TABLE 2.

Patterns of introgression based on all admixed individuals.

Patterns of Introgression relative to neutral expectations	No of Loci
Non-neutral	1793
V. longifolia (Parent A) homozygotes to admixed individuals	472
V. spicata (Parent B) homozygotes to admixed individuals	688
Heterozygous excess in admixed individuals	1
Heterozygous deficiency in admixed individuals	1603
Homozygous excess in admixed individuals	1160
Homozygous deficiency in admixed individuals	2
Neutral	6930

The results are based on pure parental individuals of V. longifolia (63 individuals with 0.1 ≥ Q ≥ 0.9), V. spicata (79 individuals with 0.1 ≥ Q ≥ 0.9), and admixed individuals (13 with Q ≥ 0.2) following the NEWHYBRID, and STRUCTURE results. The total number of SNPs used were 8,723 with 25.73% missing data. Prediction of introgression at each locus was compared through likelihood of regression model to that of a neutral model and its significance by using 1,000 permutations. Non-neutral loci were selected by adjusting the neutral expectation of genomic clines through multiple comparisons (P < 0.025; significance following FDR correction).