Fig. 3: Plasmodium falciparum read assignment in the Ag1000G dataset.

a Distribution of percent coverage for the P. falciparum apicoplast and core genomes among 432 and 148 specimens of the 1142 An. gambiae mosquitoes. The y-axis represents the number of specimens (log scale) with apicoplast and core genomes reads and x-axis represents the percent of genomes covered ≥1×. b Comparison of GC content among P. falciparum consensus sequences and bacterial contigs found in the 1142 An. gambiae mosquito metagenomes. The y-axis represents the percentage of GC content and x-axis represents taxa (P. falciparum and bacterial families). The bold line represents the median GC content, the box represents the interquartile range, the whiskers represent the range and dots are outliers. c Distribution of percent coverage as correlated to the GC content for the apicoplast genome data. The line at 3% shows the estimated threshold beyond which there is a sufficient number of reads to have distinctly P. falciparum GC content. d Distribution of percent coverage as correlated to the GC content for the P. falciparum core genome data. The estimated threshold is 0.4%.