Equipe MAB - LIRMM

Information Genomique et Structurale

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PhyML (doc)

1. Overview
2. Data & Settings
3. Results

Datatype:

Auto-select

DNA (nucleotides)

Amino acids

Auto-select treats IUPAC nucleotide symbols as DNA/RNA; other amino-acid symbols select proteins. For ambiguous data, choose the datatype explicitly. The matching substitution model below will be used.

Upload your alignment (FASTA, Phylip, Clustal, EMBL or NEXUS format) from a file:

Or paste it here

Settings

Statistical tests for branch support:

Approximate Likelihood-Ratio Test (aLRT):

Bootstrapping procedure:

Number of bootstraps:

Substitution model:

Substitution model:

Number of rate categories:

Gamma distribution parameter:

Gamma shape parameter:

Proportion of invariable sites:

Proportion of invariable sites:

Transition/transversion ratio:

Transition/transversion ratio:

Equilibrium frequencies:

Rate variation model:

Model selection:

SMS criterion:

Starting tree:

Starting tree file:

Constraint tree:

Constraint tree file:

Optimize tree topology:

Optimize branch lengths:

Add random starting trees

Number of random starting trees:

Transfer bootstrap analysis

Number of transfer bootstrap replicates:

Keep duplicate sequences

Print site likelihood

Infer ancestral sequences

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Do not attach result files

Analysis files are retained for 30 days from submission. Download your results before the expiration date. Retention and deletion.

ATGC — Montpellier Bioinformatics Platform

phylogeny.atgc-montpellier.fr is provided by the ATGC bioinformatics platform.