This allows matrices to be built for protein, DNA, and RNA sequences depending upon the letters used. The most common use of this matrix is to compare amino acid sequences in proteins, but the flexibility of the matrix input allows other types of sequences to be compared. The first line is the sequence name, and should be used as a description.
Subsequent lines contain the sequence to be used.
The sequences themselves may contain blanks, returns, and other whitespace for readability. Only multiple sequences in the first file will be processed. Maps , sequences and genomes .