Surely a sequence analysis tools are the easiest way to do it.
I'd recommend EMBOSS (open source and runs nicely on most platforms - the
"ccp4" of sequence analysis for me at least)
http://emboss.sourceforge.net/
Seqret (SEQuence RETurn) program:
seqret -out test.seq -osformat gcg test.fasta
Marko
PS. fasta format needs ">" as a first line with (optional) description in
the input file. And not sure what amino acids "b" and "j" would get
converted to :-)
On Tue, 8 May 2012, Francois Berenger wrote:
More seriously, there is the babel command from Open Babel
in case the second format you show has a known name.
On 05/08/2012 04:46 PM, Francois Berenger wrote:
Hello,
The tool is called awk.
There is also another tool called Perl, but I won't recommend it.
Regards,
F.
On 05/08/2012 04:02 PM, K Singh wrote:
Dear All
I was looking for a script or an informatics tool enabling me to
change the sequence from FASTA format to something like following:
FASTA FORMAT
abcdefghijklmnopqrstuvwxyz
to
1 abcde fghij
11 klmno pqrst
21 uvwxy z
Many thanks in advance
Regards
Kris
_____________________________________
Marko Hyvonen
Department of Biochemistry, University of Cambridge
ma...@cryst.bioc.cam.ac.uk
http://www-cryst.bioc.cam.ac.uk/groups/hyvonen
tel: +44-(0)1223-766 044
mobile: +44-(0)7796-174 877
fax: +44-(0)1223-766 002
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