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view corebio/data/pam120.mat @ 9:f3462128e87c

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Minor alterations to the galaxy interface with some better examples and error messages added.
author davidmurphy
date Mon, 30 Jan 2012 08:17:57 -0500
parents c55bdc2fb9fa
children
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#
# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
#
# PAM 120 substitution matrix, scale = ln(2)/2 = 0.346574
#
# Expected score = -1.64, Entropy = 0.979 bits
#
# Lowest score = -8, Highest score = 12
#
   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X
A  3 -3 -1  0 -3 -1  0  1 -3 -1 -3 -2 -2 -4  1  1  1 -7 -4  0  0 -1 -1
R -3  6 -1 -3 -4  1 -3 -4  1 -2 -4  2 -1 -5 -1 -1 -2  1 -5 -3 -2 -1 -2
N -1 -1  4  2 -5  0  1  0  2 -2 -4  1 -3 -4 -2  1  0 -4 -2 -3  3  0 -1
D  0 -3  2  5 -7  1  3  0  0 -3 -5 -1 -4 -7 -3  0 -1 -8 -5 -3  4  3 -2
C -3 -4 -5 -7  9 -7 -7 -4 -4 -3 -7 -7 -6 -6 -4  0 -3 -8 -1 -3 -6 -7 -4
Q -1  1  0  1 -7  6  2 -3  3 -3 -2  0 -1 -6  0 -2 -2 -6 -5 -3  0  4 -1
E  0 -3  1  3 -7  2  5 -1 -1 -3 -4 -1 -3 -7 -2 -1 -2 -8 -5 -3  3  4 -1
G  1 -4  0  0 -4 -3 -1  5 -4 -4 -5 -3 -4 -5 -2  1 -1 -8 -6 -2  0 -2 -2
H -3  1  2  0 -4  3 -1 -4  7 -4 -3 -2 -4 -3 -1 -2 -3 -3 -1 -3  1  1 -2
I -1 -2 -2 -3 -3 -3 -3 -4 -4  6  1 -3  1  0 -3 -2  0 -6 -2  3 -3 -3 -1
L -3 -4 -4 -5 -7 -2 -4 -5 -3  1  5 -4  3  0 -3 -4 -3 -3 -2  1 -4 -3 -2
K -2  2  1 -1 -7  0 -1 -3 -2 -3 -4  5  0 -7 -2 -1 -1 -5 -5 -4  0 -1 -2
M -2 -1 -3 -4 -6 -1 -3 -4 -4  1  3  0  8 -1 -3 -2 -1 -6 -4  1 -4 -2 -2
F -4 -5 -4 -7 -6 -6 -7 -5 -3  0  0 -7 -1  8 -5 -3 -4 -1  4 -3 -5 -6 -3
P  1 -1 -2 -3 -4  0 -2 -2 -1 -3 -3 -2 -3 -5  6  1 -1 -7 -6 -2 -2 -1 -2
S  1 -1  1  0  0 -2 -1  1 -2 -2 -4 -1 -2 -3  1  3  2 -2 -3 -2  0 -1 -1
T  1 -2  0 -1 -3 -2 -2 -1 -3  0 -3 -1 -1 -4 -1  2  4 -6 -3  0  0 -2 -1
W -7  1 -4 -8 -8 -6 -8 -8 -3 -6 -3 -5 -6 -1 -7 -2 -6 12 -2 -8 -6 -7 -5
Y -4 -5 -2 -5 -1 -5 -5 -6 -1 -2 -2 -5 -4  4 -6 -3 -3 -2  8 -3 -3 -5 -3
V  0 -3 -3 -3 -3 -3 -3 -2 -3  3  1 -4  1 -3 -2 -2  0 -8 -3  5 -3 -3 -1
B  0 -2  3  4 -6  0  3  0  1 -3 -4  0 -4 -5 -2  0  0 -6 -3 -3  4  2 -1
Z -1 -1  0  3 -7  4  4 -2  1 -3 -3 -1 -2 -6 -1 -1 -2 -7 -5 -3  2  4 -1
X -1 -2 -1 -2 -4 -1 -1 -2 -2 -1 -2 -2 -2 -3 -2 -1 -1 -5 -3 -1 -1 -1 -2