---
annotation_info.txt.gz: Table of gene annotations
cds_lowqual.fna.gz: CDS sequences; low confidence
cds_primary_low_confidence.fna.gz: CDS sequences; low confidence
cds_primary.fna.gz: CDS sequences - primary only
cds.bed.gz: BED-format file, derived from gene_models_main.gff3
cds.fna.gz: CDS sequences
defline.txt.gz: Defline for genes
featid_map.tsv.gz: Hash file of old/new gene IDs
feature.tsv.gz: Table of original feature IDs and coordinates
fragments.tar.gz: Several files, in original formats
gene_function.gff3.gz: GFF3 of all mrna sequences (UTR, CDS) with AHRD functional annotations
gene_models_exons.gff3.gz: Gene models, with exon features
gene_models_low_confidence.gff3.gz: Gene models, low quality or transposable elements
gene_models_lowqual_or_TE.gff.gz: Gene models, low quality or transposable elements
gene_models_main.bed.gz: BED-format file, derived from gene_models_main.gff3
gene_models_main.gff.gz: Gene models - main
gene_models_main.gff3.gz: Gene models - main
gene_models_orig_patched.gff3.gz: Derived from the original MAKER and GeMoMa-based GFF, with parent-child relationships for GeMoMa genes repaired using the AGAT GFF toolkit.
gene_models_original.gff3.gz: Gene models - original (not prefixed)
gene_models_with-TEs.longest.gff3.gz: Gene models with TEs - longest only (not prefixed)
info_AED_scores.txt.gz: MAKER quality scores
info_annot_AHRD_full.txt.gz: annotation from the AHRD pipeline
info_annot_AHRD_slim.txt.gz: annotation from the AHRD pipeline - simplified
info_annot_AHRD.txt.gz: annotation from the AHRD pipeline
info_annot.txt.gz: Annotation information
info_defline.txt.gz: Functional descriptor, from Phytozome
info_gene_annot.txt.gz: annotation from the AHRD pipeline
iprscan.gff3.gz: InterPro functional information for genes (gff format)
legfed_v1_0.legfed_v1_0.M65K.gfa.tsv.gz: gene family assignments
legfed_v1_0.M65K.gfa.tsv.gz: gene family assignments
locus_mrna_name_map.txt.gz: Name correspondences between Wm82.a1.v1 and Wm82.a2.v1 annotations
locus_transcript_name_map.txt.gz: Table of gene ID correspondences among Wm82 assemblies
mrna_low_confidence.fna.gz: Low confidence transcript sequences
mrna_lowqual_or_TE.fna.gz: transcript sequences - low quality or transposable elements
mrna_lowqual.fna.gz: transcript sequences - low quality or transposable elements
mrna_primary_low_confidence.fna.gz: transcript sequences - low quality or transposable elements
mrna_primary.fna.gz: Transcript sequences - primary only
mrna.fna.gz: mrna.fna.gz
mrnas.fna.gz: mrna.fna.gz
noncoding.gff3.gz: Noncoding features
phytozome_10_2.HFNR.gfa.tsv.gz: gene family assignments
phytozome_defline.txt.gz: Functional annotation provided by Phytozome
protein_annot_AHRD.faa.gz: protein sequence, with annotations
protein_low_confidence.faa.gz: protein sequence - low-quality or TE elements
protein_lowqual_or_TE.faa.gz: protein sequence - low-quality or TE elements
protein_lowqual.faa.gz: protein sequence - low-quality or TE elements
protein_primary_low_confidence.faa.gz: protein sequence - low-quality or TE elements
protein_primary.faa.gz: Protein sequences - primary only
protein.faa.gz: Protein sequences
repeatmasked_assembly_v1.0.gff3.gz: Repeat-masking coordinates
repeatmasked_assembly_v2.0.gff3.gz: Repeat-masking coordinates
repeatmasked_assembly.gff.gz: Repeat-masking coordinates
repeatmasked_assembly.gff3.gz: Repeat-masking coordinates
repeatmasking.gff3.gz: Repeat-masking coordinates
repeats.gff3.gz: Repeat-masking coordinates
synonym.txt.gz: Name correspondences between Wm82.a1.v1 and Wm82.a2.v1 annotations
transposon_repeat.gff3.gz: Transposons and repeats