Is this phasing result normal?
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9 weeks ago
njornet ▴ 20

I'm trying to phase a human sample and I'm getting the following separation of reads in the two haplotypes:

enter image description here

Haplotype 1 (the bottom one) looks great with the big insertion (~160 bp) and variants and all. But haplotype 2 (the top one) doesn't seem as consistent with all the different insertions, there are only a couple variants shared between all the reads. Is this a normal phasing result? Also there are A LOT of variants in haplotype 1 and not all that much in haplotype 2.

The phasing was done using three variants, I don't have much depth in this run, so I was only able to find this regions with variants with enough depth for haplotyping.

haplotyping sequencing phasing nanopore • 230 views
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