[Biopython] align single sequence to MSA

[Frank Kauff]

Hi,

Yes, clustal can do this easily. If I remember correctly the command 
line should be something like

clustalw -sequences -profile1=mas_file.fas -profile2=new_sequences.fas

Frank


On 09/12/2011 03:00 AM, Nasos Dousis wrote:
> Hello,
>
> First, thank you to everyone who has contributed to the BioPython
> codebase and to the mailing list.
>
> I have a FASTA sequence, and I'd like to find the optimal alignment of
> that sequence to an MSA.  I don't want to alter the MSA-- I just want
> to map the single sequence onto the MSA.  Is there a simple way to do
> this by ClustalW or MUSCLE?
>
> Thanks,
> Nasos
> _______________________________________________
> Biopython mailing list  -  Biopython at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/biopython
>