Hi,
I your manual about annotation files you describe:
http://www.jalview.org/help/oldhelp/html/features/annotationsFormat.html
...
You can associate an annotation with a sequence by preceding its definition
with the line:
SEQUENCE_REF seq_name [startIndex]
...
I wonder what the exact format of seq_name is:
Image I get a fasta file like this:
> db|183474|my_pet_protein
Do I have to put in the full id or are other variations ok?
SEQUENCE_REF db|183474|my_pet_protein 1
SEQUENCE_REF 183474 1
SEQUENCE_REF my_pet_protein 1
Background: Since most often accession numbers don’t tell you the species name,
I would like to add the species info to the sequence name to quickly spot the
organism. e.g. my_pet_protein|Escherichia_coli. But then, I would need to
change the annotation file seq_name if I can’t use a shorthand…
Thanks
Steffen_______________________________________________
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