There are many molecular markers used by researchers to assess genetic relationships among species or intra-species in molecular studies. They use most of them to determine the precise similarities or dissimilarities. When researchers determine which to use, they consider a number of criteria, such as infrastructure, finance, labor and purpose. In this study, genetic diversity has been observed with using four different marker systems such as: Simple Sequence Repeat (SSR), Inter Simple Sequence Repeat (ISSR), inter primer-binding site (iPBS) and sequence related amplified polymorphism (SRAP) and all binary data set from these marker systems were calculated with the objective of assessing the marker system efficiency. The highest polymorphism percentages respectively were obtained from SSR marker with 96.6% and SRAP marker with 95% and the Cophenetic correlation coefficient respectively was estimated for each marker system r=0.85; 0.84; 0.98; 0.97. In a combined analysis of these markers, genetic similarities among all individuals ranged from 0.51 to 0.84, with a mean similarity of 0.64. However, correlations between the different molecular marker systems have shown that complementary information produced by different markers (codominant and dominant) for genetic studies involving polymorphism, and that the prediction of relationships is important.