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These approaches have been valuable in following the fate of various repeats in a wide range of species [ 10- 12].
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This analysis emphasizes the validity and versatility of the in silico digestion method in studying various repeats often included in the heterochromatic fraction of genome.
Here, we applied this approach to the annotated genome of Drosophila virilis which is extremely rich in various repeats.
However, it should be mentioned that 2.6% of the HeteroGenome's groups are located in various repeats of D. melanogaster.
A Principal Components Analysis suggests that most of the HSA breakpoints are enriched in various repeats: three HSA breakpoints contain only a high density of ancient Alu repeats, four only a high density of young Alu repeats and four display an elevated frequency in L1 repeats (L1MB3, L1MB7 and L1MC5).
The redundancy of various repeat types in the P. monodon genome illustrates its highly repetitive nature.
These findings imply that high-frequency homologous recombination maintains the various repeat arrangements in stoichiometric equilibrium (Lonsdale et al. 1988; Woloszynska 2010).
The frequency analysis of various nucleotide repeats in C. sinensis ESTs revealed that di nucleotide SSRs were the most abundant SSRs followed by tri-, tetra-, penta- and hexa repeats.
These have the same two conserved protein domains AP and RT, possess various SSR repeats in the short 3' UTR immediately following the stop codon at the end of the RT domain, and are flanked by TSD sequences of differing lengths.
The numbers in brackets in the barley column refers to additional sequences present in the current study that were not included in our results because of sequence similarity to sequences in various repeat databases.
A significant number of the p53 BSs detected in genome-wide ChIP experiments [ 7] have been shown to reside in various repeat subfamilies such as ERV LTRs [ 14] and Alu repeats [ 36].
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