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. 2017 Jun 5;18:293. doi: 10.1186/s12859-017-1703-z

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© The Author(s) 2017

Open Access This 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. 3 — General comparison of MSA matrix performance based on the average q-score $\bar{q}$ per benchmark database. PFASUM MSA Matrices outperform the tested Standard MSA Matrices on all three benchmarks. PFASUM31 achieved the highest $\bar{q}$ for BAliBASE 3.0 and SABmark 1.65, while VTML200 leads all matrices on the OXBench dataset. The red dotted line indicates the maximum $\bar{q}$ separately for each benchmark