# TARGET T0335 # 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 T0335.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 8.88122 # 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 M 0.514 0.091 0.129 0.141 0.026 0.036 0.031 0.010 0.017 0.003 0.001 2 I 0.478 0.161 0.164 0.125 0.011 0.029 0.008 0.001 0.020 0.002 0.001 3 S 0.424 0.100 0.353 0.043 0.023 0.024 0.007 0.001 0.011 0.014 0.001 4 N 0.942 0.002 0.009 0.022 0.002 0.003 0.012 0.007 0.001 0.001 0.001 5 A 0.952 0.002 0.006 0.031 0.001 0.001 0.003 0.003 0.001 0.001 0.001 6 K 0.973 0.002 0.002 0.018 0.001 0.001 0.001 0.001 0.001 0.001 0.001 7 I 0.985 0.003 0.007 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.001 8 A 0.997 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 9 R 0.989 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 10 I 0.995 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 11 N 0.994 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 12 E 0.996 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 13 L 0.994 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 14 A 0.993 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 15 A 0.980 0.001 0.001 0.018 0.001 0.001 0.001 0.001 0.001 0.001 0.001 16 K 0.975 0.002 0.006 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.001 17 A 0.904 0.004 0.009 0.073 0.002 0.002 0.003 0.001 0.001 0.001 0.001 18 K 0.873 0.014 0.020 0.066 0.003 0.005 0.013 0.002 0.004 0.001 0.001 19 A 0.543 0.014 0.051 0.342 0.005 0.007 0.029 0.004 0.002 0.001 0.001 20 G 0.310 0.027 0.109 0.198 0.042 0.012 0.102 0.171 0.012 0.016 0.001 21 V 0.261 0.120 0.236 0.198 0.032 0.042 0.077 0.006 0.022 0.004 0.001 22 I 0.040 0.182 0.623 0.058 0.015 0.066 0.005 0.001 0.008 0.001 0.001 23 T 0.009 0.147 0.703 0.002 0.106 0.017 0.001 0.001 0.011 0.004 0.001 24 E 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 25 E 0.996 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 26 E 0.989 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 27 K 0.998 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 28 A 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 29 E 0.986 0.001 0.001 0.013 0.001 0.001 0.001 0.001 0.001 0.001 0.001 30 Q 0.995 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 31 Q 0.998 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 32 K 0.998 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 33 L 0.992 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 34 R 0.997 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 35 Q 0.999 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 36 E 0.989 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 37 Y 0.978 0.001 0.001 0.020 0.001 0.001 0.001 0.001 0.001 0.001 0.001 38 L 0.988 0.001 0.002 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 39 K 0.990 0.001 0.001 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 40 G 0.977 0.001 0.001 0.016 0.001 0.001 0.001 0.004 0.001 0.001 0.001 41 F 0.943 0.001 0.002 0.050 0.001 0.001 0.001 0.001 0.001 0.001 0.001 42 R 0.973 0.003 0.005 0.015 0.001 0.002 0.002 0.001 0.001 0.001 0.001 43 S 0.966 0.002 0.007 0.018 0.002 0.001 0.002 0.001 0.001 0.001 0.001 44 S 0.889 0.004 0.007 0.082 0.004 0.004 0.003 0.002 0.004 0.001 0.001 45 M 0.954 0.002 0.002 0.040 0.001 0.001 0.001 0.001 0.001 0.001 0.001 46 K 0.979 0.001 0.004 0.012 0.001 0.002 0.002 0.001 0.001 0.001 0.001 47 N 0.901 0.002 0.003 0.083 0.002 0.001 0.004 0.002 0.001 0.001 0.001 48 T 0.645 0.009 0.010 0.319 0.001 0.006 0.007 0.001 0.003 0.001 0.001 49 L 0.211 0.117 0.501 0.049 0.005 0.080 0.003 0.001 0.032 0.001 0.001 50 K 0.704 0.004 0.004 0.284 0.001 0.001 0.001 0.001 0.001 0.001 0.001 51 S 0.041 0.362 0.053 0.129 0.356 0.006 0.040 0.003 0.009 0.001 0.001 52 V 0.007 0.755 0.147 0.008 0.030 0.010 0.001 0.001 0.042 0.001 0.001 53 K 0.005 0.684 0.194 0.001 0.009 0.057 0.001 0.001 0.050 0.001 0.001 54 I 0.002 0.569 0.334 0.002 0.006 0.064 0.001 0.001 0.022 0.001 0.001 55 I 0.006 0.610 0.257 0.015 0.030 0.060 0.002 0.001 0.021 0.001 0.001 56 D 0.001 0.086 0.767 0.001 0.035 0.073 0.001 0.001 0.037 0.001 0.001 57 P 0.980 0.001 0.001 0.019 0.001 0.001 0.001 0.001 0.001 0.001 0.001 58 E 0.322 0.003 0.013 0.652 0.001 0.001 0.006 0.001 0.002 0.001 0.001 59 G 0.104 0.009 0.176 0.224 0.023 0.006 0.107 0.314 0.006 0.031 0.001 60 N 0.575 0.021 0.302 0.054 0.006 0.005 0.023 0.005 0.002 0.007 0.001 61 D 0.206 0.017 0.203 0.419 0.007 0.054 0.048 0.026 0.014 0.004 0.001 62 V 0.111 0.191 0.588 0.071 0.010 0.024 0.001 0.001 0.004 0.001 0.001 63 T 0.036 0.224 0.584 0.007 0.054 0.039 0.001 0.001 0.049 0.006 0.001 64 P 0.970 0.001 0.024 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 65 E 0.994 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 66 K 0.988 0.001 0.001 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 67 L 0.987 0.001 0.002 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 68 K 0.994 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 69 R 0.995 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 70 E 0.986 0.001 0.001 0.012 0.001 0.001 0.001 0.001 0.001 0.001 0.001 71 Q 0.980 0.001 0.001 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.001 72 R 0.982 0.002 0.002 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 73 N 0.895 0.004 0.005 0.087 0.001 0.002 0.003 0.001 0.001 0.001 0.001 74 N 0.237 0.010 0.017 0.668 0.007 0.006 0.035 0.010 0.008 0.001 0.001 75 K 0.147 0.013 0.035 0.066 0.008 0.021 0.669 0.020 0.018 0.003 0.001 76 L 0.315 0.153 0.242 0.198 0.016 0.052 0.006 0.002 0.013 0.002 0.001 77 H 0.222 0.164 0.184 0.217 0.082 0.056 0.031 0.007 0.022 0.013 0.001