{
    "type": "genome",
    "identifier": "GCF_002260845.1",
    "organism": "Lactococcus reticulitermitis",
    "title": "Lactococcus reticulitermitis",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Microbe Division (RIKEN BRC JCM), RIKEN BioResource Center",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002260845.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMD00089645",
        "wgs_master": "BEDT00000000.1",
        "refseq_category": "reference genome",
        "taxid": "2025039",
        "species_taxid": "2025039",
        "organism_name": "Lactococcus reticulitermitis",
        "infraspecific_name": "strain=Rs-Y01",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2017/08/10",
        "asm_name": "ASM226084v1",
        "asm_submitter": "Microbe Division (RIKEN BRC JCM), RIKEN BioResource Center",
        "gbrs_paired_asm": "GCA_002260845.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/260/845/GCF_002260845.1_ASM226084v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2169598",
        "genome_size_ungapped": "2169598",
        "gc_percent": "41.500000",
        "replicon_count": "0",
        "scaffold_count": "20",
        "contig_count": "20",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002260845.1-RS_2024_08_12",
        "annotation_date": "2024-08-12",
        "total_gene_count": "2173",
        "protein_coding_gene_count": "2102",
        "non_coding_gene_count": "53",
        "pubmed_id": "28935745;29300157"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2017-08-10",
    "dateModified": "2017-08-10",
    "datePublished": "2017-08-10",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Lactococcus reticulitermitis"
        ],
        "sample_taxid": [
            "2025039"
        ],
        "sample_host_organism": [
            "Reticulitermes speratus"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "0.613 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)": "2169598",
        "Number of Sequences": "20",
        "Longest Sequences (bp)": "783435",
        "N50 (bp)": "461990",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "41.3",
        "Number of CDSs": "2097",
        "Average Protein Length": "305.5",
        "Coding Ratio (%)": "88.6",
        "Number of rRNAs": "4",
        "Number of tRNAs": "46",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Lactococcus reticulitermitis",
                "strain": "strain=Rs-Y01",
                "accession": "GCA_002260845.1",
                "taxid": 2025039,
                "species_taxid": 2025039,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 711,
                "total_fragments": 712,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Lactococcus laudensis",
                "strain": "strain=LMG 28353",
                "accession": "GCA_019586025.1",
                "taxid": 1494461,
                "species_taxid": 1494461,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.0151,
                "matched_fragments": 479,
                "total_fragments": 712,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Lactococcus raffinolactis",
                "strain": "strain=ATCC 43920",
                "accession": "GCA_002441745.1",
                "taxid": 1366,
                "species_taxid": 1366,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.9798,
                "matched_fragments": 474,
                "total_fragments": 712,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Lactococcus raffinolactis",
                "strain": "strain=NBRC 100932",
                "accession": "GCA_001591765.1",
                "taxid": 1366,
                "species_taxid": 1366,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.9765,
                "matched_fragments": 478,
                "total_fragments": 712,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Lactococcus laudensis",
                "strain": "strain=DSM 28961",
                "accession": "GCA_013449735.1",
                "taxid": 1494461,
                "species_taxid": 1494461,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.8579,
                "matched_fragments": 498,
                "total_fragments": 712,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_002260845.1",
                "gtdb_species": "s__Lactococcus_A reticulitermitis",
                "ani": 100.0,
                "matched_fragments": 711,
                "total_fragments": 712,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_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": "conclusive"
            },
            {
                "accession": "GCF_001591765.1",
                "gtdb_species": "s__Lactococcus_A raffinolactis",
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                "matched_fragments": 478,
                "total_fragments": 712,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.11",
                "min_intra_species_ani": "98.57",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 14,
                "status": "-"
            },
            {
                "accession": "GCF_013449735.1",
                "gtdb_species": "s__Lactococcus_A laudensis",
                "ani": 84.8422,
                "matched_fragments": 499,
                "total_fragments": 712,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.98",
                "min_intra_species_ani": "97.98",
                "mean_intra_species_af": "0.86",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_002441885.1",
                "gtdb_species": "s__Lactococcus_A chungangensis",
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                "matched_fragments": 464,
                "total_fragments": 712,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.24",
                "min_intra_species_ani": "98.46",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_002441695.1",
                "gtdb_species": "s__Lactococcus_A piscium",
                "ani": 79.6779,
                "matched_fragments": 224,
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_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_002441715.1",
                "gtdb_species": "s__Lactococcus_A plantarum",
                "ani": 78.9592,
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                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
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                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_011170065.1",
                "gtdb_species": "s__Lactococcus_A insecticola",
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                "matched_fragments": 231,
                "total_fragments": 712,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_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_011170085.1",
                "gtdb_species": "s__Lactococcus_A hodotermopsidis",
                "ani": 78.488,
                "matched_fragments": 233,
                "total_fragments": 712,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
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                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": -0.302,
        "doubling_h": -0.114,
        "growth_tmp": 31.261,
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        "genome_size": 2225783.826,
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        "coding_genes": 2184.408,
        "rRNA16S_genes": 4.75,
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        "gram_stain": 1.0,
        "sporulation": 0.0,
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        "facultative_respiration": 0.7,
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        "mesophilic_range_tmp": 1.0,
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        "bacillus_cell_shape": 0.0,
        "coccus_cell_shape": 0.857,
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    },
    "_genome_taxon": [
        "Lactococcus",
        "reticulitermitis"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}