Dcode
- Tools developed at the Comparative Genomics Center at Lawrence Livermore National Laboratory, California.
- http://www.dcode.org/

The Vienna RNA Package
- A free suit of software for the analysis of RNA secondary structure, including structure prediction and comparison as well as sequence design.
- http://www.tbi.univie.ac.at/~ivo/RNA

Staden Package
- Introduction, documentation and downloads for DNA sequence analysis. Includes related courses in Cambridge, England.
- http://www.mrc-lmb.cam.ac.uk/pubseq/

Southwest Parallel Software, Inc.
- Commercial versions of Phil Green's Phrap, Swat and Cross-Match sequence analysis tools. Some trial versions available for download.
- http://www.spsoft.com/

PhenoSystems
- Gensearch offers locus specific software application assisting biologists in the analysis of DNA sequences, for potential mutation locations, interpreting their potential consequences. Contacts in Brussels, Belgium.
- http://crescential.com/PhenoSystems-home.html