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Bioinformatics Advance Access originally published online on May 18, 2006
Bioinformatics 2006 22(14):1788-1789; doi:10.1093/bioinformatics/btl186
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

TRFMA: a web-based tool for terminal restriction fragment length polymorphism analysis based on molecular weight

Yoshio Nakano *, Toru Takeshita and Yoshihisa Yamashita

Department of Preventive Dentistry, Faculty of Dental Science, Kyushu University Fukuoka-shi, Japan

*To whom correspondence should be addressed.

Summary: TRFMA provides a Web environment for analyzing T-RFLP results based on molecular weights of the fragments, rather than the numbers of nucleotides, to increase accuracy. The 16S rRNA data are saved as an XML file containing around 650 sequences (light version) and a MySQL database containing around 50 000 sequences (full version), which are connected to Web server via PHP5 and manipulated on an Internet browser.

Availability: TRFMA is freely available at http://myamagu.dent.kyushu-u.ac.jp/bioinformatics/trfma/index.html and can be downloaded from the same site.

Contact: yosh{at}dent.kyushu-u.ac.jp

Received on March 6, 2006; revised on April 25, 2006; accepted on May 10, 2006

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