Gap Strip/Squeeze v 2.1.0

HIV sequence database

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

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.

Release Notes: For details on releases click here.

Known Bugs: For known bugs click here.

last modified: Thu Sep 15 13:02 2011

Index of all tools	HIV BLAST	Quality Control
ADRA	HIVAlign	QuickAlign
Branchlength	Hypermut	Rainbow Tree
Codon Alignment	jpHMM at GOBICS	Recombinant HIV-1 Drawing Tool
Consensus Maker	Mosaic Vaccine Tool Suite	RIP
ELF	Motif Scan	SeqPublish
ElimDupes	N-Glycosite	Sequence Locator
Entropy	PCOORD	SNAP
FindModel	PepMap	SUDI Subtyping
Format Converter	PeptGen	SynchAlign
Gap Strip/Squeeze	PhyloPlace	Translate
GenBank Entry Generation	PhyML	TreeMaker
Gene Cutter	Pixel	TreeRate
Heatmap	Poisson-Fitter	VESPA
Hepitope	Protein Feature Accent	External Tools
Highlighter	Protein Structure

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