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. 2019 Nov 29;8(12):giz129. doi: 10.1093/gigascience/giz129

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© The Author(s) 2019. Published by Oxford University Press.

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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Figure 2: — Gene copy number estimation. (A) Distribution of copy counts for putative single-copy genes in diploid grasses. From the 2,051 single-copy genes in sorghum, rice, and Brachypodium, 1,592 single-copy genes matched to ≥1 sugarcane predicted gene. More than 99.9% of the aligned single-copy genes are present between 1 and 15 times in the sugarcane assembly. (B) Copy differentiation between sugarcane coding sequences (CDSs) and upstream regions (sequences of 100bp upstream of the CDS, sequences of 500bp upstream of the CDS and sequences of 1000bp upstream of the CDS), based on pairwise sequence alignment of gene clusters. Genetic dissimilarity increases with increasing distance from the translation start site. (C) Indel length distribution in sugarcane putative homo(eo)logs. Frame-preserving indels are more common than frameshifts for this set of genes.