Dotplot gets confused when there are overlapping displayed regions

[cmdcolin]

We could (a) solve this so it handles overlapping regions or (b) try to ensure non-overlapping displayed regions

It might be some combination of those

[cmdcolin]

possible fix here

The "spikes" in the screenshot are real and are weird large insertions before the end of the reads

https://github.com/GMOD/jbrowse-components/tree/dotplot_fixes

11,175282,-,1077S1273M102I7419S,1,324;
11,175280,-,1532S1262M226I6851S,16,424;
20,62918054,+,8498S801M13D572S,10,235;
11,175282,-,2312S1261M290I6008S,30,554;
X,410075,-,3S93M2I9773S,1,10;

[cmdcolin]

This may be more common when there are CNV

ref this cool screenshot from sv hackathon https://twitter.com/infoecho/status/1316458324565528576/photo/1

[cmdcolin]

Some work on this was added in #2198
It merges overlapping regions to create a more seamless view.