Use of VINOs improves subspecific origin assignment in mouse. Diagnostic SNPs and VINOs defined by wild caught mice (first two columns, respectively) and SNPs and VINOs combined (third column) on chromosome 6 (39-40.5 Mb) for strains A) CASA/RkJ and B) POHN/Deh and on chromosome 3 (58-62 Mb) for strains C) CIM and D) POHN/Deh. Blue, red and green vertical lines indicate M. m. domesticus, M. m. musculus, and M. m. castaneus diagnostic SNPs, respectively. The height of each line represents the score defined by [number of wild animals having diagnostic allele/total animals]. Solid bars along the x-axis in the third column denote the subspecific origin assigned to the interval by a hidden Markov model. In each case, diagnostic VINOs help to refine the boundaries of subspecific origin assignment.