Table 1 The mapping coverage of mitogenomes and genomes of Wolbachia strains obtained from three Rhagoletis cerasi individuals and one Ceratitis capitata individual. Genomes of wCer1, wCer2 and wCer4 were assembled from libraries of individuals which only had one strain. Then these reference genomes were used to competitively map reads of RcerAS to wCer1, wCer2 and wCer5, and reads of RcerIZ to wCer1 and wCer5; all other libraries (and sampled libraries) were mapped to a single Wolbachia strain. Subsampling of total reads was selectively applied to normalise the number of mapped reads for comparison between libraries. Mapping parameters were 97% similarity over 97% length, keeping only properly paired reads

From: Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations