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Bioinformatics Vol. 19 no. 1 2003
Pages 151-152
© 2003 Oxford University Press

Applications Note

MAVG: locating non-overlapping maximum average segments in a given sequence

Yaw-Ling Lin 1, Xiaoqiu Huang 2, Tao Jiang 3 and Kun-Mao Chao 4,*

1 Department of Computer Science and Information Management, Providence University, Shalu 433, Taiwan
2 Department of Computer Science, Iowa State University, Ames, IA 50011, USA
3 Department of Computer Science, University of California, Riverside, CA 92521, USA
4 Department of Computer Science and Information Engineering, National Taiwan University, Taipei 106, Taiwan

Received on April 7, 2002 ; revised on June 13, 2002 ; accepted on July 4, 2002

Summary: MAVG is a software tool for finding k non-overlapping maximum-average segments that are sufficiently long in a given sequence of real numbers, for any k > 0. It has applications in several areas of biomolecular sequence analysis including locating GC-rich regions and CpG islands in a genomic sequence, and annotating multiple sequence alignments.

Availability: http://iubio.bio.indiana.edu/soft/molbio/pattern/cpg_islands/

Contact: kmchao{at}csie.ntu.edu.tw

* To whom correspondence should be addressed.


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