{
    "type": "genome",
    "identifier": "GCF_003968885.1",
    "organism": "Staphylococcus saccharolyticus",
    "title": "Staphylococcus saccharolyticus",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Modernising Medical Microbiology",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_003968885.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN05977977",
        "wgs_master": "RXXC00000000.1",
        "refseq_category": "na",
        "taxid": "33028",
        "species_taxid": "33028",
        "organism_name": "Staphylococcus saccharolyticus",
        "infraspecific_name": "strain=NCTC 11807",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/12/24",
        "asm_name": "ASM396888v1",
        "asm_submitter": "Modernising Medical Microbiology",
        "gbrs_paired_asm": "GCA_003968885.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/968/885/GCF_003968885.1_ASM396888v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2350071",
        "genome_size_ungapped": "2349581",
        "gc_percent": "32.000000",
        "replicon_count": "0",
        "scaffold_count": "93",
        "contig_count": "93",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_003968885.1-RS_2024_04_21",
        "annotation_date": "2024-04-21",
        "total_gene_count": "2394",
        "protein_coding_gene_count": "1878",
        "non_coding_gene_count": "71",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-12-24",
    "dateModified": "2018-12-24",
    "datePublished": "2018-12-24",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Staphylococcus saccharolyticus"
        ],
        "sample_taxid": [
            "33028"
        ],
        "sample_host_organism": [
            "Homo sapiens"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "United Kingdom: London"
        ],
        "sample_host_location_id": [],
        "data_size": "0.660 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)": "2350071",
        "Number of Sequences": "93",
        "Longest Sequences (bp)": "188128",
        "N50 (bp)": "56382",
        "Gap Ratio (%)": "0.020850",
        "GCcontent (%)": "32.0",
        "Number of CDSs": "2696",
        "Average Protein Length": "237.1",
        "Coding Ratio (%)": "81.6",
        "Number of rRNAs": "2",
        "Number of tRNAs": "58",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Staphylococcus saccharolyticus",
                "strain": "strain=NCTC 11807",
                "accession": "GCA_003968885.1",
                "taxid": 33028,
                "species_taxid": 33028,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 734,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Staphylococcus saccharolyticus",
                "strain": "strain=NCTC11807",
                "accession": "GCA_900458815.1",
                "taxid": 33028,
                "species_taxid": 33028,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9877,
                "matched_fragments": 739,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Staphylococcus saccharolyticus",
                "strain": "strain=FDAARGOS_1074",
                "accession": "GCA_016127715.1",
                "taxid": 33028,
                "species_taxid": 33028,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9877,
                "matched_fragments": 734,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Staphylococcus caprae",
                "strain": "strain=NCTC 12196",
                "accession": "GCA_002902725.1",
                "taxid": 29380,
                "species_taxid": 29380,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.5516,
                "matched_fragments": 496,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus caprae",
                "strain": "strain=NCTC12196",
                "accession": "GCA_900458385.1",
                "taxid": 29380,
                "species_taxid": 29380,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.5331,
                "matched_fragments": 504,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus capitis subsp. capitis",
                "strain": "strain=NCTC 11045",
                "accession": "GCA_002902325.1",
                "taxid": 72758,
                "species_taxid": 29388,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.5039,
                "matched_fragments": 494,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus capitis subsp. capitis",
                "strain": "strain=DSM 20326",
                "accession": "GCA_025272975.1",
                "taxid": 72758,
                "species_taxid": 29388,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.4562,
                "matched_fragments": 502,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus capitis subsp. urealyticus",
                "strain": "strain=DSM 6717",
                "accession": "GCA_002901925.1",
                "taxid": 74703,
                "species_taxid": 29388,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.449,
                "matched_fragments": 481,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus capitis",
                "strain": "strain=NCTC11045",
                "accession": "GCA_901482635.1",
                "taxid": 29388,
                "species_taxid": 29388,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.4365,
                "matched_fragments": 502,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus epidermidis",
                "strain": "strain=ATCC 14990",
                "accession": "GCA_006094375.1",
                "taxid": 1282,
                "species_taxid": 1282,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.3303,
                "matched_fragments": 508,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus epidermidis",
                "strain": "strain=NCTC11047",
                "accession": "GCA_900458605.1",
                "taxid": 1282,
                "species_taxid": 1282,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.2436,
