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. 2015 May;25(5):750–761. doi: 10.1101/gr.182212.114

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© 2015 Carlson et al.; Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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Figure 6. — MIPSTR detects low frequency STR alleles. (x-axis) Tested mixtures of Ler and Col-0 DNA; (y-axis) probability of detecting Col-0 STR alleles; (closed circles) observed frequency of observing Col-0 STR alleles (standard error is indicated, black lines); (open circles) predicted frequency of observing Col-0 STR alleles. To calculate the observed frequency for each mixture, we resampled tag-defined read group modes supporting either the Col-0 or Ler allele at each STR locus 1000 times. The proportion of samples that carry the Col-0 allele was determined and averaged across all STR loci that differ between Ler and Col-0. To calculate the expected probability for each mixture, we assumed the known ratios of Col-0 and Ler STR alleles in each mixture and the probability of observing the Col-0 STR allele with 10 observations.