Description

This track depicts gaps in the draft assembly catChrV17e (Dec. 2008, NHGRI/Genome Technology Branch (NCBI project 10703, accession ACBE0100000)) of the $organism genome. Many of these gaps — with the exception of intractable heterochromatic gaps — may be closed during the finishing process.

Gaps are represented as black boxes in this track. If the relative order and orientation of the contigs on either side of the gap is supported by read pair data, it is a bridged gap and a white line is drawn through the black box representing the gap.

This assembly contains the following principal types of gaps:

fragment - gap between sequence contigs
clone - gap between clones that do not overlap. In general, these are usually represented by 5,000 Ns in the assembly.
contig - gap between clone contigs. These are represented by 5,000 Ns in the assembly.
other - unknown bases marked 'N' in the sequence that were not in the assembly AGP file definition of gaps.