oushujun
commented
1 month ago Nested insertions are prevalent. You may use TEtrimmer to curate them.
Shujun
On Fri, Jul 26, 2024 at 5:24 AM porkfan @.***> wrote:
Hello Dr. Ou! I have a transposable element (TE) that was annotated using RepeatModeler, resulting in a complete 3.5kb CACTA_TIR_transposon. However, using the EDTA2 and the latest panEDTA pipeline, the annotation resulted in a 3kb Mutator-type transposon plus a 900bp Mutator_TIR_transposon. According to previous reports, there is mention of a 3.6kb CACTA-type transposon, but there has been no mention of the existence of a Mutator. Should I consider this as an annotation error or a new discovery (a Mutator inserted into the CACTA transposon)?
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porkfan
Hello Dr. Ou! I have a transposable element (TE) that was annotated using RepeatModeler, resulting in a complete 3.5kb CACTA_TIR_transposon. However, using the EDTA2 and the latest panEDTA pipeline, the annotation resulted in a 3kb Mutator-type transposon plus a 900bp Mutator_TIR_transposon. According to previous reports, there is mention of a 3.6kb CACTA-type transposon, but there has been no mention of the existence of a Mutator. Should I consider this as an annotation error or a new discovery (a Mutator inserted into the CACTA transposon)?