interpreting inversions on IGV

interpreting inversions on IGV

1

I just started working with PacBio and Nanopore long reads, after some preliminary QCing I mapped the reads using minimap2. enter image description here

I am looking at the inversions for now and I have igv images for one of my regions. I want to know is it how I should expect to see the inversions on IGV? I do not understand whether the gaps are oK or should I expect the reads below the gaps or should I expect to see them filling the gaps? Thanks for any help interpreting it.


inversion


long-reads


igv

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