Entering edit mode
4.1 years ago
DNAngel ▴ 240
I have many multiple sequence alignments containing protein-coding genes aligned by codons and I want to generate pairwise similarity tables between each pair of sequences. I know Geneious used to do this but I no longer have it on trial nor can I afford to buy it.
This previous thread may help:
Make matrix of protein pairwise identities/similarities from multiple protein sequences
I don't know what the
Geneiousoutput looked like but you could also look at Plotting sequence similarity/identity of a multiple sequence alignment (and
infoalignprogram from EMBOSS).