A new version of phylogeny.fr is available: https://v2.phylogeny.fr/!
Feel free to try it and give us feedbacks ! This is still a beta version and all comments will help us to improve it.
Send your comments to : Phylogeny.fr <phylogeny@igs.cnrs-mrs.fr>
Feel free to try it and give us feedbacks ! This is still a beta version and all comments will help us to improve it.
Send your comments to : Phylogeny.fr <phylogeny@igs.cnrs-mrs.fr>
| "One Click" Mode |
Alignment
MUSCLE 
Curation
Gblocks
Phylogeny
PhyML
Tree Rendering
TreeDyn |
Help  |
Phylogeny results
Figure 1: Phylogenetic tree.
Input:
Outputs:
Tree in Newick format (automatically recognized by MEGA if installed) Statistics fileSubstitution model: WAG
Gamma shape parameter: 3.779
Number of categories: 4
Proportion of invariant: 0.051
Taxon names association table
| Output Taxon Name | Original (Long) Taxon Name | |
|---|---|---|
| A5FNY2.1_4-171_RecName_Full=Shikimate_kinase_Short=SK_Flavobacte | A5FNY2.1:4-171_RecName:_Full=Shikimate_kinase;_Short=SK_[Flavobacterium_johnson | (Newick) |
| A6GZJ6.1_4-171_RecName_Full=Shikimate_kinase_Short=SK_Flavobacte | A6GZJ6.1:4-171_RecName:_Full=Shikimate_kinase;_Short=SK_[Flavobacterium_psychro | (Newick) |
| A6L011.1_2-175_RecName_Full=Shikimate_kinase_Short=SK_Phocaeicol | A6L011.1:2-175_RecName:_Full=Shikimate_kinase;_Short=SK_[Phocaeicola_vulgatus_A | (Newick) |
| A6LFQ8.1_4-173_RecName_Full=Shikimate_kinase_Short=SK_Parabacter | A6LFQ8.1:4-173_RecName:_Full=Shikimate_kinase;_Short=SK_[Parabacteroides_distas | (Newick) |
| Q8A2B2.1_4-155_RecName_Full=Shikimate_kinase_Short=SK_Bacteroide | Q8A2B2.1:4-155_RecName:_Full=Shikimate_kinase;_Short=SK_[Bacteroides_thetaiotao | (Newick) |
Download taxon names association tableTree viewer:
(requires Java 1.6 or above)
Please cite:
- Dereeper A., Audic S., Claverie J.M., Blanc G. BLAST-EXPLORER helps you building datasets for phylogenetic analysis. BMC Evol Biol. 2010 Jan 12;10:8. (PubMed)
- Dereeper A.*, Guignon V.*, Blanc G., Audic S., Buffet S., Chevenet F., Dufayard J.F., Guindon S., Lefort V., Lescot M., Claverie J.M., Gascuel O. Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W465-9. Epub 2008 Apr 19. (PubMed) *: joint first authors
- Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 2004, Mar 19;32(5):1792-7. (PubMed)
- Castresana J. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol. 2000, Apr;17(4):540-52. (PubMed)
- Guindon S., Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol. 2003, Oct;52(5):696-704. (PubMed)
- Anisimova M., Gascuel O. Approximate likelihood ratio test for branchs: A fast, accurate and powerful alternative. Syst Biol. 2006, Aug;55(4):539-52. (PubMed)
