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The method to compare nucleotide sequences based on the minimum entropy principle
1Institute of Biophysics, Siberian Division of Russian Academy of Sciences, Akademgorodok, Krasnoyarsk, 660036, Russia. msad@icm.krasn.ru
Abstract:
A new method to compare two (or several) symbol sequences is developed. The method is based on the comparison of the frequencies of the small fragments of the compared sequences; it requires neither string editing, nor other transformations of the compared objects. The comparison is executed through a calculation of the specific entropy of a frequency dictionary against the special dictionary called the hybrid one; this latter is the statistical ancestor of the group of sequences under comparison. Some applications of the developed method in the fields of genetics and bioinformatics are discussed.
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