File: nucmatrix.txt

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     A    C    G    T    .    N
A  100 -150  -50 -150    0  -50
C -150  100 -150  -50    0  -50
G  -50 -150  100 -150    0  -50
T -150  -50 -150  100    0  -50
.    0    0    0    0    0    0
N  -50  -50  -50  -50    0  -50

-300 -25