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High-resolution annotation of LTR elements

There are quite a few tools that can detect TEs, and specifically LTRs, within a genome. I am looking for a software tool/script/procedure that can provide finer annotation of LTRs: boundaries (coordinates) of the terminal repeats, coding genes within LTRs etc.
Is anyone aware of such a tool?
Alternatively, can you suggest a procedure or relevant publication for obtaining this kind of information?
Thanks!

ltr
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updated by colindaven colindaven • written by liorglic liorglic

2 answers

In case somebody gets here in the future: looks like LTRharvest and LTRdigest from the GenomeTools package does exactly that.

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written by liorglic liorglic

This looks very comprehensive, yet I haven't tried it yet.

https://github.com/DerKevinRiehl/TransposonUltimate

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written by colindaven colindaven

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