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The current study was performed using the RAPD markers to detect the Genetic relationship, Genetic diversity, and DNA fingerprint of twelve categories of the aquatic plants genotypes. Isolating Genomic DNA from aquatic plants of fresh leaves, and an amount of DNA was extracted, 966 Nano gram/microliter, with a purity 1.8. Twelve primers were tested showing varied multiplication results between the studied categories. These primers showed 101 contrastive bands from the original 114amplified bands. The highest number of amplified bands was 13 obtained through all genomes by the OP-M05 and OP-L05 primers and the lowest number of the amplified bands 4 by the OP-M20 primer. The difference in the number of bands resulting from the use of each primer is different from the difference in the molecular weights of these bands, which depends on the number and locations of the sequence of primers on the DNA bands.