Extended Data 2: tRNA phylogeny of trypanosomatids

To define the origin of stop codon suppressor tRNAs in Blastocrithidia nonstop, all tRNA sequences from trypanosomatid genomes were aligned using MAFFT v7.458 (Katoh and Standley 2013), and the resulting alignment was subjected to phylogenetic analysis. Maximum likelihood analysis was performed in IQTREE v1.4.1 (Nguyen et al., 2015) under GTR+G+H4 model using ultrafast bootstrap and 1,000 replicates.Transfer RNAs (tRNAs) were predicted by tRNAScan-SE v2.0.5 (Chan and Lowe 2019) and Aragorn (Laslett and Canback 2014). <br><br><b>tryp_species_tRNA.xlsx</b> contains the list of reference trypanosomatid species used for the analysis. <b>all_tryp_tRNAs_aligned.fasta </b>represents alignment of the tRNAs.<br><b>tryp_tRNA_tree.newick </b>is the tree file<br>