1. Directory
  2. Genomics
  3. Genome annotation
  4. Repetitive DNA
Join community Sign in
By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.

Screens DNA sequences for interspersed repeats and low complexity DNA sequences. The output of the program is a detailed annotation of the repeats that are present in the query sequence as well as a modified version of the query sequence in which all the annotated repeats have been masked (default: replaced by Ns). Currently over 56% of human genomic sequence is identified and masked by the program.

Software type:
Package
Interface:
Command line interface
Restrictions to use:
None
Input format:
FASTA
Operating system:
Unix/Linux
Computer skills:
Advanced
Stability:
Stable
View all reviews

0 user review

No review has been posted.

View all issues

0 issue

No open issue.

Interface:
Web user interface
Restrictions to use:
None
Input format:
FASTA
Computer skills:
Basic
Stability:
Stable
View all reviews

0 user review

No review has been posted.

View all issues

0 issue

No open issue.

Maintainer

  • RepeatMasker <webmaster at repeatmasker.systemsbiology.org>
  • (Bergman and Quesneville, 2007) Discovering and detecting transposable elements in genome sequences. Briefings in bioinformatics.
    PMID: 17932080
  • (Anisimova et al., 2015) Statistical approaches to detecting and analyzing tandem repeats in genomic sequences. Frontiers in bioengineering and biotechnology.
    PMID: 25853125
  • (Saha et al., 2008) Empirical comparison of ab initio repeat finding programs. Nucleic acids research.
    PMID: 18287116
  • (Lerat, 2010) Identifying repeats and transposable elements in sequenced genomes: how to find your way through the dense forest of programs. Heredity.
    PMID: 19935826
  • (Janicki et al., 2011) Bioinformatics and genomic analysis of transposable elements in eukaryotic genomes. Chromosome research.
    PMID: 21850457

77 related tools