Fig. 1
Mapping FLNC reads to the draft genome sequence of Chinese Spring (CS). a Division of the 186,765 FLNC reads into five groups (G1 to G5) based on their genome mapping characteristics. The number of reads in each group is depicted in the pie chart. b An example illustrating the FLNC read mapped to two different CS contigs located on the same chromosome arm. The read is shown as a split-mapped molecule (SMM) with both exon (filled box) and intron (line between two neighboring exons) depicted. The arrow indicates the direction of alignment to the genomic sequence. The two CS contigs to which the shown FLNC read mapped were both located on the long arm of chromosome 1D (1DL). The representative transcripts annotated for the two contigs by the draft genome sequence of CS are shown below as SMMs (boxed in green). The bottom panel is the Ae. tauschii contig orthologous to the two 1DL contigs of CS. The transcript annotated for this Ae. tauschii contig is also provided as a SMM (boxed in purple). The Ae. tauschii contig was identified by mapping the exemplary FLNC read to the Dt genome sequencing database (http://aegilops.wheat.ucdavis.edu/ATGSP/data.php). The diagrams shown are not drawn to scale