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. 2020 Apr 3;8:48. doi: 10.1186/s40168-020-00808-x

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© The Author(s) 2020

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. 1 — MetaEuk algorithm. Input to MetaEuk are assembled metagenomic contigs and a reference database of protein sequences. 1 Six-frame translation of all putative protein-coding fragments from each contig. 2 Fragments on the same contig and strand that hit the same reference protein T are examined together. 3 Putative exons are identified and ordered according to their start position on the contig. The highest score and path (denoted with a star) of a set of compatible putative exons is computed by dynamic programming, in which individual scores of the putative exons are summed and unmatched amino acids are penalized. 4 Redundancies among gene calls due to homologous targets (T, T’, and “T”) are reduced and a representative prediction (denoted with a star) is retained. 5 Contradicting predictions of overlapping genes on the same strand are resolved by excluding the prediction with the higher E-value