[Bioperl-l] automation of translation based on alignment

Ross KK Leung ross at cuhk.edu.hk
Sat Mar 20 19:55:35 EDT 2010

Dear bioperl users,

I am working on virus sequences and one of the Genbank file is here:




with 1000 such nucleotide sequences, I'd like to translate the corresponding
protein coding sequences. The difficulties lie in:


1)      The genome sequence is circular

2)      The genes are overlapping


I don't have all the 1000 Genbank files but I plan to use the above guide
one to direct the automation process. Has bioperl implemented specialized
functions to handle this kind of problem?


Thanks a lot for your advice, Ross 

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