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. 2013 Jan 30;30(5):1145–1158. doi: 10.1093/molbev/mst016

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© The Author 2013. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Fig. 9. — When the pool contains an unknown species that is related to one of the known species, sequence reads from the unknown increase the frequency estimate of the most closely related known species but have little effect on the estimation of the relative frequencies of the other known species. (A) Sequence reads from an unknown species (black) related to one of the known species (orange) contribute to the frequency estimate of that species. Shown is a typical example of this effect, with 50% of the reads coming from the unknown species. The relative abundances of the other known species are estimated accurately. (B) Presence of the unknown species has little effect on the estimation of the relative frequencies of the other (unrelated) known species. Seventy-five-base-pair single-end 16S sequence reads were simulated from 20 known species and 1 unknown related species (100× pooled coverage, 100 replicates for each unknown proportion level).