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# all five kinds of bases need to be included
# do not forget to set gap-open/extension penalty with -O/-E
A C G T N
A 91 -114 -31 -123 0
C -114 100 -125 -31 0
G -31 -125 100 -114 0
T -123 -31 -144 91 0
N 0 0 0 0 0
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