OLIGO Primer Analysis Software is the essential tool for designing and
analyzing sequencing and PCR primers, synthetic genes, and various kinds of
probes including siRNA and molecular beacons.
Based on the most up-to date nearest neighbor thermodynamic data, Oligo's
search algorithms find optimal primers for PCR, including TaqMan, highly
multiplexed, consensus or degenerate primers. Multiple file batch
processing is possible. It is also an invaluable tool for site directed
mutagenesis.
For each primer or primer pair, Oligo's various analysis windows show a
multitude of useful data, such as DNA and RNA secondary structure, dimer
formation, false priming and homology, internal stability, composition and
physical properties. With Oligo you can analyze open reading frames down to
predicted molecular weight and pKa of proteins, and search for restriction
enzyme sites, not only in DNA but also in reverse-translated proteins.
The first version of the software appeared on the market in 1989. It went
through several modifications, and the last one, the change from version 6
to 7, was the most comprehensive. Oligo 7 can automatically select multiplex
primers, process sequence files in batch modes, automatically design PCR
primers to cover multiple DNA regions in just one search and automatically
find primer/probe sets for real time PCR or finds nested primers sets. Oligo
search protocols (scoring system) may be customized in detail, so you may
optimize the results according to your specific needs.


http://www.oligo.net/index.html

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