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Table S1. Probe length and distance to either marker P2 or Acph.

Table S2. Insertion–deletion polymorphism at the fragments (A, B, C, and D) spanning the breakpoints of inversion 3.

Figure S1. Fragment A sequence alignment.

Figure S2. Fragment B sequence alignment.

Figure S3. Fragment C sequence alignment.

Figure S4. Fragment D sequence alignment.

Figure S5. Fragments DUP sequence alignment.

Figure S6. Detailed scheme of the two breakpoints of inversion 3.

Figure S7. Neighbor-joining genealogy of the different copies of the proximal breakpoint region.

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