[EMBOSS] showfeat troubles

Peter Rice pmr at ebi.ac.uk
Tue Oct 31 15:55:49 UTC 2006

Hi Shrish,

Shrish Tiwari wrote:
> Hi!
> I used the following command to extract only positions of CDS from gbk files:
> showfeat -pos -matchtype CDS -width 0
> But I noticed that the program does not extract positions of CDS that lie on the complementary strand, e.g. CDS             complement(5683..6459) did not show up in the resultant file. Any ideas on how I can get showfeat to extract these positions too.

It worked for me, but reports these as 5683..6469 (without -width 0 it will show 
the arrow in the reverse direction)

Can you try running entret on the same genbank entry, and sending the output 
file to emboss-bug at emboss.open-bio.org so we can take a look at it.


Peter Rice

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