Supplemental Material for Dyson et al., 2022

Description of file contents: predicted_genes_trnas_merged.gff: Contains the merged prediction of Braker 2 and tRNAscan-SE in GFF3 format augustus.hints.codingseq: Contains nucleotide sequences of protein-coding genes predicted by Braker 2 augustus.hints.aa: Contains amino acid sequences of protein-coding genes predicted by Braker 2 GBL_genome_assembly.fasta: Contains the unmasked draft genome assembly of H. charlesbogerti GBL_genome_assembly.fasta.combined.masked: Contains the softmasked draft genome assembly of H. charlesbogerti. De-novo masking was performed using RepeatModeler & RepeatMasker and TRF for the masking of tandem repeats with large periods. augustus.hints.aa.cleaned.tsv: Contains functional annotations of protein-coding genes predicted by Braker 2. Functional annotation was done with InterProScan summary_dnds.tab: dN/dS for all branches in the tree comprising H. charlesbogerti, V. komodoensis, A. carolinensis, D. gracilis. The suffix "_neutral" refers to a simple model that calculates one dN/dS for the entire tree and the suffix "_selection" refers to a more complex model that calculates one dN/dS for each branch in the tree. venom_alignments_hmmer_dnds.tab: Contains a list of protein-coding genes annotated by Braker 2 that show significant similarity to known Heloderma or Viper venoms. Homology search was done with hmmscan and dN/dS ratios for putative venom genes in the GBL were added from previous analysis if available.