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a Multiple sequence alignment of the nucleotide sequence of rice OXOs showing the 5' UTR region.
Alignment of the nucleotide sequence of defective clones permitted assignment of single dominant amino acid residues for binding to each monoclonal antibody.
The alignment of the nucleotide sequences was carried out using MAFFT v6 [35].
An alignment of the nucleotide sequence of the human nPTB ORF and the codon optimised nPTB* is shown in Supplementary data.
Conservation of the alignment of the nucleotide sequences at the 5' ends of the longest open reading frames was used to identify the putative start codons.
Alignments were visually checked for accuracy and used as a guide for the alignment of the nucleotide sequences for evolutionary analyses.
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These include the monophyletic bacterial FtsZ and eukaryotic α,β,γ tubulin branches, 3 major archaeal clades, and distinct branches for the RepX and TubZ families, suggesting that the alignment of the nucleotide-binding domains contains sufficient information for phylogenetic inference.
Full alignment of the nucleotides of Taenia mtDNAs and sliding window analysis suggests numerous alternative gene regions are likely to capture greater nucleotide variation than those currently pursued as molecular markers.
Multiple alignments of the nucleotide sequences were generated using the program CLUSTAL W [ 60].
The alignments of the nucleotide sequences of the repeat units and the consensus sequence are shown in Fig. 4.
Multiple alignments of the nucleotide sequences of the seven housekeeping fragment genes and for all taxa were performed using ClustalW.
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