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. 2008 Oct 13;9:480. doi: 10.1186/1471-2164-9-480

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Copyright © 2008 Weiberg et al; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Effect of ambiguous nucleotides on cDNA-AFLP coverage as estimated by simulation. Modified EST sets were generated from RefSeq sequences by labeling different fractions of randomly selected nucleotides as ambiguous using a Perl script. cDNA-AFLP sequential digestion protocol was simulated using the optimal combinations of two marking and three releasing enzymes, and the coverage was plotted against the fraction of ambiguous nucleotides. Squares connected by a dotted line: mouse; triangles connected by a dashed line: human; circles connected by a filled line: Arabidopsis.