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Essential to a whole-genome shotgun approach to DN.4 sequencing is the availability of pairs of short, unique sequence markers at a roughly estimated distance from each other. Determining the sequence of the genome can then be broken into a series of inter-marker assembly problems that determine the sequence between a pair of markers. Unfortunat.ely, marker pairs are not always correct and repeats can greatly confound the assembly. This motivates our first problem of rapidly finding a set ofdoi:10.1145/299432.299442 dblp:conf/recomb/AnsonM99 fatcat:f247btduizhhxghe3uexj5urtq