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Old 01-12-2012, 09:14 AM   #1
kasthuri
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Default Black line between two reads in IGV

It will be great if somebody can enlighten me on what does a black line between two consecutive reads in IGV, represent? I am attaching a pic. I tried searching but couldn't find any info.

Thanks
-Kasthuri
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File Type: png Screen shot 2012-01-12 at 1.07.52 PM.png (6.9 KB, 41 views)

Last edited by kasthuri; 01-12-2012 at 09:42 AM. Reason: Included "consecutive"
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Old 01-12-2012, 09:49 AM   #2
swbarnes2
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That's a deletion in those reads relative to the reference.
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Old 01-12-2012, 10:48 AM   #3
kasthuri
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Thanks! I don't think they have this info in the IGV documentation.
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Old 01-13-2012, 05:32 AM   #4
Jim Robinson
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You're both correct, we'll update our documentation, thanks for pointing this out. That is a single read with a deletion, not 2 reads.

Jim
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