Within each generation for both kākapō lineages, the mean number of SVs observed among the six datasets differs (Figure 5, Supplemental Figure 4). With the exception of F0 for the Fiordland lineage, Smoove consistently detects the most SVs, followed by Manta - Batch, Manta - Joint, Sniffles, CuteSV, and Delly in that order. Generational trends also vary. For example, the mean number of SVs per generation for the Fiordland lineage slightly increase in the Smoove dataset, remain consistent in the CuteSV dataset, and decrease in the Delly and both Manta datasets. For the Rakiura lineage birds, the mean number of SVs is largely consistent in the CuteSV, Sniffles and both Manta datasets, but there is an upward trend in the Delly and Smoove datasets.