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. 2021 Nov 10;22:547. doi: 10.1186/s12859-021-04417-9

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© The Author(s) 2021

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. 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 in a credit line to the data.

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Fig. 9 — The three Figures show different visualizations of EFMs that belong to the 15,360 identified highest yield EFMs of the sub-model $s m_{8}$ of JCVI-syn3A [31]. Each EFM consists of 275 reactions in total. a and b show excerpts of the pathways of EFM 1 and EFM 9 respectively EFM 2 where the respective EFMs only differ in two reactions from each other. Shared reactions are in dark blue whereas individual reactions are in the same color as the EFMs’ name, e.g. in a the reaction GLUTRS_Gln is the shared reaction, reaction GLNTRAT belongs to EFM 1 and GLNTRAT2 belongs to EFM 9. c is a heat map of the top 25 highest yield EFMs, showing the number of reactions in which the EFMs differ from each other. Since EFM 1 differs from EFM 2, respectively EFM 9, in two reactions, consequently EFM 2 and EFM 9 differ in 4 reactions, indicated in the heat map by the number as well as a darker shade of blue. The darker the shade of blue, the greater the similarity between 2 EFMs