what means the symbol =?

[Louis Viollet]

Hi

I have a question regarding a symbol used in the UCSC genome browser.

I want to know the conservation of a nucleotide in an intronic region.

I seems to be con ?served in primates but for the other species, it is indicated the symbol =

What means =? does it mean that is has not been studied?

Thank you for your help

Best regards

Louis Viollet

EIHG

Salt Lake City Utah

[Christopher Lee]

Hi Louis,

Thank you for your question about the meaning of the "=" in the conservation track.
For a description of the various symbols used in the conservation track please see
the following page:
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg38&c=chr9&g=cons100way#TRACK_HTML

If you scroll down to the section titled "Display Conventions and Configurations"
and find the sub-section "Gap Annotation", you will find the explanation for the
double line:

"Double line: Aligning species has one or more unalignable bases in the gap region.
Possibly due to excessive evolutionary distance between species or independent indels
in the region between the aligned blocks in both species. "

Thank you again for your inquiry and using the UCSC Genome Browser.
If you have any further questions, please reply to gen...@soe.ucsc.edu.
All messages sent to that address are archived on a publicly-accessible
forum. If your question includes sensitive data, you may send it instead
to genom...@soe.ucsc.edu.

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