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Maximal exact match identification software tools | High-throughput sequencing data analysis

Maximal exact matches (MEMs) are exact matches between two strings that cannot be extended in either direction towards the beginning or end of two strings without allowing for a mismatch. Algorithms for computing MEMs between sequences appear in two contexts where high-throughput sequencing will vastly increase the volume of sequence data: (i) seeding alignments of high-throughput sequencing reads for genome assembly and (ii) designating anchor points for genome–genome comparisons when the two genomes are relatively similar.

Source text:
(Khan et al., 2009) A practical algorithm for finding maximal exact matches in large sequence datasets using sparse suffix arrays. Bioinformatics.

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