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Nucleic Acids Research, 1992, Vol. 20, No. 1 131-136
© 1992

MOLECULAR BIOLOGY

A simple method for global sequence comparison

Elisabetta Pizzi*, Marcella Attimonelli, Sabino Liuni, Clara Frontali1 and Cecilia Saccone

Centro Studi Mitocondri e Metabolismo Energetico CNR, Dipartimento di Biochimica e Biologia Molecolare, University of Bari 70126 Bari 1Laboratorio di Biologia Cellulare, Istituto Superiore di Sanità 00161 Rome, Italy

*To whom correspondence should be addressed at Laboratory of Cell Biology, Istituto Superiore di Sanità Rome, Italy

Received April 29, 1991. Revised December 4, 1991. Accepted December 4, 1991.

A simple method of sequence comparison, based on a correlation analysis of oligonucleotide frequency distributions, is here shown to be a reliable test of overall sequence similarity. The method does not involve sequence alignment procedures and permits the rapid screening of large amounts of sequence data. It identifies those sequences which deserve more careful analysis of sequence similarity at the level of resolution of the single nucleotide. It uses observed quantities only and does not involve the adoption of any theoretical model.


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