Leptospirosis becomes health problem in Indonesia. Until April 2014, cases of leptospirosis transmitted by rats were reported in Boyolali with case fatality rate (CFR) 83.3%. Leptospira genus consists of various serovars and genetic types living in different environment. Classification of Leptospira species based on rpoB gene could be used as this gene has high level of polymorphism. This study…