Table 1.

Summary statistics (alignments).

Total number of reference contigs = 16,312
Total number of polymorphic contigs = 13,412
Total number of polymorphic sites = 433,257
Samples	H. annuus	H. petiolaris	H. debilis
Mean number of reads aligned per contig a	382	798	894
Median number of reads aligned per contig a	109	155	198
Mean depth per polymorphic site a	75	102	107
Median depth per polymorphic site a	23	32	32

aNote that these numbers vary mainly due to the different number of reads generated per sample (samples sequenced in duplex for H. annuus and triplex for H. petiolaris and H. debilis). For more results on an individual basis, see Table 2.