{
    "type": "genome",
    "identifier": "GCF_002921145.1",
    "organism": "Avibacterium endocarditidis",
    "title": "Avibacterium endocarditidis",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Copenhagen",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002921145.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN08450128",
        "wgs_master": "PQVI00000000.1",
        "refseq_category": "reference genome",
        "taxid": "380674",
        "species_taxid": "380674",
        "organism_name": "Avibacterium endocarditidis",
        "infraspecific_name": "strain=20186H4H1",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/02/07",
        "asm_name": "ASM292114v1",
        "asm_submitter": "University of Copenhagen",
        "gbrs_paired_asm": "GCA_002921145.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/921/145/GCF_002921145.1_ASM292114v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2256796",
        "genome_size_ungapped": "2256472",
        "gc_percent": "41.500000",
        "replicon_count": "0",
        "scaffold_count": "161",
        "contig_count": "161",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002921145.1-RS_2024_05_03",
        "annotation_date": "2024-05-03",
        "total_gene_count": "2365",
        "protein_coding_gene_count": "1847",
        "non_coding_gene_count": "43",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-02-07",
    "dateModified": "2018-02-07",
    "datePublished": "2018-02-07",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Avibacterium endocarditidis"
        ],
        "sample_taxid": [
            "380674"
        ],
        "sample_host_organism": [
            "chicken"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Denmark"
        ],
        "sample_host_location_id": [],
        "data_size": "0.638 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 91.67,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "2256796",
        "Number of Sequences": "161",
        "Longest Sequences (bp)": "54432",
        "N50 (bp)": "18762",
        "Gap Ratio (%)": "0.015464",
        "GCcontent (%)": "41.4",
        "Number of CDSs": "2499",
        "Average Protein Length": "250.3",
        "Coding Ratio (%)": "83.1",
        "Number of rRNAs": "3",
        "Number of tRNAs": "35",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Avibacterium endocarditidis",
                "strain": "strain=20186H4H1",
                "accession": "GCA_002921145.1",
                "taxid": 380674,
                "species_taxid": 380674,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9999,
                "matched_fragments": 666,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Avibacterium gallinarum",
                "strain": "strain=NCTC11188",
                "accession": "GCA_900454485.1",
                "taxid": 755,
                "species_taxid": 755,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.5851,
                "matched_fragments": 612,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Avibacterium gallinarum",
                "strain": "strain=DSM 17481",
                "accession": "GCA_004362535.1",
                "taxid": 755,
                "species_taxid": 755,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.5406,
                "matched_fragments": 623,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Avibacterium gallinarum",
                "strain": "strain=NCTC 11188",
                "accession": "GCA_002921135.1",
                "taxid": 755,
                "species_taxid": 755,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.5151,
                "matched_fragments": 619,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Avibacterium volantium",
                "strain": "strain=NCTC3438",
                "accession": "GCA_900635775.1",
                "taxid": 762,
                "species_taxid": 762,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.3312,
                "matched_fragments": 569,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Avibacterium avium",
                "strain": "strain=NCTC 11297",
                "accession": "GCA_900454535.1",
                "taxid": 751,
                "species_taxid": 751,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.5959,
                "matched_fragments": 522,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Avibacterium paragallinarum",
                "strain": "strain=CCUG 12835",
                "accession": "GCA_002921155.1",
                "taxid": 728,
                "species_taxid": 728,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.556,
                "matched_fragments": 419,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Avibacterium paragallinarum",
                "strain": "strain=NCTC11296",
                "accession": "GCA_900450705.1",
                "taxid": 728,
                "species_taxid": 728,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.4338,
                "matched_fragments": 475,
                "total_fragments": 677,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 91.67,
            "contamination": 0.0,
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        },
        "gtdb_result": [
            {
                "accession": "GCF_002921145.1",
                "gtdb_species": "s__Avibacterium endocarditidis",
                "ani": 99.9999,
                "matched_fragments": 666,
                "total_fragments": 677,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Avibacterium",
                "ani_circumscription_radius": 95.5151,
                "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": "conclusive"
            },
            {
                "accession": "GCF_002921135.1",
                "gtdb_species": "s__Avibacterium gallinarum",
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Avibacterium",
                "ani_circumscription_radius": 95.623,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_900635775.1",
                "gtdb_species": "s__Avibacterium volantium",
                "ani": 95.3463,
                "matched_fragments": 568,
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Avibacterium",
                "ani_circumscription_radius": 95.623,
                "mean_intra_species_ani": "96.13",
                "min_intra_species_ani": "96.13",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_900454535.1",
                "gtdb_species": "s__Avibacterium avium",
                "ani": 93.621,
                "matched_fragments": 521,
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Avibacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.69",
                "min_intra_species_ani": "95.67",
                "mean_intra_species_af": "0.83",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_900450705.1",
                "gtdb_species": "s__Avibacterium paragallinarum",
                "ani": 86.4174,
                "matched_fragments": 476,
                "total_fragments": 677,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Avibacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.58",
                "min_intra_species_ani": "96.82",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 41,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": 37.0,
        "optimum_tmp": 37.0,
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        "genome_size": 2554396.167,
        "gc_content": 41.075,
        "coding_genes": null,
        "rRNA16S_genes": null,
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        "gram_stain": 0.0,
        "sporulation": 0.0,
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        "facultative_respiration": 0.0,
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        "mesophilic_range_tmp": null,
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        "bacillus_cell_shape": 1.0,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
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    },
    "_genome_taxon": [
        "Avibacterium",
        "endocarditidis"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}