                "matched_fragments": 505,
                "total_fragments": 740,
                "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": 79.0861,
                "matched_fragments": 311,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus aureus",
                "strain": "strain=PartF-Saureus-RM8376",
                "accession": "GCA_022869625.1",
                "taxid": 1280,
                "species_taxid": 1280,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.9525,
                "matched_fragments": 291,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus aureus",
                "strain": "strain=NCTC 08532",
                "accession": "GCA_002902205.1",
                "taxid": 1280,
                "species_taxid": 1280,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8546,
                "matched_fragments": 295,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Staphylococcus caledonicus",
                "strain": "strain=H8/1",
                "accession": "GCA_016238465.1",
                "taxid": 2741333,
                "species_taxid": 2741333,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.7826,
                "matched_fragments": 320,
                "total_fragments": 740,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_900458815.1",
                "gtdb_species": "s__Staphylococcus saccharolyticus",
                "ani": 99.9877,
                "matched_fragments": 739,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.11",
                "min_intra_species_ani": "97.94",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 15,
                "status": "conclusive"
            },
            {
                "accession": "GCF_002902725.1",
                "gtdb_species": "s__Staphylococcus caprae",
                "ani": 81.5376,
                "matched_fragments": 497,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.57",
                "min_intra_species_ani": "98.10",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 18,
                "status": "-"
            },
            {
                "accession": "GCF_002902325.1",
                "gtdb_species": "s__Staphylococcus capitis",
                "ani": 81.4894,
                "matched_fragments": 495,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.07",
                "min_intra_species_ani": "96.40",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 151,
                "status": "-"
            },
            {
                "accession": "GCF_006742205.1",
                "gtdb_species": "s__Staphylococcus epidermidis",
                "ani": 81.2244,
                "matched_fragments": 511,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.01",
                "min_intra_species_ani": "96.59",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 1079,
                "status": "-"
            },
            {
                "accession": "GCF_003970495.1",
                "gtdb_species": "s__Staphylococcus pasteuri",
                "ani": 79.7869,
                "matched_fragments": 371,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.98",
                "min_intra_species_ani": "98.67",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 34,
                "status": "-"
            },
            {
                "accession": "GCF_900636385.1",
                "gtdb_species": "s__Staphylococcus warneri",
                "ani": 79.5805,
                "matched_fragments": 366,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.98",
                "min_intra_species_ani": "95.90",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 73,
                "status": "-"
            },
            {
                "accession": "GCF_004785665.1",
                "gtdb_species": "s__Staphylococcus pragensis",
                "ani": 79.2623,
                "matched_fragments": 324,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.69",
                "min_intra_species_ani": "99.09",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_002902565.1",
                "gtdb_species": "s__Staphylococcus petrasii",
                "ani": 79.1455,
                "matched_fragments": 309,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.66",
                "min_intra_species_ani": "97.62",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
                "accession": "GCF_003035445.1",
                "gtdb_species": "s__Staphylococcus devriesei_A",
                "ani": 78.8776,
                "matched_fragments": 312,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.92",
                "min_intra_species_ani": "97.92",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_002901705.1",
                "gtdb_species": "s__Staphylococcus lugdunensis",
                "ani": 78.5405,
                "matched_fragments": 283,
                "total_fragments": 740,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.51",
                "min_intra_species_ani": "99.34",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.96",
                "num_clustered_genomes": 70,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.041,
        "cell_length": -0.052,
        "doubling_h": -0.365,
        "growth_tmp": 37.0,
        "optimum_tmp": 34.151,
        "optimum_ph": 6.75,
        "genome_size": 2586573.524,
        "gc_content": 34.107,
        "coding_genes": 2370.685,
        "rRNA16S_genes": 5.698,
        "tRNA_genes": 58.094,
        "gram_stain": 1.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": 0.666,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 1.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 0.029,
        "coccus_cell_shape": 0.97,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Staphylococcus",
        "saccharolyticus"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}