Dot matrix plot

With DNAMAN, you may compare two DNA sequences or two protein sequences in a dot matrix plot. A specific algorithm is developed to yield high quality dot matrix plot. With this method, long DNA sequences can be compared in short time with little background noise. You may efficiently compare genomic sequence with the dot-matrix plot function of DNAMAN.

DNAMAN displays the actual sequences and their alignment on any selected region in a sequence window.

Two sequence alignment

DNAMAN uses fast or optimal algorithms to align two DNA or protein sequences. You have options to control the sensitivity of alignment. DNAMAN also allows you to select any region of target sequences for alignment.

For DNA sequence alignment, you have an option to use the minus strand for comparison. For protein sequence alignment, DNAMAN can report the amino acid similarity of two protein sequences in a text window. The amino acid similarity matrix is editable by users.