File: ATMAP.mat

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# This scoring scheme is for strongly-similar AT-rich DNA (~4%
# substitutions and ~76% A+T).  It is also suitable for sequences with
# more than 4% substitution errors, if the excess error rate is
# explained by quality scores.

#last -a24 -b6
    A   C   G   T
A   4 -12 -12 -12
C -12   9 -12 -12
G -12 -12   9 -12
T -12 -12 -12   4