# 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 10.3373 # 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 0.372 0.084 0.156 0.173 0.043 0.038 0.076 0.029 0.020 0.008 0.001 2 I 0.371 0.196 0.228 0.126 0.015 0.031 0.009 0.001 0.020 0.003 0.001 3 S 0.281 0.109 0.486 0.033 0.029 0.026 0.006 0.001 0.011 0.019 0.001 4 N 0.952 0.001 0.006 0.019 0.001 0.002 0.010 0.007 0.001 0.001 0.001 5 A 0.966 0.001 0.004 0.024 0.001 0.001 0.002 0.002 0.001 0.001 0.001 6 K 0.978 0.001 0.002 0.016 0.001 0.001 0.001 0.001 0.001 0.001 0.001 7 I 0.989 0.002 0.005 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 8 A 0.998 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 9 R 0.991 0.001 0.001 0.008 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 0.995 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 12 E 0.997 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 13 L 0.995 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 14 A 0.995 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 15 A 0.983 0.001 0.001 0.015 0.001 0.001 0.001 0.001 0.001 0.001 0.001 16 K 0.980 0.002 0.005 0.011 0.001 0.001 0.001 0.001 0.001 0.001 0.001 17 A 0.911 0.004 0.007 0.071 0.001 0.001 0.002 0.001 0.001 0.001 0.001 18 K 0.880 0.012 0.019 0.064 0.003 0.004 0.012 0.002 0.003 0.001 0.001 19 A 0.543 0.012 0.048 0.347 0.005 0.006 0.030 0.005 0.002 0.001 0.001 20 G 0.312 0.025 0.114 0.201 0.040 0.013 0.100 0.168 0.011 0.016 0.001 21 V 0.253 0.124 0.242 0.196 0.034 0.042 0.075 0.007 0.022 0.004 0.001 22 I 0.038 0.179 0.632 0.055 0.015 0.067 0.005 0.001 0.008 0.001 0.001 23 T 0.008 0.146 0.712 0.001 0.100 0.017 0.001 0.001 0.012 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 0.001 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 0.014 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 0.993 0.001 0.001 0.006 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 0.990 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 0.019 0.001 0.001 0.001 0.001 0.001 0.001 0.001 38 L 0.986 0.001 0.002 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 39 K 0.987 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 40 G 0.973 0.001 0.001 0.017 0.001 0.001 0.001 0.006 0.001 0.001 0.001 41 F 0.941 0.001 0.003 0.051 0.001 0.002 0.001 0.001 0.001 0.001 0.001 42 R 0.971 0.003 0.006 0.015 0.001 0.002 0.002 0.001 0.001 0.001 0.001 43 S 0.968 0.002 0.007 0.017 0.002 0.001 0.002 0.001 0.001 0.001 0.001 44 S 0.902 0.004 0.007 0.072 0.004 0.003 0.002 0.002 0.003 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 0.978 0.002 0.004 0.012 0.001 0.002 0.002 0.001 0.001 0.001 0.001 47 N 0.903 0.003 0.003 0.081 0.002 0.002 0.004 0.002 0.001 0.001 0.001 48 T 0.628 0.010 0.011 0.332 0.001 0.006 0.007 0.001 0.003 0.001 0.001 49 L 0.194 0.114 0.527 0.040 0.005 0.083 0.003 0.001 0.032 0.001 0.001 50 K 0.691 0.004 0.004 0.299 0.001 0.001 0.001 0.001 0.001 0.001 0.001 51 S 0.033 0.358 0.047 0.110 0.398 0.005 0.038 0.003 0.007 0.001 0.001 52 V 0.006 0.772 0.136 0.007 0.030 0.009 0.001 0.001 0.040 0.001 0.001 53 K 0.004 0.695 0.188 0.001 0.009 0.054 0.001 0.001 0.048 0.001 0.001 54 I 0.002 0.574 0.332 0.002 0.005 0.063 0.001 0.001 0.021 0.001 0.001 55 I 0.005 0.643 0.230 0.013 0.028 0.057 0.002 0.001 0.022 0.001 0.001 56 D 0.001 0.088 0.764 0.001 0.035 0.073 0.001 0.001 0.038 0.001 0.001 57 P 0.978 0.001 0.001 0.021 0.001 0.001 0.001 0.001 0.001 0.001 0.001 58 E 0.319 0.004 0.016 0.650 0.001 0.001 0.007 0.001 0.002 0.001 0.001 59 G 0.077 0.006 0.101 0.181 0.022 0.004 0.124 0.440 0.004 0.042 0.001 60 N 0.466 0.032 0.351 0.074 0.010 0.007 0.038 0.008 0.004 0.011 0.001 61 D 0.161 0.024 0.245 0.379 0.012 0.070 0.060 0.026 0.017 0.006 0.001 62 V 0.132 0.214 0.515 0.095 0.014 0.024 0.002 0.001 0.004 0.001 0.001 63 T 0.034 0.243 0.544 0.009 0.066 0.041 0.001 0.001 0.056 0.006 0.001 64 P 0.970 0.001 0.023 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 65 E 0.992 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 66 K 0.989 0.001 0.001 0.010 0.001 0.001 0.001 0.001 0.001 0.001 0.001 67 L 0.987 0.001 0.002 0.009 0.001 0.001 0.001 0.001 0.001 0.001 0.001 68 K 0.996 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 69 R 0.997 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 70 E 0.993 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 71 Q 0.990 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.001 72 R 0.992 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 73 N 0.934 0.002 0.003 0.057 0.001 0.001 0.001 0.001 0.001 0.001 0.001 74 N 0.116 0.004 0.005 0.849 0.003 0.002 0.013 0.006 0.003 0.001 0.001 75 K 0.047 0.003 0.010 0.019 0.004 0.007 0.871 0.027 0.009 0.003 0.001 76 L 0.241 0.239 0.320 0.112 0.030 0.040 0.004 0.002 0.009 0.003 0.001 77 H 0.163 0.217 0.164 0.179 0.088 0.109 0.038 0.004 0.034 0.005 0.001 78 L 0.265 0.252 0.181 0.119 0.092 0.030 0.014 0.007 0.032 0.008 0.001 79 E 0.336 0.293 0.199 0.086 0.027 0.026 0.005 0.003 0.023 0.001 0.001 80 H 0.255 0.212 0.229 0.133 0.045 0.049 0.032 0.005 0.037 0.003 0.001 81 H 0.296 0.172 0.213 0.173 0.034 0.050 0.026 0.004 0.027 0.003 0.001 82 H 0.257 0.161 0.174 0.210 0.044 0.057 0.042 0.009 0.039 0.006 0.001 83 H 0.216 0.192 0.230 0.194 0.041 0.043 0.035 0.006 0.038 0.004 0.001 84 H 0.208 0.141 0.299 0.204 0.022 0.049 0.035 0.008 0.027 0.004 0.002 85 H 0.173 0.193 0.271 0.126 0.075 0.030 0.057 0.030 0.021 0.025 0.001