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Snpeff for predicting snp effect

I was using Snpeff for predicting the effect of the snps found in bacterial genomes. there are actually 967 snps annotated by the snpeff, as seen from the annotated vcf file in the output. But in the summary html file generated, it's seen that the total number of snps are 969. How can this happen? Is it due to any error in the tool?

snp snpeff
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written by manjumoorthy95 • manjumoorthy95

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