Mauve File Format

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7.2 years ago

trionanibrannacht • 0

Hi everyone,

I recently downloaded mauve and I'm having trouble trying to upload GenBank files. I understand mauve only accepts GenBank files in .gbk format. However when I download my desired sequences from the ncbi website they are in .gb format. I've tried running the .gb files but I keep getting an error. Is there some way I could convert the files to .gbk?

Thanks for any replies in advance!

ncbi gb mauve gbk • 3.9k views

ADD COMMENT • link updated 21 months ago by Ram 44k • written 7.2 years ago by trionanibrannacht • 0

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Can you post the exact error?

ADD REPLY • link 7.2 years ago by GenoMax 148k

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Try renaming your files to .gbk. I remember having no problems to align complete genomes in NCBI genbank files and my draft fastas.

Which version of Mauve? What exactly are you trying to do?

ADD REPLY • link 7.2 years ago by h.mon 35k

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I've tried to rename the files but unfortunately, this is not working.

I'm using Mauve 20150226 which I downloaded from here http://darlinglab.org/mauve/download.html. I'm trying to align two strains of synechcocystis to detect SNP's and I was hoping using GenBank files would provide more context to the alignment than fasta.

ADD REPLY • link 7.2 years ago by trionanibrannacht • 0

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Make sure you have Genbank (full) files, which contain the full sequence at the end of the file. Non “full” Genbanks just contain feature information and won’t work.

You’ll need to past the exact error for us to be able to help you much further.

ADD REPLY • link 7.2 years ago by Joe 21k

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