Objective To set up differential specific maps of 5 clonal cell strains from S180 with RAPD. Methods The Genomic DNA of the 5 clonal strains from S180 including S2D9, S2D7, S1F11, S1H10 and S1B11 was amplified with RAPD-PCR using 23 single primers. The PCR results were assessed by electrophoresis on agarose gel. Results 3 of the 23 single primers were found to be different between amplified products from different clonal strains.Conclusion RAPD characteristics of the 5 clonal cell strains from S180 are apparently different.