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Protein Nucleotide Clone
  • AcetoBase reference nucleotide clustering at 80 % threshold:  vsearch --id 0.80 --cluster_fast AcetoBase_NN.fasta --centroids AcetoBase_NN80.fasta
  • Multiple sequence alignment:  famsa -v -t 8 -gt upgma AcetoBase_NN80.fasta AcetoBase_NN80.aln
  • Phylogenetic tree:  fasttreeMP -nt -fastest -quote AcetoBase_NN80.aln > AcetoBase_NN80.tree
  • Phylogenetic tree tip count:  3941
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