Tandem repeats detection in DNA sequences using p-spectrum based algorithm

The identification of repeats play an important role in the analysis of DNA sequences as most of the DNA sequences contain specific repeated patterns of particular periods. The repeated patterns are associated with various diseases. In this paper, a p-spectrum based algorithm, short time p-spectrum (STPS) has been proposed to detect the periodicities and its associated diseases. The proposed algorithm has been used to detect the periodicity of the repeated patters in synthetic and real DNA sequences. The performance of the proposed algorithm has been compared with Tandem Repeats Finder (TRF) version 4.09. Also, the proposed algorithm has been applied to detect the Myotonic Dystrophy-2 disease based on the expansion of the copies of repeating patterns.