How To Obtain The Nucleotide Sequences Instead Of Amino Acid From The Getorf Output Of Emboss

Question

[figo]

Hi All

I was running the getorf on nucleotide sequences to find the ORF. In the output I get the amino acid sequences of the ORF. Can any one tell me how I can fetch the nucleotide sequences instead of amino acid for ORF as output.

Best regards

Answer 1

[Damian Kao]

The -find parameter lets you choose nucleotide or protein output. Default is 0. Here are the possible options:

  0 (Translation of regions between STOP codons)
  1 (Translation of regions between START and STOP codons)
  2 (Nucleic sequences between STOP codons
  3 (Nucleic sequences between START and STOP codons)
  4 (Nucleotides flanking START codons)
  5 (Nucleotides flanking initial STOP codons)
  6 (Nucleotides flanking ending STOP codons))

[figo]

thanks ... I think didn't see the options correctly .