HIV sequence database

Advanced Consensus Maker

Purpose: Make a consensus, or multiple consensuses of blocks of sequences in an alignment using parameters you specify.

Usage: Browse for your alignment file or paste it into the window, adjust the consensus options, and click "Run". For details about the various options, see Advanced Consensus Maker Explanation.

Input

Paste your alignment [Sample Input]
Or upload your file

Squeeze gaps in input	Yes No Gap character

Output Options

Consensus-making Options

Unanimous value
Majority value
Use most common character	Yes No
Break ties with	IUPAC characters Letters in whole column
When making consensus, consider only these characters	nucleotides amino acids
	Or check here to use any (all) characters

last modified: Thu Jul 19 10:59 2007

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

Index of all tools	ADRA
Branchlength	Codon Alignment
Consensus Maker	ELF
ElimDupes	Entropy
Epilign	FindModel
Format converter	Gap strip/squeeze
Gene Cutter	HDent/HDdist
Heatmap	Hepitope
Highlighter	HIV BLAST
HIValign	Hypermutation
jpHMM at GOBICS	Mosaic Vaccine Tool Suite
Motif Scan	N-Glycosite
ODprep/ODfit	PCOORD
PeptGen	PhyloPlace
Primalign	Protein Feature Accent
Protein structure	Recombinant HIV-1 drawing tool
RIP	SeqPublish
Sequence locator	SNAP
SUDI subtyping	SynchAlign
Translate	Treemaker
External tools

Do consensus for each block	Yes No
Minimum number of sequences for consensus
Make a consensus of consensuses	Yes No
Show both consensus + alignment	Yes No
Show number of sequences in consensus	Yes No
Output format	Pretty Output aligned Like input