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Variable Sites in Alignment using Python

from Bio import AlignIO
from Bio.Seq import Seq
from Bio.Align import MultipleSeqAlignment
from Bio.SeqRecord import SeqRecord

counter = 0
Sitesofvariation = []

for i in range(0,len(alig[0])):
        s = alig[:,i]
        if s == len(s) * s[0]:
            counter += 1
            Sitesofvariation.append(i+1)

Will this work to help me find the sites of variation in my genome alignment?



source https://stackoverflow.com/questions/74965637/variable-sites-in-alignment-using-python

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