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Set-Cookie: hguid=2417415319_sAE09BHwBvOAJvURHzqOfKUs0BfU; path=/; domain=.ucsc.edu; expires=Thu, 31-Dec-2037 23:59:59 GMT Content-Type:text/html Hg38 Diff Track Settings
Hg38 Diff Track Settings
 
Contigs Dropped or Changed from GRCh37(hg19) to GRCh38(hg38)   (All Mapping and Sequencing tracks)

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Data schema/format description and download
Related tracks
  • liftOver & ReMap: Investigate how contig changes affect the liftOver alignments
Assembly: Human Feb. 2009 (GRCh37/hg19)
Data last updated at UCSC: 2014-02-13

Description

This track shows the differences between the GRCh37 (hg19) and GRCh38 (hg38) human genome assemblies, indicating hg19 contigs (or portions of contigs) that were not carried forward to the newer assembly.

The following color/score key is used:

item
color		item
score		type of change from hg19 to hg38
 0hg19 contig dropped in the construction of the hg38 assembly
 500Different portions of this same contig used in the construction of hg38 and hg19 assemblies
 1000Contig updated in hg38 to correct sequence errors present in hg19 version

Use the score filter to select which categories to show in the display.

Methods

The contig coordinates were extracted from the AGP files for both assemblies. Contigs that matched the same name, same version, and the same specific portion of sequence in both assemblies were considered identical between the two assemblies and were excluded from this data set. The remaining contigs are shown in this track.

Credits

The data and presentation of this track were prepared by Hiram Clawson, UCSC Genome Browser engineering.