a & b. Sequencing statistics for two sequencing pools (SP and S4) of 90 specimens of two bumblebee species: (a) Bombus lapidarius (n = 46) and (b) Bombus pascuorum (n = 44).

Bumblebee specimens were sampled between 2017 and 2022 from various locations in Norway, Germany, Denmark and Sweden. Libraries for both pools were generated simultaneously. The SP pool was cleaned up with a 0.6 DNA/bead ratio and was sequenced on an Illumina Novaseq SP flowcell. The S4 pool was cleaned up using a double-sided size selection protocol, with a 0.5 DNA/bead ratio clean-up followed by a 0.65 DNA/bead ratio clean-up (twice) and was sequenced on ¼ Illumina Novaseq S4 flowcell. Statistics presented for each sequencing pool are specimen ID, number of reads, collapsed reads (proportion), clonality (proportion), endogenous DNA (proportion), nuclear coverage (fold), and read length (bp). Also presented is combined per-specimen coverage of both sequencing runs.