{ "type": "genome", "identifier": "GCF_001885775.1", "organism": "Enterococcus avium", "title": "Enterococcus avium", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Inner Mongolia Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001885775.1", "bioproject": "PRJNA224116", "biosample": "SAMN03267162", "wgs_master": "JXKF00000000.1", "refseq_category": "na", "taxid": "33945", "species_taxid": "33945", "organism_name": "Enterococcus avium", "infraspecific_name": "strain=DSM 20679", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/25", "asm_name": "ASM188577v1", "asm_submitter": "Inner Mongolia Agricultural University", "gbrs_paired_asm": "GCA_001885775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/885/775/GCF_001885775.1_ASM188577v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4466054", "genome_size_ungapped": "4465886", "gc_percent": "39.000000", "replicon_count": "0", "scaffold_count": "181", "contig_count": "181", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001885775.1-RS_2024_05_17", "annotation_date": "2024-05-17", "total_gene_count": "4452", "protein_coding_gene_count": "4334", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-25", "dateModified": "2016-11-25", "datePublished": "2016-11-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus avium" ], "sample_taxid": [ "33945" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.273 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4466054", "Number of Sequences": "181", "Longest Sequences (bp)": "170655", "N50 (bp)": "67365", "Gap Ratio (%)": "0.004254", "GCcontent (%)": "38.9", "Number of CDSs": "4390", "Average Protein Length": "291.4", "Coding Ratio (%)": "85.9", "Number of rRNAs": "1", "Number of tRNAs": "42", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus avium", "strain": "strain=DSM 20679", "accession": "GCA_001885775.1", "taxid": 33945, "species_taxid": 33945, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1403, "total_fragments": 1409, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus avium", "strain": "strain=NCTC9938", "accession": "GCA_900447655.1", "taxid": 33945, "species_taxid": 33945, "relation_to_type": "type", "validated": true, "ani": 99.9963, "matched_fragments": 1406, "total_fragments": 1409, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus avium", "strain": "strain=ATCC 14025", "accession": "GCA_000406965.1", "taxid": 33945, "species_taxid": 33945, "relation_to_type": "type", "validated": true, "ani": 99.9946, "matched_fragments": 1405, "total_fragments": 1409, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus avium", "strain": "strain=ATCC 14025", "accession": "GCA_000407245.1", "taxid": 33945, "species_taxid": 33945, "relation_to_type": "type", "validated": true, "ani": 99.9883, "matched_fragments": 1406, "total_fragments": 1409, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus malodoratus", 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"gtdb_result": [ { "accession": "GCF_000406965.1", "gtdb_species": "s__Enterococcus_A avium", "ani": 99.9945, "matched_fragments": 1406, "total_fragments": 1409, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.78", "num_clustered_genomes": 43, "status": "conclusive" }, { "accession": "GCF_018917525.1", "gtdb_species": "s__Enterococcus_A raffinosus_A", "ani": 91.8585, "matched_fragments": 1106, "total_fragments": 1409, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": 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"matched_fragments": 373, "total_fragments": 1409, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000407545.1", "gtdb_species": "s__Enterococcus_A gilvus", "ani": 81.1555, "matched_fragments": 630, "total_fragments": 1409, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_005405225.1", "gtdb_species": "s__Enterococcus_A dongliensis", "ani": 81.084, "matched_fragments": 343, "total_fragments": 1409, 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_005405345.1", "gtdb_species": "s__Enterococcus_A viikkiensis", "ani": 80.5791, "matched_fragments": 431, "total_fragments": 1409, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001885905.1", "gtdb_species": "s__Enterococcus_A devriesei", "ani": 80.2698, "matched_fragments": 515, "total_fragments": 1409, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.13", "min_intra_species_ani": "98.05", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.04, "cell_length": -0.019, "doubling_h": -0.346, "growth_tmp": 34.5, "optimum_tmp": 34.173, "optimum_ph": 9.6, "genome_size": 4450250.0, "gc_content": 38.565, "coding_genes": 2937.768, "rRNA16S_genes": 5.5, "tRNA_genes": 60.871, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Enterococcus", "avium" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }