{
    "type": "genome",
    "identifier": "GCF_003697915.1",
    "organism": "Staphylococcus pseudoxylosus",
    "title": "Staphylococcus pseudoxylosus",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Edinburgh",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_003697915.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN10236448",
        "wgs_master": "RCVN00000000.1",
        "refseq_category": "na",
        "taxid": "2282419",
        "species_taxid": "2282419",
        "organism_name": "Staphylococcus pseudoxylosus",
        "infraspecific_name": "strain=S04009",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/10/30",
        "asm_name": "ASM369791v1",
        "asm_submitter": "University of Edinburgh",
        "gbrs_paired_asm": "GCA_003697915.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/697/915/GCF_003697915.1_ASM369791v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3045959",
        "genome_size_ungapped": "3045959",
        "gc_percent": "33.000000",
        "replicon_count": "0",
        "scaffold_count": "124",
        "contig_count": "124",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_003697915.1-RS_2024_04_22",
        "annotation_date": "2024-04-22",
        "total_gene_count": "3042",
        "protein_coding_gene_count": "2925",
        "non_coding_gene_count": "52",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-10-30",
    "dateModified": "2018-10-30",
    "datePublished": "2018-10-30",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Staphylococcus pseudoxylosus"
        ],
        "sample_taxid": [
            "2282419"
        ],
        "sample_host_organism": [
            "bovine"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "France"
        ],
        "sample_host_location_id": [],
        "data_size": "0.857 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)": "3045959",
        "Number of Sequences": "124",
        "Longest Sequences (bp)": "394041",
        "N50 (bp)": "211400",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "32.8",
        "Number of CDSs": "2950",
        "Average Protein Length": "286.1",
        "Coding Ratio (%)": "83.1",
        "Number of rRNAs": "0",
        "Number of tRNAs": "44",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Staphylococcus pseudoxylosus",
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                "accession": "GCA_003697915.1",
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                "species_taxid": 2282419,
                "relation_to_type": "type",
                "validated": true,
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                "matched_fragments": 980,
                "total_fragments": 983,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
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                "taxid": 1288,
                "species_taxid": 1288,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.2683,
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                "total_fragments": 983,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus xylosus",
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                "relation_to_type": "type",
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                "ani": 93.2596,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus xylosus",
                "strain": "strain=CCM 2738",
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                "species_taxid": 1288,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.2458,
                "matched_fragments": 852,
                "total_fragments": 983,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus shinii",
                "strain": "strain=K22-5M",
                "accession": "GCA_017583065.1",
                "taxid": 2912228,
                "species_taxid": 2912228,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.9654,
                "matched_fragments": 870,
                "total_fragments": 983,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus taiwanensis",
                "strain": "strain=NTUH-S172",
                "accession": "GCA_020544305.1",
                "taxid": 2750012,
                "species_taxid": 2750012,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.7165,
                "matched_fragments": 249,
                "total_fragments": 983,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
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                "accession": "GCF_003697915.1",
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                "matched_fragments": 980,
                "total_fragments": 983,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.50",
                "min_intra_species_ani": "97.12",
                "mean_intra_species_af": "0.92",
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                "num_clustered_genomes": 9,
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            },
            {
                "accession": "GCF_000338275.1",
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                "matched_fragments": 865,
                "total_fragments": 983,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.09",
                "min_intra_species_ani": "97.23",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
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                "matched_fragments": 852,
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.41",
                "min_intra_species_ani": "97.01",
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                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 48,
                "status": "-"
            },
            {
                "accession": "GCF_016774515.1",
                "gtdb_species": "s__Staphylococcus xylosus_A",
                "ani": 92.0002,
                "matched_fragments": 874,
                "total_fragments": 983,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.34",
                "min_intra_species_ani": "99.08",
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                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 11,
                "status": "-"
            },
            {
                "accession": "GCF_000010125.1",
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
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                "mean_intra_species_ani": "99.41",
                "min_intra_species_ani": "98.75",
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                "num_clustered_genomes": 167,
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            },
            {
                "accession": "GCF_002614725.1",
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                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
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                "num_clustered_genomes": 1,
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            },
            {
                "accession": "GCF_013391405.1",
                "gtdb_species": "s__Staphylococcus sp013391405",
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                "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,
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            },
            {
                "accession": "GCF_900458565.1",
                "gtdb_species": "s__Staphylococcus equorum",
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                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 49,
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        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.041,
        "cell_length": -0.052,
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        "coding_genes": 2370.685,
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        "sporulation": 0.0,
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        "facultative_respiration": 0.239,
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        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
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        "bacillus_cell_shape": 0.029,
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    "_genome_taxon": [
        "Staphylococcus",
        "pseudoxylosus"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}