Help Genome Browser

Genome Browser

Standard Tracks

The Genes and Transcripts tracks are displayed by default.

Genes

Shows C. elegans genes.

Transcripts

Shows transcripts of genes.

phyloP

The UCSC genome browser provides a good explanation of the phyloP and phastCons tracks and how to interpret them.

phyloP (phylogenetic P-values) are designed to detect lineage-specific selection. Positive scores indicate conserved sites (slower evolution than expected under drift) whereas negative scores indicate acceleration (faster evolution than expected under drift).

Caenorhabditis elegans
Caenorhabditis brenneri
Caenorhabditis japonica
Caenorhabditis remanei
Caenorhabditis briggsae
Strongyloides ratti
Onchocerca volvulus
Brugia malayi

phastCons

phastCons scores range from 0-1 and represent the probability that each nucleotide belongs to a conserved element.

Transposons

The transposons track shows transposon calls from Laricchia et al. 2017. Each call lists the transposon type and isotype.

Divergent Regions

Hyper-divergent regions are genomic intervals that contain sequences not found in the N2 reference strain. They were identified by high levels of variation and low coverage from read alignments. For a complete description, please see Lee et al. 2020.

Two divergent tracks are available:

Divergent Regions Summary - Divergent region intervals and their observed frequency across wild isolate strains.
Divergent Regions Strain - Divergent region intervals for individual strains.