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String data alignment by a spatial coding and moiré technique

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Abstract

A method for string alignment is presented in which a moiré technique is applied to one-dimensional spatial encoding patterns. String alignment, an essential operation in genome analysis, evaluates local similarity between sequences of bases or amino acids. The method uses a simple procedure to provide matching results for not only the same locus but also neighboring loci. Experimental verification shows the effectiveness of the proposed method.

© 1999 Optical Society of America

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