Hi BrowserUk,

Thanks for your query. In fact I have come across a good research paper on genetics where the authors have changed one synonymous codon with another at a particular position i.e. they want to keep the same amino acid sequence in the polypeptide chain but have generated the Maximal Entropy Distribution from a set of sequences obtained by reshuffling the primary coding sequence. These sequences have been used to find the motifs in coding sequence of genes. To generate those set of sequences, I need to take help of a perl script. Actually there will be 20 major groups (i.e. 20 amino acids) and each group will have synonymous number of codons (except methionine & tryptophan). The authors have indicated that this kind of genetic study might be useful in improving the HIV vaccine. That is why I am interested to generate the set of sequences and learn it for the benefit of the students of our department. This is just out of my curiosity.

Ref Paper:

Harlan Robins,Michael Krasnitz and Arnold J Levine. 2008. The Computational Detection of Functional Nucleotide Sequence Motifs in the Coding Regions of Organisms. Experimental Biology & Medicine 233:665-673. (Open Access)

In reply to Re^2: How can one generate all possible combinations with reference to string positions? by supriyoch_2008
in thread How can one generate all possible combinations with reference to string positions? by supriyoch_2008

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