3.1 Sequence data and recovery
On average, 32.98% of reads were mapped to target regions, ranging from 14.88% to 66.83%. The sequence length recovery rate, relative to gene lengths in the ”mega353” target file, averaged 80.56%, ranging from 25.55% to 86.52% (Suppl. Table 3). Sample 21B61 was removed from analysis due to the absence of gene recovery. Sample Z4 had a notably low recovery rate of 25.55%, the lowest among A. cantabrica samples (Suppl. Table 3). This sample was temporarily retained to assess the impact of low-recovery samples and variation in recovery rates on variant calling and population genetic analyses. The average plastid sequence length recovery rate was 92.03%, ranging from 60.69% to 98.64%, excluding herbarium samples (Suppl. Table 4).