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Question: Files ending with .fna.gz, .gbff.gz, .gff.gz, .faa.gz & gpff.gz
1
gravatar for Naresh
4.5 years ago by
Naresh • 60
Korea, Republic Of
Naresh • 60 wrote:

Hi, What you mean by

  1. genomic .fna.gz
  2. genomic .gbff.gz
  3. genomic .gff.gz
  4. protein .faa.gz - protein sequences
  5. protein .gpff.gz

I tried to know for others, but i could not get any results.

Please guide me

Thanks Naresh
sequence assembly • 16k views
ADD COMMENT • link •
modified 4.5 years ago by Michael Dondrup ♦ 48k • written 4.5 years ago by Naresh • 60
6
gravatar for Michael Dondrup
4.5 years ago by
Michael Dondrup ♦ 48k
Bergen, Norway
Michael Dondrup ♦ 48k wrote:

All files are text files, compressed using the linux/unix program gzip, use gunzip, to extract, zcat to write the content without saving it to a file.

The following are conventions, which a lot of people, not all, follow:

  • fna = FastA format file containing Nucleotide sequence (DNA)
  • gbff = Genbank Genome file containing genome sequence and annotation
  • gff = general feature format containing genomic regions, the "genes, transcripts, etc"
  • faa = FastA format file containing Amino-acid sequence (Protein, peptide)
  • gpff = Genbank Protein file containing protein sequence and annotation

See https://www.ncbi.nlm.nih.gov/genome/doc/ftpfaq/ for more explanation.
ADD COMMENT • link written 4.5 years ago by Michael Dondrup ♦ 48k

Thank you for your wonderful explanation. Thanks alot.

ADD REPLY • link written 4.5 years ago by Naresh • 60
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