1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
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39
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#
# This matrix was produced by "pam" Version 1.0.6 [28-Jul-93]
#
# PAM 40 substitution matrix, scale = ln(2)/2 = 0.346574
#
# Expected score = -4.27, Entropy = 2.26 bits
#
# Lowest score = -15, Highest score = 13
#
# added J-Column as (I+L)/2 and U == X
# reordered to be (alphabetically sorted; X *)
A B C D E F G H I J K L M N O P Q R S T U V W Y Z X *
A 6 -3 -6 -3 -2 -7 -1 -6 -4 -5 -6 -5 -4 -3 -3 -1 -3 -6 0 0 -3 -2 -12 -7 -2 -3 -15
B -3 6 -11 6 2 -9 -2 -1 -5 -7 -2 -8 -8 6 -4 -6 -2 -6 -1 -2 -4 -7 -9 -6 1 -4 -15
C -6 -11 9 -12 -12 -11 -8 -7 -5 -9 -12 -13 -12 -9 -8 -7 -12 -7 -2 -7 -8 -5 -14 -3 -12 -8 -15
D -3 6 -12 7 3 -13 -3 -3 -6 -9 -4 -11 -9 2 -5 -7 -2 -9 -3 -4 -5 -7 -13 -10 2 -5 -15
E -2 2 -12 3 7 -12 -3 -4 -5 -7 -4 -8 -6 -1 -4 -5 2 -8 -4 -5 -4 -6 -15 -8 6 -4 -15
F -7 -9 -11 -13 -12 9 -8 -5 -2 -2 -12 -2 -3 -8 -7 -9 -11 -8 -6 -8 -7 -7 -4 2 -12 -7 -15
G -1 -2 -8 -3 -3 -8 6 -8 -9 -9 -6 -9 -7 -2 -4 -5 -6 -8 -1 -5 -4 -5 -13 -12 -4 -4 -15
H -6 -1 -7 -3 -4 -5 -8 9 -8 -7 -5 -5 -9 1 -4 -3 1 -1 -5 -6 -4 -6 -6 -3 0 -4 -15
I -4 -5 -5 -6 -5 -2 -9 -8 8 4 -5 -1 0 -4 -4 -7 -7 -5 -6 -2 -4 2 -12 -5 -5 -4 -15
J -5 -7 -9 -9 -7 -2 -9 -7 4 4 -6 3 1 -5 -5 -7 -6 -7 -7 -4 -5 0 -9 -6 -6 -5 -15
K -6 -2 -12 -4 -4 -12 -6 -5 -5 -6 6 -7 -1 0 -4 -6 -2 1 -3 -2 -4 -8 -10 -8 -3 -4 -15
L -5 -8 -13 -11 -8 -2 -9 -5 -1 3 -7 7 1 -6 -5 -6 -4 -8 -7 -6 -5 -2 -5 -6 -6 -5 -15
M -4 -8 -12 -9 -6 -3 -7 -9 0 1 -1 1 11 -7 -4 -7 -3 -3 -5 -3 -4 -1 -11 -10 -4 -4 -15
N -3 6 -9 2 -1 -8 -2 1 -4 -5 0 -6 -7 7 -3 -5 -3 -5 0 -1 -3 -7 -7 -4 -2 -3 -15
O -3 -4 -8 -5 -4 -7 -4 -4 -4 -5 -4 -5 -4 -3 -4 -4 -4 -5 -2 -3 -4 -4 -9 -7 -4 -4 -15
P -1 -6 -7 -7 -5 -9 -5 -3 -7 -7 -6 -6 -7 -5 -4 8 -2 -3 -1 -3 -4 -5 -12 -12 -3 -4 -15
Q -3 -2 -12 -2 2 -11 -6 1 -7 -6 -2 -4 -3 -3 -4 -2 8 -1 -4 -5 -4 -6 -11 -10 6 -4 -15
R -6 -6 -7 -9 -8 -8 -8 -1 -5 -7 1 -8 -3 -5 -5 -3 -1 8 -2 -5 -5 -7 -1 -9 -3 -5 -15
S 0 -1 -2 -3 -4 -6 -1 -5 -6 -7 -3 -7 -5 0 -2 -1 -4 -2 6 1 -2 -5 -4 -6 -4 -2 -15
T 0 -2 -7 -4 -5 -8 -5 -6 -2 -4 -2 -6 -3 -1 -3 -3 -5 -5 1 7 -3 -2 -11 -6 -5 -3 -15
U -3 -4 -8 -5 -4 -7 -4 -4 -4 -5 -4 -5 -4 -3 -4 -4 -4 -5 -2 -3 -4 -4 -9 -7 -4 -4 -15
V -2 -7 -5 -7 -6 -7 -5 -6 2 0 -8 -2 -1 -7 -4 -5 -6 -7 -5 -2 -4 7 -14 -6 -6 -4 -15
W -12 -9 -14 -13 -15 -4 -13 -6 -12 -9 -10 -5 -11 -7 -9 -12 -11 -1 -4 -11 -9 -14 13 -4 -13 -9 -15
Y -7 -6 -3 -10 -8 2 -12 -3 -5 -6 -8 -6 -10 -4 -7 -12 -10 -9 -6 -6 -7 -6 -4 10 -8 -7 -15
Z -2 1 -12 2 6 -12 -4 0 -5 -6 -3 -6 -4 -2 -4 -3 6 -3 -4 -5 -4 -6 -13 -8 6 -4 -15
X -3 -4 -8 -5 -4 -7 -4 -4 -4 -5 -4 -5 -4 -3 -4 -4 -4 -5 -2 -3 -4 -4 -9 -7 -4 -4 -15
* -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 -15 1
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