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. 2018 Aug 23;10:65. doi: 10.1186/s13073-018-0574-x

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© The Author(s). 2018

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. 2 — a Maximum-likelihood tree of 130 isolates from 57 patients with Staphylococcus aureus bacteraemia, rooted using Staphylococcus argenteus as outgroup. Patient-specific shape-colour combinations annotate branch tips. White circles indicate nodes with ≥ 95% ultrafast support and ≥ 80% SH-like approximate likelihood ratio test support. Frequency distribution of pairwise single-nucleotide polymorphism (SNP) distance between isolates from the same patient using the common reference S. aureus TW20 (b) and the de novo assembly of the index isolate (c)