Suppose, we want to interpret FASTA file as multiple alignment. To do this, select a single or several sequence objects in the Project View window, click right mouse button to open the context menu and select the Export ‣ Export sequences as alignment item:
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The Export Sequences as Alignment dialog will appear where you can point the result alignment file location, to select a multiple alignment file format, to use Genbank “SOURCE” tags as a name of sequences for Genbank sequences and optionally add the created document to the current project:
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