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Files ending with .fna.gz, .gbff.gz, .gff.gz, .faa.gz & gpff.gz

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

assembly sequence
• 36,609 views • link
updated by Michael Dondrup Michael Dondrup • written by Naresh Naresh

1 answer

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.

• 0 views • link
written by Michael Dondrup Michael Dondrup

Thank you for your wonderful explanation. Thanks alot.

• 0 views • link
written by Naresh Naresh

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