Fig. 5: TEtrimmer provides a graphical user interface (GUI) to inspect and improve discovered TEs.

Four files are associated with each consensus sequence (see main text for further details). All files are grouped when their corresponding consensus sequences have >90% identity (Cluster). Users can inspect each result by selecting the corresponding file name. TE sequences in the MSA can be extended by activating the Extend button. The TEAid button helps to generate the interactive report plot (Supplementary Fig. 4). The buttons CropDiv, CropGap, and CleanCol relate to the MSA cleaning functions crop_end_by_divergence, crop_end_by_gap, and remove_gap_columns, respectively. The button Cons can be used to generate a consensus sequence based on the corresponding MSA.