Plot of the divergences according to the size ratio. The divergence (column %_Div in files *.transposons.csv and *.ltr.csv) of sequences has been plotted against the size ratio of the copy compared to the reference element (column %_of_Ref in files *.transposons.csv and *.ltr.csv) given for each superfamily of LTR-retrotransposons (upper left panel), non-LTR-retrotransposons (lower left panel), and DNA transposons (right panel). Each point corresponds to a copy. Copies with a divergence close to 0 and ratio close to 1 correspond to potentially active and full-length copies. As the divergence increases and ratio decreases, corresponding copies are more degraded. LINE, long interspersed nuclear element; LTR, long terminal repeat.