[Genome] Hello UCSC Genome browser staff

[ארז ליבנה]

Hello UCSC Genome browser staff,

First of all,
thank you for the excellent genome browser, it is very useful.

I am involved in a mouse genome research and wish to analyse a large
quantity of DNA sequences automatically based on you browser. To this aim, I
am composing a software that parses information from USCS browser to a
spreadsheet.
I have a few questions:

1. Is there a textual output for the browser? parsing is much easier from
text than from graphical displays.

Also,
I am having difficulties getting some of the information textually:

2. If my sequence falls within a gene, on what (number) exon/intron does it
fall?

3. What is the directionality of the adjacent gene/s to my sequence?

4. If my sequence falls within a repeat, how do I know on which type of
repeat: LINE, SINE or LTR.


Thank you in advance,
Erez Livneh
Hebrew University