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. 2016 Feb 29;17:151. doi: 10.1186/s12864-016-2467-y

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© Phelan et al. 2016

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 1 — Nucleotide diversity (π) across the genome by lineage; genes with high diversity (π > 0.003) are highlighted. The pe_pgrs3 gene appears to have high nucleotide diversity in all lineages. Some lineage-specific hotspots are seen in lineage 1 (ppe59 and Rv3901c), lineage 3 (Rv2081c) and lineage 4 (ppe57 and ppe60)