Insects are omnipresent and encompass 3/4(superscript th) of the whole animal kingdom. Their wide range of ecological adaptability makes them fittest in the extreme ecosystems. Therefore, there is a need to assess their biodiversity in terms of biological and biogeographical identities. We have devised a novel marker system called Random Amplified Genome Encoding Primer (RAGEP) which has been described to assess the migratory pattern and intra species diversity in H. puera. In the present study we propose to characterize the RAGEPs for its heritability, stringency, reproducibility, species specificity and development of species-specific tags and genome specific tags (nuclear and mitochondrial) using RAGEP marker system. We provide convincing results to accept RAGEP system as good marker system to address biodiversity in terms of its biological and biogeographical identities.