!!NA_SCORING_MATRIX_RECT 1.0

Default scoring matrix used by GELMERGE for the comparison of nucleic
acid sequences (used in vector recognition).  Values for comparisons
involving IUB nucleotide ambiguity symbols are ignored since those
ambiguity symbols are converted into a weighted composition of
unambiguous bases (G, A, T, C) by GELMERGE.

                     February 20, 1996 14:33   ..

{
GAP_CREATE 30
GAP_EXTEND 3
}

      A    C    G    T 
A    10   -9   -9   -9 
C    -9   10   -9   -9 
G    -9   -9   10   -9 
T    -9   -9   -9   10