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Update faq.md
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stephan-fuchs authored Sep 2, 2023
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**Q: Why does `covSonar2`, by default, display inserted N (stretches) in the genomic profile?**

**A:** In `covSonar2`, the default inclusion of inserted N or N stretches in the genomic profile stems from the recognition that these stretches hold informative value. Unlike uniformative mutations (N SNPs), inserted N (stretche)s provide information about the inserted sequence's specific length. This rationale sets the stage for a distinction from `covSonar`'s approach, where only N SNPs are hidden from the default profile due to their uninformative nature.
**A:** In `covSonar2`, the default inclusion of inserted N base or N stretch in the genomic profile stems from the recognition that these stretches hold informative value. Unlike uniformative mutations (N SNPs), inserted N (stretches) provide information about the inserted sequence's specific length. This rationale sets the stage for a distinction from `covSonar`'s approach, where only N SNPs are hidden from the default profile due to their uninformative nature.

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