The genome of all the known species on earth is almost constituted by repetitive DNA. Genetic identification of all these species is possible only after the discovery of these highly polymorphic of alleles, which constitute 30-90% of the genomes. Since several hundred alleles are combined to form genetic loci in DNA regions, they are not similar across species and varies with respect to length, sequence and tandem arrays of distribution. Normally, the inherited mutations that occur in the repetitive DNA region are more responsible for diversity and evolution. In recent years, diverse groups of hybridization and PCR based molecular, genomic and proteomic markers available are heavily been used for identification of fungi (Ellegren, 2004; Table 3.1).