Glossary

PAM250

PAM250 is one of a family of alignment scoring matrices introduced by Margaret Dayhoff in 1978.


   A  C  D  E  F  G  H  I  K  L  M  N  P  Q  R  S  T  V  W  Y
A  2 -2  0  0 -3  1 -1 -1 -1 -2 -1  0  1  0 -2  1  1  0 -6 -3
C -2 12 -5 -5 -4 -3 -3 -2 -5 -6 -5 -4 -3 -5 -4  0 -2 -2 -8  0
D  0 -5  4  3 -6  1  1 -2  0 -4 -3  2 -1  2 -1  0  0 -2 -7 -4
E  0 -5  3  4 -5  0  1 -2  0 -3 -2  1 -1  2 -1  0  0 -2 -7 -4
F -3 -4 -6 -5  9 -5 -2  1 -5  2  0 -3 -5 -5 -4 -3 -3 -1  0  7
G  1 -3  1  0 -5  5 -2 -3 -2 -4 -3  0  0 -1 -3  1  0 -1 -7 -5
H -1 -3  1  1 -2 -2  6 -2  0 -2 -2  2  0  3  2 -1 -1 -2 -3  0
I -1 -2 -2 -2  1 -3 -2  5 -2  2  2 -2 -2 -2 -2 -1  0  4 -5 -1
K -1 -5  0  0 -5 -2  0 -2  5 -3  0  1 -1  1  3  0  0 -2 -3 -4
L -2 -6 -4 -3  2 -4 -2  2 -3  6  4 -3 -3 -2 -3 -3 -2  2 -2 -1
M -1 -5 -3 -2  0 -3 -2  2  0  4  6 -2 -2 -1  0 -2 -1  2 -4 -2
N  0 -4  2  1 -3  0  2 -2  1 -3 -2  2  0  1  0  1  0 -2 -4 -2
P  1 -3 -1 -1 -5  0  0 -2 -1 -3 -2  0  6  0  0  1  0 -1 -6 -5
Q  0 -5  2  2 -5 -1  3 -2  1 -2 -1  1  0  4  1 -1 -1 -2 -5 -4
R -2 -4 -1 -1 -4 -3  2 -2  3 -3  0  0  0  1  6  0 -1 -2  2 -4
S  1  0  0  0 -3  1 -1 -1  0 -3 -2  1  1 -1  0  2  1 -1 -2 -3
T  1 -2  0  0 -3  0 -1  0  0 -2 -1  0  0 -1 -1  1  3  0 -5 -3
V  0 -2 -2 -2 -1 -1 -2  4 -2  2  2 -2 -1 -2 -2 -1  0  4 -6 -2
W -6 -8 -7 -7  0 -7 -3 -5 -3 -2 -4 -4 -6 -5  2 -2 -5 -6 17  0
Y -3  0 -4 -4  7 -5  0 -1 -4 -1 -2 -2 -5 -4 -4 -3 -3 -2  0 10

Wikipedia