Description

Composite repeat track for CHM13v1.1

A composite repeat element is defined as a repeating unit consisting of three or more repeated sequences, including TEs, simple repeats, novel repeat annotations and/or satellites, that is found in at least one location in the genome as a tandem array.

All composite loci are shown as a single block: start-end of the entire tandem array or singleton

Methods

Identification and annotation of composite repeat elements was accomplished through a combination of RepeatMasker(p4.1.2-p1) and extensive manual curation as described in Hoyt et al. 2021

Display Conventions and Configuration

Data access

http://t2t.gi.ucsc.edu/chm13/dev/t2t-chm13-v1.1/downloads/t2t-chm13-v1.1.composite-repeats-singletons-arrays.bed.gz

Release history

  1. CHM13v1.1 release

Contacts

Credits

Savannah Hoyt

Jessica Storer

Patrick Grady

Gabrielle Hartley

Rachel O'Neill

Thanks to Arian Smit, Robert Hubley, and the Dfam project for providing the tools which assisted in the generation of this track.