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Phylogeny results
Figure 1: Phylogenetic tree.
Input:
Outputs:
Tree in Newick format (automatically recognized by MEGA if installed) Statistics fileSubstitution model: HKY85
Gamma shape parameter: 2.378
Transition/transversion ratio: 3.133
Number of categories: 4
Proportion of invariant: 0.428
Taxon names association table
| Output Taxon Name | Original (Long) Taxon Name | |
|---|---|---|
| NC_000932.1_54958-56397_rbcL_organism=Arabidopsis_thaliana_GeneI | NC_000932.1:54958-56397_rbcL_[organism=Arabidopsis_thaliana]_[GeneID=844754]_[c | (Newick) |
| NC_001675.1_c92774-91347_rbcL_organism=Cyanophora_paradoxa_GeneI | NC_001675.1:c92774-91347_rbcL_[organism=Cyanophora_paradoxa]_[GeneID=801657]_[c | (Newick) |
| NC_004766.1_51894-53321_rbcL_organism=Adiantum_capillus-veneris | NC_004766.1:51894-53321_rbcL_[organism=Adiantum_capillus-veneris]_[GeneID=80734 | (Newick) |
| NC_005353.1_c123917-122490_rbcL_organism=Chlamydomonas_reinhardt | NC_005353.1:c123917-122490_rbcL_[organism=Chlamydomonas_reinhardtii]_[GeneID=27 | (Newick) |
| NC_021440.1_c45170-43743_rbcL_organism=Pinus_taeda_GeneID=158245 | NC_021440.1:c45170-43743_rbcL_[organism=Pinus_taeda]_[GeneID=15824524]_[chromos | (Newick) |
| NC_037465.1_c25865-24438_rbcL_organism=Physcomitrium_patens_Gene | NC_037465.1:c25865-24438_rbcL_[organism=Physcomitrium_patens]_[GeneID=36487139] | (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)
