CLONEPLACER - A SOFTWARE TOOL FOR SIMULATING CONTIG FORMATION FOR ORDERED SHOTGUN SEQUENCING

This communication describes a software tool that enables one to simul ate large-scale regional mapping using an ordered shotgun sequencing a pproach. The analysis routines. that are provided yield an estimate of the depth of coverage of the physical map, the largest contig formed, and the number of gaps remaining at any given juncture in the project . A detailed listing describing the span of each contig within the phy sical map is also presented. This provides an a priori means of estima ting the resources that will be required to undertake any megabase map ping or sequencing project. CLONEPLACER provides the much needed guide to deriving the optimal strategy. (C) 1995 Academic Press, Inc.