Finding non ATGCN sequences using python

Question

[AveryB]

I want to search for non sequences in a file, to substitute them.

for file in SeqIO.parse('myfile.fasta', 'r'):
    sequence = re.search('^ATGCN', record.seq)
    output_file=open('files.fasta, 'w+')

Answer 1

[Istvan Albert]

Go to a site like:

https://regex101.com/

to test your regular expressions (select Python as the language). To match characters except ATGCN the pattern would be:

[^ACGTN]

you get quite helpful tips in the sidebar