Fig. 2

Coverage statistics for single cell genomes of Cryptosporidium parvum. a Color coded heat map for the eight chromosomes of individual cells where red is < 1 × coverage (sequence missing), orange is 1–5 × coverage, yellow is 5–20 × coverage and green is >20 × coverage. Positions with ambiguity characters in the reference genome are colored gray. The combined data for all 10 single cell genomes (all cells combined), the full parent metagenome and the same metagenome subsampled to equal sequencing depth as an average single cell genome (1.3 Gbp) are included for reference. b Density profiles showing more detailed view of the sequencing depth for chromosome 3 with the ten single cell genomes given in color according to (a). “All cells combined” are shown with gray shading. Similar plots for all chromosomes can be found in Additional file 4. The bold black line represents the metagenome