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Alignment
MUSCLE 
Curation
Gblocks |
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Process Info:
Number of taxa: 6
Average sequences length: 391
(between 371 and 441)
Assumed to be: DNA
Computation:
Alignment: 1 seconds
Curation: 2 seconds
Overall time: 3 seconds
Number of taxa: 6
Average sequences length: 391
(between 371 and 441)
Assumed to be: DNA
Computation:
Alignment: 1 seconds
Curation: 2 seconds
Overall time: 3 seconds
The analysis was performed on the Phylogeny.fr platform and comprised the following steps. |
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Sequences were aligned with MUSCLE (v3.8.31) configured for highest accuracy (MUSCLE with default settings). |
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After alignment, ambiguous regions (i.e. containing gaps and/or poorly aligned) were removed with Gblocks (v0.91b) using the following parameters: -minimum length of a block after gap cleaning: 5 -positions with a gap in less than 50% of the sequences were selected in the final alignment if they were within an appropriate block -all segments with contiguous nonconserved positions bigger than 4 were rejected -minimum number of sequences for a flank position: 55% |
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)
