Identification and phasing of A/B contigs merged during the assembly. (A) Schematic illustration of a contig merged during the assembly. Empty circles represent nucleotides that are common between homoeologs. Grey and black circles correspond to biological polymorphisms between homoeologs. (B) Density plots of percent identity between T. turgidum and T. urartufor contigs with <2 SNPs. The 95% identity peak represents mostly B genome contigs and suggests a relatively good separation of A and B genome contigs in this dataset. (C,D) Density plots of percent identity between T. turgidum and T. urartu for contigs with ≥2 SNPs. (C) Distribution before phasing (note the absence of a bimodal distribution) and (D) after phasing (bimodal distribution as in B).
Krasileva et al. Genome Biology 2013 14:R66 doi:10.1186/gb-2013-14-6-r66