Dotter Dotter is a graphical dotplot program for detailed comparison of two sequences. Here, every residue in one sequence is compared to every residue in the other sequence. The first sequence runs along the x-axis and the second sequence along the y-axis. In regions where the two sequences are similar to each other, a row of high scores will run diagonally across the dot matrix. If you're comparing a sequence against itself to find internal repeats, you'll notice that the main diagonal scores maximally, since it's the 100% perfect self-match.

Current Version:   ?? License Type:   Free

Home Site: http://www.sanger.ac.uk/Software/Dotter/ http://evolution.bmc.uu.se/~thomas/mol_linux/dotter/ (Linux port and binary) Source Code Availability:   Yes (from FTP site below) Available Binary Packages: Debian Package:   No RedHat RPM Package:   No Other Packages:   Yes (From above Linux port and binary site) Targeted Platforms: OSF, SGI, Sun Software/Hardware Requirements: Unix

Other Links: ftp://ncbi.nlm.nih.gov/pub/esr/dotter/ (FTP site) Mailing Lists/USENET News Groups: None User Comments: "A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis", Erik L.L. Sonnhammer and Richard Durbin, Gene 167(2):GC1-10 (1995). See A Screen Shot?

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