HCV Database
HCV sequence database
 



To our users Please note that the HCV database site is no longer funded. We try to keep the database updated and the tools running, but unfortunately, we cannot guarantee we can provide help for using this site. Data won't be manually curated either.


ElimDupes

Duplicate Sequence Removal

Purpose: compare the sequences in an alignment and identify or eliminate duplicates or very similar sequences.

For details, see ElimDupes Explanation.

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Input
Paste your sequences here icon
or upload your file
Yes, sequences are aligned icon UNCHECK box if your sequences aren't aligned (tool will be much slower)

Options
Remove extraneous characters from sequences icon Yes No
Make all letters uppercase icon Yes No
Consider subsequences as duplicates icon Yes No
Restore original sequences in output icon Yes No
Eliminate sequences more similar than % icon
Analyze input by groups icon enter number of leading digits
Create file of unique sequences with
_count added to sequence names icon
Yes No     Include rank in sequence names icon Yes No      

WARNING: If you choose to "Create file with _count added to sequence names" and any of your sequence names end in "_" followed by numbers (for example, "NC_123456"), the numbers will be treated as occurrence counts. For best results (if these numbers don't actually represent counts), add an extra character to such sequence names (e.g. "NC_123456x").




Questions or comments? Contact us at hcv-info@lanl.gov