Fig. 2
Genetic variants differentiating 4a-3A and 4a-3B cells are clustered on the 2R chromosome. A The distribution of fixed indels (left) and SNPs (right) is distinct from the total genome composition of the chromosome arms, all pairwise χ2 P-values < 0.0001. Distinct GT: variants have a distinction between the 4a-3A and 4a-3B cell lines. Same GT: variants have the same genotype in the 4a-3A and 4a-3B cell lines but each are distinct from the An. gambiae AgamP4 reference genome assembly. B Distribution of cell line Distinct indels (top) and SNPs (bottom) across the An. gambiae AgamP4 reference genome assembly. Window size of 10,000 bp with a step size of 2500 bp. *Position of the three indels used in the diagnostic assay described in Fig. 4. C The distribution of fixed indels (left) and SNPs (right) is distinct from the overall composition across the 2R chromosome arm, all pairwise χ2 P-values < 0.0001. D Molecular diagnostic for the 2Rb (top) and 2Rj (bottom) chromosome inversions using published methods. Lane 1: 100-bp ladder, lane 2: 4a-3A, lane 3: 4a-3B. Expected size for 2R + j is 494 bp and for 2Rj is 253 bp (47) and for 2R + b is 630 bp and for 2Rb is 429 bp