A new version of phylogeny.fr is available: https://www.phylogeny.fr/!
| "A la Carte" Mode |
Alignment
T-Coffee 
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: 2.514
Number of categories: 4
Proportion of invariant: 0.163
Taxon names association table
| Output Taxon Name | Original (Long) Taxon Name | |
|---|---|---|
| YP_003858584.1_spike_protein_Bat_coronavirus_BM48-31/BGR/2008 | YP_003858584.1 spike protein [Bat coronavirus BM48-31/BGR/2008] | (Newick) |
| YP_005454245.1_spike_protein_Rabbit_coronavirus_HKU14 | YP_005454245.1 spike protein [Rabbit coronavirus HKU14] | (Newick) |
| YP_009047204.1_spike_protein_Middle_East_respiratory_syndrome-re | YP_009047204.1 spike protein [Middle East respiratory syndrome-related coronavirus] | (Newick) |
| YP_009072440.1_spike_protein_Bat_Hp-betacoronavirus/Zhejiang2013 | YP_009072440.1 spike protein [Bat Hp-betacoronavirus/Zhejiang2013] | (Newick) |
| YP_009273005.1_spike_protein_Rousettus_bat_coronavirus | YP_009273005.1 spike protein [Rousettus bat coronavirus] | (Newick) |
| YP_009361857.1_spike_protein_Bat_coronavirus | YP_009361857.1 spike protein [Bat coronavirus] | (Newick) |
| YP_009724390.1_surface_glycoprotein_Severe_acute_respiratory_syn | YP_009724390.1 surface glycoprotein [Severe acute respiratory syndrome coronavirus 2] | (Newick) |
| YP_009755834.1_spike_glycoprotein_Rodent_coronavirus | YP_009755834.1 spike glycoprotein [Rodent coronavirus] | (Newick) |
| YP_009824990.1_spike_protein_Bat_coronavirus | YP_009824990.1 spike protein [Bat coronavirus] | (Newick) |
| YP_009825051.1_spike_glycoprotein_SARS_coronavirus_Tor2 | YP_009825051.1 spike glycoprotein [SARS coronavirus Tor2] | (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
- Notredame C., Higgins DG., Heringa J. T-Coffee: A novel method for fast and accurate multiple sequence alignment. J Mol Biol. 2000, Sep 8;302(1):205-17. (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)
