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Since the United States Department of Energy (DOE) and National Institutes of Health (NIH) set up the Human Genome Project (HGP) in 1990, topics related to genome analysis became much more popular. In DNA sequencing research, most people focus on the assembly of reads, less discuss the determination and quality of bases. Since the value of assembled reads is judged by the quality of bases, which in turn by the accuracy of bases determination, the research about bases determination becomes critical if quality of reads is to be assured.
Illumina, one of the leading companies in DNA sequencing, deems that the position of the genome sequence on the genome plate is fixed, but Li (2012), by observing the positions of a single base in different cycles, found that it is not true. In this paper, we propose using an area which does not contain bases to examine the stability of the base position. Techniques of pattern recognition are applied to validate the movement of the blocks. Simulation study shows that the algorithm we develop is capable of capturing the pattern of the designated graphs. To reduce the difficulty in data analysis, Peng’s ring coding techniques (2003), is applied to fix the number of features. From the NGS data made by Illumina, we approve that the positions of genome sequence on the genome plate is not fixed, and its mobility is collective.
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