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# filename in this repository: description
glyma.Lee.gnm1.div.96SR.genes_not_in_Lee.gff3.gz: The annotation in gff3 format, predicted from both the main genome and additional fragments from this study.
glyma.Lee.gnm1.div.96SR.protein_Lee_and_other.fna.gz: Protein sequences, predicted from both the main genome and additional fragments from this study.
glyma.Lee.gnm1.pan.96SR.gene_pav_matrix.txt.gz: PAV matrix, one individual per column, one gene per row. 1 is present and 0 is missing.
glyma.Lee.gnm1.pan.96SR.seq_not_in_Lee.fna.gz: Genes and gene fragments predicted in genomic sequence from this study and not in the Lee genome. Note: differs from original file Lee.pan.renamed.fa by exclusion of the main Lee genome (pseudomolecules and scaffolds).
soybean_pan_pav.matrix_gene.txt.gz: counts of variants observed for each gene. Derived from glyma.Lee.gnm1.pan.96SR.gene_pav_matrix.txt.