E. capillifolium

E. pinnatifidum 1

E. pinnatifidum 2

E. serotinum

E. perfoliatum

Eupatorium pinnatifidum has 2 possible progenitor combinations – both involve E. capillifolium (top), but the first type has as the second parent E. serotinum, as shown by the “stutter” (red arrow) induced by a 1 bp length difference involving the poly-T run (red line: 4 bp in capillifolium vs. 5 bp in serotinum).  In contrast the second type has as the second parent E. perfoliatum, as can be seen by the lack of any stutter (perfoliatum has 4 bp as in capillifolium).  Note the bp polymorphisms (purple arrows) including two that would only be produced by E. perfoliatum as the second parent (orange arrows).

4 T

4 T

4 T

5 T

Direction of sequencing – all samples