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Bioinformatics Advance Access originally published online on February 12, 2004
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Bioinformatics 20(10) © Oxford University Press 2004; all rights reserved.

Applications Note

Amplicon: software for designing PCR primers on aligned DNA sequences

Simon N. Jarman

Australian Antarctic Division, Channel Highway, Kingston, TAS, 7050, Australia

Received on July 28, 2003; revised on November 23, 2003; accepted on December 23, 2003
Advance Access Publication February 12, 2004

Summary: Amplicon is a program for designing PCR primers on aligned groups of DNA sequences. The most important application for Amplicon is the design of ‘group-specific’ PCR primer sets that amplify a DNA region from a given taxonomic group but do not amplify orthologous regions from other taxonomic groups.

Availability: Amplicon is freely available as a script that will run on any platform with Python 2.3 installed (http://www.python.org). It is also available as a Windows executable. Free downloads that do not require registration can be found at http://www.aad.gov.au/amplicon

Contact: simon.jarman{at}aad.gov.au


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