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. 2014 Aug 14;6(9):2218–2234. doi: 10.1093/gbe/evu174

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© The Author(s) 2014. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Fig. 1.— — (A) Search strategy I: Using hybrid sequences from exons flanking each intron in Daphnia pulex TCO (indicated by small colored boxes) as query sequences to search against newly assembled contigs of other D. pulex clones. Introns are denoted by light green boxes. This strategy allows the detection of polymorphic introns that are present in the TCO clone but absent in homologous positions in other clones. (B) Search strategy II: Using each exon in the TCO genome as query sequences to search against newly assembled contigs of other D. pulex clones. This strategy allows the detection of polymorphic introns that are present in non-TCO clones but absent in homologous positions in TCO clone.