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Suppose we set a maximum sequencing error rate (platform dependant) of 4%, and the reads are 100 bp long. Read 3 has 1 base (T), which is different from the consensus (A), hence, Read 3 has 1 mistake out of 100 bases (i.e. error rate = 1%) and we keep Read 3. On the other hand, Read 1 has 5 mistakes out of 100 bases (i.e. error rate = 5%); this is higher than our maximum accepted error rate, and we remove Read 1.
