Patent ID: 7917297

Claim:
A method for at least one of genotyping or haplotyping a sequence of polymorphic genetic loci in a deoxyribonucleic acid (DNA) sample or identifying a strain variant from the DNA sample, comprising: i) providing one or more microarrays that include a set of oligonucleotide probes that are capable of detecting the at least one of the genotypes, the haplotypes or the strain variant; ii) hybridizing the DNA sample to the one or more microarrays to create a hybridization pattern; iii) determining at least one of a genotype, a haplotype or a strain variant based on the hybridization pattern; and iv) optimizing at least one of the set or an arrangement of the oligonucleotide probes as a function of at least one of a match criteria or a mismatch criteria between a true allele contained in the DNA sample and an allele determined by the hybridizing step.