Supplementary files

Three tables (Circadian_Sequences_Table.tsv, Vision_Sequences_Table.tsv, Pigmentation_Table.tsv) with every sequences and their genomic position used in this study. Three tables summarizing found LoF mutations (LoF_Table_Pigmentation.tsv, LoF_Table_Circadian.tsv, LoF_Table_Vision.tsv) Two tables that are from Policarpo et al. 2020 (Astyanax_Table.tsv, Dentata_Table.tsv) with vision gene sequences from A. mexicanus and L. dentata Exonerate_raw_results.zip contains every exonerate raw files from which sequences were inferred. Orthology_Confirmation.zip contains every gene alignments and IQ-Tree results. It also contain a folder called "PDF" with every phylogenies rooted and visualized with iTOL