Data for "Descent from a common ancestor restricts exploration of protein sequence space"

The included datasets (sequences, alignments, pairwise distances):Vertebrates dataset - ncbi_vertebrates_data.zipAmino acid alignmentsNucleotide alignments for dN/dS calculationRaw amino acid sequences of sample 616 protein families used for pairwise alignments (unlike other datasets can't be obtained by removing the gaps from alignments due to use of MACSE for codon alignment)Species annotation file for sequence IDsEnterobacterales dataset - ncbi_enterobacterales_data.zipAmino acid alignmentsNucleotide alignments for dN/dS calculationSpecies annotation file for sequence IDsGammaproteobacteria dataset - eggnog_gammaproteobacteria.zipNucleotide alignments for dN/dS calculationClusters of Orthologous Genes dataset - cogs_full_pairwise_aligned_distances.zipPairwise distance matrices for 2728 COGs obtained from pairwise alignments (MUSCLE) of full COG sequences from https://ftp.ncbi.nlm.nih.gov/pub/COG/COG2020/data/.For more information, please see https://github.com/oist/sequence-space-dimension.