!!NA_SCORING_MATRIX_RECT 1.0

Default scoring matrix used by GAP for the comparison of nucleic acid
sequences.  GAP uses the method of Needleman/Wunsch/Sellers to make
alignments.  This matrix scores a match for any overlap between any IUB
nucleic acid ambiguity symbols EXCEPT X/N.


                     January 23, 1991  14:09


                     May 14, 1996 12:43   ..

{
GAP_CREATE 50
GAP_EXTEND 3
}

      A    B    C    D    G     H    K    M    N    R     S    T    U    V    W     X    Y 
A    10    0    0   10    0    10    0   10   10   10     0    0    0   10   10    10    0 
B     0   10   10   10   10    10   10   10   10   10    10   10   10   10   10    10   10 
C     0   10   10    0    0    10    0   10   10    0    10    0    0   10    0    10   10 
D    10   10    0   10   10    10   10   10   10   10    10   10   10   10   10    10   10 
G     0   10    0   10   10     0   10    0   10   10    10    0    0   10    0    10    0 

H    10   10   10   10    0    10   10   10   10   10    10   10   10   10   10    10   10 
K     0   10    0   10   10    10   10    0   10   10    10   10   10   10   10    10   10 
M    10   10   10   10    0    10    0   10   10   10    10    0    0   10   10    10   10 
N    10   10   10   10   10    10   10   10   10   10    10   10   10   10   10    10   10 
R    10   10    0   10   10    10   10   10   10   10    10    0    0   10   10    10    0 

S     0   10   10   10   10    10   10   10   10   10    10    0    0   10    0    10   10 
T     0   10    0   10    0    10   10    0   10    0     0   10   10    0   10    10   10 
U     0   10    0   10    0    10   10    0   10    0     0   10   10    0   10    10   10 
V    10   10   10   10   10    10   10   10   10   10    10    0    0   10   10    10   10 
W    10   10    0   10    0    10   10   10   10   10     0   10   10   10   10    10   10 

X    10   10   10   10   10    10   10   10   10   10    10   10   10   10   10    10   10 
Y     0   10   10   10    0    10   10   10   10    0    10   10   10   10   10    10   10