004 0.149 0.540 11 Q 0.015 0.337 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 0.007 0.002 0.515 0.119 12 A 0.037 0.902 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 0.003 0.005 0.049 13 L 0.014 0.965 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 0.001 0.003 0.011 14 Q 0.064 0.879 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 0.004 0.019 0.003 0.029 15 T 0.197 0.665 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 0.002 0.081 0.001 0.046 16 H 0.421 0.397 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 0.007 0.042 0.007 0.101 17 P 0.001 0.004 0.010 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 0.983 18 G 0.010 0.026 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 0.012 0.007 0.368 0.567 19 V 0.522 0.052 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 0.018 0.028 0.075 0.298 20 A 0.085 0.479 0.004 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.076 0.007 0.047 0.295 21 G 0.028 0.411 0.005 0.001 0.003 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.026 0.004 0.093 0.424 22 V 0.038 0.701 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 0.001 0.018 0.006 0.038 0.194 23 L 0.032 0.889 0.003 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 0.016 0.005 0.010 0.041 24 R 0.019 0.910 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 0.019 0.005 0.006 0.035 25 S 0.031 0.879 0.002 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 0.031 0.002 0.043 26 Y 0.153 0.622 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 0.008 0.150 0.001 0.059 27 N 0.321 0.275 0.036 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.027 0.137 0.019 0.177 28 L 0.015 0.033 0.764 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 0.014 0.013 0.018 0.135 29 G 0.047 0.045 0.016 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 0.136 0.019 0.141 0.568 30 C 0.125 0.020 0.048 0.005 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.066 0.012 0.079 0.634 31 I 0.051 0.055 0.006 0.007 0.005 0.007 0.005 0.004 0.001 0.001 0.001 0.001 0.003 0.002 0.002 0.001 0.270 0.010 0.113 0.454 32 G 0.092 0.039 0.013 0.002 0.004 0.003 0.006 0.002 0.003 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.167 0.017 0.098 0.546 33 C 0.106 0.075 0.013 0.002 0.001 0.003 0.002 0.003 0.006 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.167 0.011 0.109 0.493 34 M 0.030 0.048 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 0.132 0.007 0.113 0.656 35 G 0.092 0.067 0.010 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 0.108 0.017 0.160 0.537 36 A 0.233 0.095 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 0.098 0.023 0.128 0.397 37 Q 0.138 0.157 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 0.067 0.015 0.092 0.520 38 N 0.111 0.138 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 0.062 0.016 0.074 0.578 39 E 0.081 0.171 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 0.036 0.010 0.178 0.515 40 S 0.057 0.217 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 0.012 0.007 0.228 0.473 41 L 0.052 0.561 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 0.025 0.009 0.058 0.289 42 E 0.012 0.633 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 0.009 0.004 0.059 0.279 43 Q 0.014 0.715 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 0.001 0.003 0.184 0.081 44 G 0.035 0.928 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 0.004 0.001 0.030 45 A 0.021 0.949 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 0.003 0.002 0.005 0.015 46 N 0.057 0.836 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 0.020 0.024 0.006 0.052 47 A 0.091 0.821 0.009 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 0.006 0.031 0.001 0.038 48 H 0.092 0.757 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 0.008 0.081 0.002 0.056 49 G 0.439 0.078 0.041 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 0.025 0.180 0.012 0.222 50 L 0.030 0.006 0.864 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 0.016 0.003 0.019 0.048 51 N 0.006 0.006 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 0.032 0.002 0.297 0.653 52 V 0.006 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 0.001 0.028 0.001 0.055 0.904 53 E 0.002 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 0.001 0.012 0.001 0.487 0.493 54 D 0.026 0.017 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 0.741 0.212 55 I 0.030 0.843 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 0.022 0.104 56 L 0.005 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 0.006 0.041 57 R 0.007 0.954 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 0.003 0.033 58 D 0.014 0.947 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 0.027 59 L 0.031 0.935 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 0.018 0.001 0.015 60 N 0.033 0.893 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 0.001 0.026 0.002 0.037 61 A 0.087 0.603 0.049 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 0.087 0.009 0.160 62 L 0.215 0.409 0.074 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 0.005 0.041 0.017 0.233 63 A 0.085 0.386 0.029 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 0.011 0.017 0.066 0.402