Neighbour-joining trees were constructed using the shared-allele distances for both the RFLP and SSR data using PowerMarker v3.25 software [ 61].
The data were run with PowerMarker software (http://statgen.ncsu.edu/powermarker/) using the Shared Allele function in a UPGMA dendrogram (Supplementary Table 5).
Initial analysis of the MLV data used MICROSAT version 1.4 to calculate pairwise population distances using the proportional shared allele distance measure (DPs) [ 21].
For SNP markers, the matrix was computed using a shared allele index.
The network was created using the allele-sharing distance Ds [ 66] and the program POPULATIONS v1.2.28 [ 67].
We generated a neighbor-joining network tree using the allele-sharing distance DAS (Jin and Chakraboty 1993) and the program POPULATIONS v.1.2.28 (Langella 2002).
A dissimilarity matrix was computed using a shared allele index with DarWin software ([Perrier and Jacquemoud-Collet 2006]).
The remaining fragments carrying the shared allele were used as maternal DNA by reason of the low fetal fraction in these samples.
First, maternal allele pairs are matched with their paternal homologues using the alleles shared between parents.
