[EMBOSS] extractfeat problem with complement() in CDS

[Anne Pajon]

Dear,

I have an embl file containing these lines

FT   CDS             complement(2232788..2233492)
FT                   /systematic_id="SARLGA251_20000"

when I use

extractfeat -sequence embl::LGA251_reduced.embl -type CDS

on emboss version 6.1, the output contains these lines for the  
corresponding CDS:

 >SARLGA251_2232788_2233492 [CDS]
t

and on emboss version 6.0, the output contains these lines:

 >SARLGA251_2232788_2233492 [CDS]
atggctagtgttttatatcaacatggtacattaggcacattaatggcaggtttattaaaa
ggaactgcatcaataaatgaattattgcaacatggtgatttaggtatcgctacactaaca
ggttcaaatggtgaggtcatctttttagatggaaaagcctatcatgcaaatgaacataaa
gaatttgtggaattaaaaggtgatgagttaacaccatatgcaactgtaactaaatttgta
gcagatacaagctatgaaacgaaagataaatcttctgaagcagtttttgcagaaattaag
gaaaagatgttgagtgaaaatttattttctgcagtaaaaatttcaggtgtgtttaaaaaa
atgcatgtacgtatgatgccggcacaagagccaccttatacacgtttaattgattcagct
agaagacaacctgaacaaactgaaacatacgtcaaaggttcagtcgttgggttctttaca
ccagaactattccatggtatcgggtcagcaggattccatgtacactttgcaaatgatgat
cgtaactttggtggacatgtcttagattttgaagtagaagatgttaaggtagaaatccaa
aatatagaaacatttgaacagcattttccaattcaagatgaagatttcataaatgcaaat
attgactataaagatattgcagacgaaattagagaagctgaataa

Does anyone know why it is not extracting the correct sequence for the  
CDS features with the latest version of emboss? I am running it on Mac  
OSX and I've installed it with fink.

Thanks in advance for your help.
Kind regards,
Anne.

--
Dr Anne Pajon - Pathogen Genomics
Sanger Institute, Wellcome Trust Genome Campus, Hinxton
Cambridge CB10 1SA, United Kingdom
+44 (0)1223 494 798 (office) | +44 (0)7958 511 353 (mobile)



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