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.

Gap Strip/Squeeze v2.1.0

Purpose: To delete aligned columns that contain a chosen percentage of gaps or other characters.

Details: Set the gap tolerance to any value between 0% and 100%. A value of 0% will cause columns to be deleted if they contain only a single gap ("gap stripping"), while a value of 100% will delete only columns that are entirely gaps ("gap squeezing"). See Explanation file for additional details.

Paste your alignment

[Sample Input]
Or upload your alignment


Gap character(s)
Gap tolerance%
Show deleted gaps
Preserve codons
(delete gaps in triplets)
Use tolerance for [1,2,3] positions in the codon Reading frame of the alignment is

Release Notes: For details on releases click here.

Known Bugs: For known bugs click here.

Wish List: For desired new features click here here.

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