Extended Data Fig. 4: The box plots of the numbers of anomalous read pairs (ARPs) connecting the downstream and upstream regions (400nt) adjacent to the breakpoints of the three supergene inversions [In(16)1, In(16)2, In(16)3] for Sb and SB males of six socially polymorphic fire ant species.

Each box ranges from the first (Q1) to the third quartile (Q3) of the distribution and represents the interquartile range (IQR). A line across the box indicates the median. The whiskers are lines extending from Q1 and Q3 to end points that are defined as the most extreme data points within Q1 − 1.5 × IQR and Q3 + 1.5 × IQR, respectively. Each outlier outside the whiskers is represented by a solid dot. a-c, ARPs connecting proximal and distal inversion breakpoints when samples are mapped to the Sb reference genome. d-f, ARPs connecting proximal and distal inversion breakpoints when samples are mapped to the SB reference genome. There are four Gp-9^b individuals with zero values when samples are mapped on the SB reference genome (one S. AdRX for inversion In(16)1); one S. richteri, one S. nr. interrupta, and one S. macdonaghi for inversion In(16)3)). However, the targeted local assembly of the breakpoint sequences yielded contigs that bridge these breakpoints in Sb males of all these four individuals.