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Fig. S1ITS1 alignment. Alignment of the portion of ITS1 between Diagfor to Diagrev primer-binding sites for palpalis group flies. The position of the insertion in Glossina p. palpalis from Equatorial Guinea (palpalis_EqGui) is the same as in Glossina p. palpalis from DRC (palpalis_DRC), from position 194 to 382.

Fig. S2 Population structure inferred using structure.

Fig. S3 Posterior distribution (likelihood curves) for NeL of Glossina palpalis from Rio campo.

Table S1 PCR conditions for the microsatellite loci analysed

Table S2 Pairwise FST for each locus

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