Two PCR-based techniques, RAPD and ISSR, were utilized for determination of genetic relationship of 24 strawberry cultivars used in breeding program at the Research Institute of Pomology and Floriculture in Poland. Polymorphism of investigated genotypes was observed in reactions with 23 out of 48 tested RAPD primes and 41 from 90 tested ISSR primers. Relationship, determined on the base of polymorphic products analysis and showed in the form of dendrograms (UPGMA percent method), was generally similar for both techniques, although similarity values based on ISSR data were higher than those based on RAPD. The parallel use of two data sets seems to allow for precise estimation of cultivars relationship and diminishing mistakes connected with methods'' technical limitations.