Exploring the Discrepancies between TEanno.gff3 and TElib.fa

[khjia]

Hi, I am using EDTA version 1.9.9, and the command I executed is: perl ~/bin/EDTA/EDTA.pl --genome *.fa --overwrite 0 --sensitive 1 --anno 1 --threads 24. The program runs normally and I got the correct output results. However, I noticed a discrepancy in the annotation between the genome.fasta.mod.EDTA.TEanno.gff3 and genome.fasta.mod.EDTA.TElib.fa files. For instance, in the gff3 file, I annotated MITE type TE, but these are not present in the TElib.fa file. I am wondering why this is happening. Can you help me with this issue?

Best wishes, Kai-Hua