DGRP v2 (R5) Track Settings
Drosophila Genetics Reference Panel 2 (R5)   (All Variations tracks)

Display mode:   

Haplotype sorting display

Enable Haplotype sorting display
Haplotype sorting order:
using middle variant in viewing window as anchor.
If this mode is selected and genotypes are phased or homozygous, then each genotype is split into two independent haplotypes. These local haplotypes are clustered by similarity around a central variant. Haplotypes are reordered for display using the clustering tree, which is drawn in the left label area. Local haplotype blocks can often be identified using this display.
To anchor the sorting to a particular variant, click on the variant in the genome browser, and then click on the 'Use this variant' button on the next page.
using the order in which samples appear in the underlying VCF file
Haplotype clustering tree leaf shape:
draw branches whose samples are all identical as <
draw branches whose samples are all identical as [
Allele coloring scheme:
reference alleles invisible, alternate alleles in black
reference alleles in blue, alternate alleles in red
first base of allele (A = red, C = blue, G = green, T = magenta)
Haplotype sorting display height:


Exclude variants with Quality/confidence score (QUAL) score less than
Exclude variants with these FILTER values:
PASS (All filters passed)
Minimum minor allele frequency (if INFO column includes AF or AC+AN):

VCF configuration help

View table schema
Data last updated at UCSC: 2022-10-21


This track shows the sequence (e.g., single nucleotide polymorphisms) and structural variants in 205 inbred lines of Drosophila melanogaster that are part of version 2 of the Drosophila melanogaster Genetic Reference Panel (DGRP).

The VCF file for the DGRP Freeze 2.0 calls was obtained from the DGRP web site. The variants were then lifted from the D. melanogaster release 5 assembly to the release 6 assembly.


Huang W et al. Natural variation in genome architecture among 205 Drosophila melanogaster Genetic Reference Panel lines. Genome Res. 2014 Jul;24(7):1193-208.