One or more sequences can be obtained from a filename or variable or provided as a literal sequence. Sequence variables always start with a dollar sign ($).

Objective Expression Examples Comments
Write any sequence expression to a sequence file filename=sequence_expression myfile.fasta=$b Causes output to be written to the specified file, in a format determined by the specified file’s extension. If you use the = expression and the filename already exists, you will be asked whether you wish to overwrite it. Appending is supported via the += expression (see next row).
Append data to an existing sequence file filename+=sequence_expression myfile.fasta+=$b This adds data to an existing file rather than overwriting the existing data.
Convert to another format sequence_setA=sequence_setB
Convert a set into a data file
Assign a sequence expression to a variable Simple filenames $a=myfile.fasta Double quotes are necessary for filenames that include characters other than A-Z, a-z, 0-9, the underscore, or ‘.’ after the first character.
Filename with spaces $b="my filename.fasta"
Filename with slashes $c="C:\data\MG1655-e-coli-k-12substrands.fasta"
Unicode filename $d="Мое имя файла.fasta"
Filename with diacritic mark $e="ma séquence.fasta"
Assign a variable or filename to a literal sequence "sequence" $f="ACGT" Where a sequence expression might occur, double quoted string literals are interpreted as either sequence literals or sequence filenames, depending on whether they contain characters outside A-Z and a-z.
sequence_set="sequence" alpha.fasta="ACGT"

Need more help with this?

Thanks for your feedback.