Aln is a program for aligning a pair of nucleotide or amino acid sequences or groups of sequences. Aln accepts various combinations of distinct types of inputs: a single nucleotide sequence (SN), a single amino acid sequence (SA), a pre-aligned group of nucleotide sequences (MN), and a group of amino acid sequences (MA). Notably, aln can now perform mixed alignment between a nucleotide sequence and a protein sequence or a group of protein sequences . This novel feature of aln enables us to predict eukaryotic gene structures (protein-coding exons) based on sequence homology with known protein sequence(s). The details of this procedure will be described in a later section entitled ‘Gene-structure prediction’.
- C++ compiler
:: MORE INFORMATION
Gotoh, O. (2000)
” Homology-based gene structure prediction: simplified matching algorithm by the use of translated codon (tron) and improved accuracy by allowing for long gaps.”
Bioinformatics, 16, 190-202.