Table 1.

Alignment Strategies for Different Types of Assemblies

Method Scheme of alignment Examples
ContigsIndividual contigsFinished BACs
ScaffoldContigs can be reoriented and reorderedArachne October 2001 Phusion November 2001
Chopped piecesMouse chromosomes are chopped in 250 kb and aligned to the Human GenomeCelera chromosome 16 MGSC v3