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.


Example of Intermediate Gap Tolerance

Goal: You want to remove from your alignment all columns that are more than 25% gaps. This is an operation intermediate between stripping and squeezing.

Data: The alignment in the box below contains a single gap in column 2, two gaps in column 3, three gaps in column 4, and all gaps in column 7.

Settings: The tolerance for gaps has been set to 26%, so that column 2, with 25% gaps (1 gap in 4 sequences) will be preserved. Columns 3, 4, and 7 will be removed because they exceed the 26% tolerance level specified when you press the Run button.

Alignment:

Options:

Gap character(s)

Tolerance for gaps (%)

Show deleted columns

Preserve codons (delete columns in groups of 3)

Use tolerance for [1,2,3]
positions in the codon:

Reading frame of alignment:

Return to Gap Strip/Squeeze Input Page.




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