assembly

A set of chromosomes, unlocalized and unplaced (random) sequences and alternate loci used to represent an organism's genome. Assemblies are constructed from one or more assembly units. Most current assemblies are a haploid representation of an organism's genome, although some loci may be represented more than once (see alternate locus). This representation may be obtained from a single individual (e.g. chimp or mouse) or multiple individuals (e.g. human reference assembly). Except in cases of organisms which have been bred to homozygosity, the haploid assembly does not typically represent a single haplotype, but rather a mixture of haplotypes. A diploid genome assembly is a chromosome assembly that is available for both sets of an individual's chromosomes. It is anticipated that a diploid genome assembly is representing the genome of an individual. Therefore it is not anticipated that alternate loci will be defined for this assembly, although it is possible that unlocalized or unplaced sequences could be part of the assembly. An assembly is constructed from one or more assembly units.