Samples of peels and soils from cassava waste sites were collected from cassava processing factory in Oyo town, Oyo State and also a dumpsite in Alaya village, Aiyedire local government, Osun State, Nigeria. Bacterial isolation was carried out using the pour plate method to obtain amylolytic bacterial species capable of hydrolyzing starch. Fourteen bacterial isolates that were most responsive to starch hydrolysis were selected from both sampling sites for molecular investigations. DNA of the isolates was extracted and subjected to a cocktail mix and condition for PCR which was purified using two universal primers and afterwards the PCR product was used for the polymorphism through electrophoresis. Bacterial isolates were identified based on their genetic sequences and results showed Bacillus subtilis (21.44%) to be the most frequently occurring specie. There was the prevalence of two similar strains Bacillus subtilis MML2483 and B. subtilis MML2411 which was isolated from the different sampling sites. Some other bacterial strains included Bacillus olivae BRB18, B. licheniformis HT-26-B1, B. cereus H17, B. safensis MS40, B. pumilus
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