DNA Sequence Alignment VI What scoring matrix to use for dNA? Usually use simple match-mismatch matrices Gmm CGT mmm mmm m="mismatch penalty(must be negativeDNA Sequence Alignment VI What scoring matrix to use for DNA? Usually use simple match-mismatch matrices: i j: A C G T A 1 m m m C m 1 m m si,j : G T m m m m 1 m m 1 m = “mismatch penalty” (must be negative)