# ../code/PSSM/pep2mat -sw A0201.small_lig # Fri Sep 26 11:09:39 2008 # User: mniel # PWD : /usr/opt/www/pub/CBS/courses/27623.algo/exercises/data # Host: IRIX64 organism 6.5 IP35 # -sw 1 Include sequece weighting # Command line parameters set to: # [-blf filename] /home/people/mniel/matrices/blosum62.freq_rownorm Real value blosum matrix filename # [-v] 0 Verbose mode # [-b float] 50.000000 Weight on prior # [-sw] 1 Include sequece weighting # Number of PEP entries read 10 from file A0201.small_lig # Read_realblosum done. Alphabet ARNDCQEGHILKMFPSTWYV # Number of sequences nseq 4.777778 Last position-specific scoring matrix computed A R N D C Q E G H I L K M F P S T W Y V 1 A 2.565 -1.031 -0.982 -1.578 -1.503 -0.826 -1.100 3.031 -1.792 -2.129 -2.279 0.788 -1.682 -2.763 -1.408 0.440 1.117 -2.721 -2.317 -1.277 2 A -1.320 -2.441 -3.275 -3.582 -1.376 -2.114 -2.866 -3.609 -2.833 2.238 3.110 -2.439 2.868 -0.100 -2.976 -2.298 -1.047 -2.092 -1.290 1.876 3 A 1.345 -1.412 3.756 -0.550 -1.689 -0.986 -1.217 -1.093 -0.965 -0.273 0.415 -1.122 -0.527 -1.725 -2.005 -0.067 -0.450 -2.793 -1.865 0.751 4 A 0.761 -0.167 -0.893 -0.400 -2.647 0.367 2.508 1.472 -1.142 -2.925 -2.818 2.048 -2.056 -3.257 2.961 -0.237 -1.050 -3.021 -2.332 -2.266 5 A 1.171 1.173 -2.154 -2.576 -2.230 -1.470 -1.712 -1.870 -1.508 -1.550 -1.146 -1.008 -1.074 3.515 2.195 -0.893 -1.390 5.326 0.936 -1.414 6 A 1.561 -2.439 -2.629 -2.711 -1.167 -1.915 -2.051 -2.065 -2.791 1.964 -0.040 -1.882 -0.119 -1.484 2.587 -0.828 -0.513 -2.907 -1.764 2.716 7 A 1.372 -1.319 -2.306 -2.602 -1.490 -1.402 -1.693 -2.020 -2.135 1.428 0.909 0.546 0.118 2.034 -2.169 -0.888 -0.861 -1.778 -0.335 1.404 8 A 1.682 -1.790 -1.501 -2.063 -1.090 -1.306 -1.532 -1.525 -2.185 0.265 1.485 -1.413 0.180 -1.215 -1.720 1.327 1.574 -2.469 -1.662 1.010 9 A -0.786 -0.305 -0.258 -2.302 -1.376 -1.243 -1.896 -2.690 -2.140 1.103 1.237 -1.384 2.849 -0.944 -2.337 -0.774 1.682 -2.314 -1.488 2.239