Scoring matrix

   A  C  T  G  -
A  1 -2 -1 -1 -2
C -2  2 -1 -1 -2
T -1 -1  3 -4 -7
G -1 -1 -3  1 -2
- -2 -2 -6 -2  0

Sequences in fasta format

>seq1
AGCTGCTTAGCGATCTGATCGATCGGGGTT
>seq2
AGCTGTTGTTCTGA


>seq3
TGCTTAGCGATCTGACTGA
>seq4
CTGAAGCGATCTGATCGATCG