Genetic positions and genotype scores of framework markers. Framework markers are consensus genotypes that were constructed by aggregating SNP information on the scaffold level. Genotype scores are given as a character string with the following encoding: 0 (Opata M85), 2 (Synthetic W7894), 3 (missing data). The order of individuals is given in the first comment line of the file. Note that the encoding for the two parents has been switched.
Map locations for 1,658,636 50+1-mer markers successfully placed in one of the 21 major linkage groups. Markers are labeled by their defining 50-mer sequence tag and the cluster identity and map location found.
Genotypes for 1,716,090 50+1-mer markers across 88 individuals defined as described in the main text (Ultradense Genetic Linkage Map) and in Supplementary Note. Genotypes are encoded as 1 (Synthetic W7984), -1 (Opata M85), or 0 (missing data). Markers are labeled by their defining 50-mer sequence tag.
Placement of 50+1-mer markers on scaffolds by 51-mer match for 1,856,299 markers. Markers are defined by their shared 50-mer prefix found in both parental strains and a 51st base unique to each parent. As such, placement of markers on W7984 scaffolds is determined by unique 51-mer match. Match details are described in the header to the file.
Genetic positions and consensus genotypes of 437,973 scaffolds. Genotype scores are encoded as in "W7984_WGS_assembly_SNP_positions_on_the_assembly.tsv".
SNP positions on the WGS assembly of Synthetic W7984 and associated genotype calls in the mapping population. Genotypes are encoded as 0 (Synthetic W7984), 2 (Opata M85) and NA (missing data).
Whole-genome shotgun of hexaploid wheat Synthetic W7984. The assembly was done with meraculous (Chapman et al., 2011, PLOS ONE) and consists of 6,870,110 scaffolds. The cumulative size of all scaffolds is 9,134,017,866 base pairs.
Deletions (>= 50 bp) in W7984 relative to Chinese Spring and Opata M85. Genetic positions of contigs harboring the deleted intervals are included if available. Both the start and the end coordinates are 1-based.
Genetic positions of 1,552,095 scaffolds of the sorted chromosome assembly of wheat cultivar Chinese Spring