By means of a sample of 225 men with origins in the Low Countries we describe the regional Y chromosomal differences in this area of West Europe. Haplogroups, 10-marker haplotypes and geographic location were retrieved from genealogical websites. Data were analyzed by freely available population genetics software. This showed generally insignificant genetic distances between the populations in the different regions of the Low Countries, corresponding to the very limited geographic barriers to migration. A small but significant genetic difference could be demonstrated between populations on different sides of the Germanic-Latin language border which runs through the Low Countries. Comparison of the molecular structure of haplotypes revealed quasi absence of migration for thousands of years for certain paternal lineages in the region of Brabant.