Fig. 1

Idiogram of Hymenolepis microstoma chromosomes. a Each chromosome is depicted by three horizontal tracks showing the positions of coding regions, repeats, and synteny relative to Echinococcus multilocularis (shown in b). Synteny is based on 100 kb windows, coloured according to the E. multilocularis chromosome with the greatest total number of residues matching using Promer (see the ‘Methods’ section). Where no hits were found, we coloured the window grey. Above the tracks, a graph shows the depth of coverage of Illumina reads mapped against the assembly. Single nucleotide polymorphisms (SNPs) shown as red vertical lines along the sequence coverage graph. Red horizontal bars show two interruptions in synteny on Chr1 that reveal a mis-assembly in the E. multilocularis reference genome (see text). Positions of telomeric and centromeric repeat arrays that the chromosome ends are indicated. Regions identified as having enriched pfam clusters are numbered. Regions underscored with horizontal bars and labelled A, B, and rRNA depict large repeat arrays discussed in the text. b H. microstoma assembly scaffolds aligned against those of E. multilocularis