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CAP3 | A DNA sequence assembly program


The third generation of the CAP sequence assembly program. The CAP3 program includes a number of improvements and new features. The program has a capability to clip 58 and 38 low-quality regions of reads. It uses base quality values in computation of overlaps between reads, construction of multiple sequence alignments of reads, and generation of consensus sequences.

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CAP3 classification

CAP3 specifications

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CAP3 support


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Department of Computer Science, Michigan Technological University, Houghton, MI, USA; Department of Molecular Biotechnology, University of Washington, School of Medicine, Seattle, WA, USA

Funding source(s)

National Institutes of Health grant R01 HG01502-03

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