- generate_masterseq.py: A master sequence consisting of 1 for the nucleotide position that is conserved across all the genomes and 0 for the nucleotide position that is not conserved is produced for the given alignment using the program. It is possible to generate master sequences from multiple alignment files at once.
- score.py: A frame of given size is moved across the entire length of the master sequence and each instance of frame is given a score between 0 and 100 to represent the level of conservation by counting the number of 1s in that frame. Starting position of every frame between the given threshold is reported in a file conserved.txt
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Conserved Residues from Multisequence Alignment
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