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My fasta-format sequence file contains lines longer than 511 characters. Do I have to edit it by hand to shorten the lines?

April 26, 2017characters edit fasta-format file hand longer sequence

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My fasta-format sequence file contains lines longer than 511 characters. Do I have to edit it by hand to shorten the lines?

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The GCG program ChopUp can rewrite the file so that all lines are shorter than 511 characters. You can designate a line length with the -length parameter, otherwise the lines will be rewritten to be 50 characters long. Unfortunately, ChopUp can only process one file at a time. % chopup orf1.fa -length=80 Caution: the first (comment) line of a fasta-format file will also be chopped up to the designated length, so either set the length to be longer than the comment line, or edit the file after the chop up so that there is only one comment line.