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Estimated 3.3 million Indonesian population were infected with malaria. However, extensive genetic polymorphism of the field isolates msp-2 of P. falciparum represents a major obstacle for the development of malaria treatment. The aim of this study to investigate the genetic diversity of msp-2 genotype in field isolates of P. falciparum collected in Aceh Province. A total of 90 patients enrolled in this study who were selected from positive malaria from eleven district Hospitals in Aceh from 2013-2015. Data was collected by anamnese, complete physical examination and laboratory tests for msp-2. All protocol to diagnose malaria assigned following the WHO 2010 guideline. All samples was stored in Eijkman Biology Molecular Institute, Jakarta. Among 90 samples were 57,7% male and 42,3% female with the most cases ages between 21-30 years old. Allele typing analysis displayed the polymorphic nature of P. falciparum. The msp-2 have two alleles, 62,2% (56/90) for FC27 type and 58,9% (53/90) for 3D7 type and 21,2% (19/90) for mixed FC27 and 3D7 infection were identified. Diverse allele types from Aceh Province was identified in msp-2 P. falciparum patients, there is almost similiar number of patients infected with both allele. A moderate level of mixed allele was also observed.