Tool for rapid de novo identification, masking, visualization and clustering of all repeated sequences at the genomic scale. Detects direct and inverted repeats, microsatellites, telomeres, and complex higher-order repeat structures.
Alternative: For unlimited genome sizes, use the command-line TotalRepeats Java application.
- Detected repeats: Direct and inverted repeats, perfect and imperfect microsatellites, telomere repeats, tandem repeats, complex patterns
- Size limit: Theoretically unlimited; practical limit ~100 MB due to browser RAM constraints
- Input format: sequence(s) can be pasted or uploaded as a file in FASTA format or retrieved sequence (NCBI’s accession, e.g. PQ145547) from NCBI’s "nuccore" nucleotide database.
Upload or paste sequence(s) in FASTA format:
Input sequence(s) in FASTA format:
Masked sequence(s)
Report (Tab-separated values)
Picture
Detection Parameters
Quick Help
- Paste/upload FASTA or retrieve by accession; for large inputs prefer files to reduce browser overhead.
- Use the visualization controls (canvas size, export/save) to inspect repeat blocks and masked sequence.