What does the black lines mean in the IGV track

Question

[yliueagle]

I am wondering what do the pieces of black lines between the coverage and reads mean? Thanks if anybody knows

[cmdcolin]

looks like a rendering glitch maybe? sometimes insertions are shown in that area (purple triangles)

Answer 1

[morovatunc]

Hi. They are this.

Found it on --> https://software.broadinstitute.org/software/igv/AlignmentData

Downsampled reads areas are marked with a black rectangle just under the coverage track. The coverage track represents coverage for all the reads.

If you wanna get rid of the, go to preferences and turn off downsampling.

[yliueagle]

Thanks for pointing out!

Answer 2

[Pierre Lindenbaum]

https://software.broadinstitute.org/software/igv/ToolBar

Shows/hides a vertical ruler line that follows the cursor in the data panels.

[yliueagle]

No I do not mean the vertical cursor bar, but the horizontal black segments right between the reads and the coverage track.