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. 2016 Sep 27;17:397. doi: 10.1186/s12859-016-1167-6

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© The Author(s). 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. 5 — Perturbation analysis on local MSA probabilities in case (III). The graph shows the ratio of the contribution of the type (B) next-parsimonious history to that of the parsimonious history. The former history consists of a deletion along each of branches 2 and 3, and the latter consists of an insertion along branch 1. The ratio is shown as a function of the length of the gapped segment (∆L ^D1, abscissa) and the expected number of indels per site along each branch (different curves). The figure is a reduced and modified version of Figure 5 of [43]