Whole Genome Shotgun. A sequencing method by which an entire genome is cut into chunks of discrete sizes (usually 2,10, 50 and 150 Kb) and cloned into an appropriate vector. The ends of these clones are sequenced. The two ends from the same clone are referred to as mate pairs. The distance between two mate pairs can be inferred if the library size is known and should have a narrow window of deviation. references: Weber JL, Myers EW. Human whole-genome shotgun sequencing. Genome Res 1997; 7(5): 401-409. Venter JC et al. The sequence of the human genome. Science 2001; 291(5507):1304-51. Batzogluo S et al. ARACHNE: a whole-genome shotgun assembler. Genome Res 2002; 12(1):177-89. Mullikin JC, Ning Z. The phusion assembler. Genome Res 2003; 13(1):81-90.