Fig. 4

Assembly scaffolding and anchoring. a NG50 of the assembly at stages 1–6 as defined in “Legend for A-C” within the figure. b Number of sequences in the assembly at stages 1–6 as in (a). Orange bars = LG50. c Total length of the assembly at different stages 1–6 as in (a). The “Additional legend for C” defines colored portions of the bars. *The length of the Eukaryotic and Arthropod labeled sequences includes everything up through that color. d Log10 Illumina coverage versus GC content over the Canu assembly (similar results for Falcon), colored by taxonomy information, and with circle sizes proportional to the contig sizes they represent. e Proportion of the assembly labeled as Eukaryotic, Arthropoda, Diptera, Bacteria, and Rickettsiales. f Anchored percentage of the expected genome size and chromosome sizes. Ranges in Canu and Falcon assemblies indicated. g Canu assembly with scaffolds drawn as rectangles corresponding to their lengths, colored according to the chromosome they were anchored to (or unanchored), and on Y-axis according to mean coverage from PacBio reads. The white background highlights sequences in the primary assembly whereas the grey and cyan backgrounds are set behind associated and bacterial sequences, respectively. All sequences to the left of the first vertical dashed line are anchored. See the plot legend for symbols