Fig 1.
Dashed lines indicate optional routes and analyses.
Fig 2.
Sister branch positions on the phylogenetic tree.
Table 1.
Detection table whether the gene tested is an HGT candidate.
Fig 3.
Each neighbouring gene contributes to the score based on its classification getting a value described in the top left panel. In the example, the score is equal to 0.34, most likely indicating an HGT insertion. Overall, a score above 0 indicates an HGT insertion, while a score below 0 indicates a possible contamination or HGT rich region.
Fig 4.
Sensitivity, precision, and F1 score calculations.
Sensitivity, Precision, and F1 Score were calculated for Alien Index (AI) up to 40 for the proteins of the tardigrade Hypsibius exemplaris. The dashed line indicates the AI with the highest F1 score indicating the most accurate AI threshold.