{
    "type": "genome",
    "identifier": "GCF_004354475.1",
    "organism": "Latilactobacillus sakei subsp. sakei",
    "title": "Latilactobacillus sakei subsp. sakei",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Carlsberg Research Laboratory",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_004354475.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN08555025",
        "wgs_master": "PUFE00000000.1",
        "refseq_category": "na",
        "taxid": "214326",
        "species_taxid": "1599",
        "organism_name": "Latilactobacillus sakei subsp. sakei",
        "infraspecific_name": "strain=ATCC 15521",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/03/18",
        "asm_name": "ASM435447v1",
        "asm_submitter": "Carlsberg Research Laboratory",
        "gbrs_paired_asm": "GCA_004354475.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/354/475/GCF_004354475.1_ASM435447v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "1936187",
        "genome_size_ungapped": "1936187",
        "gc_percent": "41.000000",
        "replicon_count": "0",
        "scaffold_count": "27",
        "contig_count": "27",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_004354475.1-RS_2024_10_23",
        "annotation_date": "2024-10-23",
        "total_gene_count": "1964",
        "protein_coding_gene_count": "1847",
        "non_coding_gene_count": "68",
        "pubmed_id": "30830251"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-03-18",
    "dateModified": "2019-03-18",
    "datePublished": "2019-03-18",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Latilactobacillus sakei subsp. sakei"
        ],
        "sample_taxid": [
            "214326"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Denmark"
        ],
        "sample_host_location_id": [],
        "data_size": "0.549 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)": "1936187",
        "Number of Sequences": "27",
        "Longest Sequences (bp)": "534742",
        "N50 (bp)": "240687",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "41.1",
        "Number of CDSs": "1922",
        "Average Protein Length": "293.2",
        "Coding Ratio (%)": "87.3",
        "Number of rRNAs": "10",
        "Number of tRNAs": "54",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Latilactobacillus sakei subsp. sakei",
                "strain": "strain=ATCC 15521",
                "accession": "GCA_004354475.1",
                "taxid": 214326,
                "species_taxid": 1599,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 633,
                "total_fragments": 633,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Latilactobacillus sakei subsp. sakei",
                "strain": "strain=LT-13",
                "accession": "GCA_002370355.1",
                "taxid": 214326,
                "species_taxid": 1599,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9886,
                "matched_fragments": 630,
                "total_fragments": 633,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Latilactobacillus sakei subsp. sakei",
                "strain": "strain=DSM 20017",
                "accession": "GCA_001434065.1",
                "taxid": 214326,
                "species_taxid": 1599,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9748,
                "matched_fragments": 614,
                "total_fragments": 633,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Latilactobacillus sakei subsp. sakei",
                "strain": "strain=NBRC 15893",
                "accession": "GCA_007989165.1",
                "taxid": 214326,
                "species_taxid": 1599,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9509,
                "matched_fragments": 605,
                "total_fragments": 633,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Latilactobacillus sakei subsp. carnosus",
                "strain": "strain=DSM 15831",
                "accession": "GCA_001435715.1",
                "taxid": 214325,
                "species_taxid": 1599,
                "relation_to_type": "type",
                "validated": true,
                "ani": 97.2029,
                "matched_fragments": 561,
                "total_fragments": 633,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Latilactobacillus fragifolii",
                "strain": "strain=AMBP162",
                "accession": "GCA_905332535.1",
                "taxid": 2814244,
                "species_taxid": 2814244,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.5266,
                "matched_fragments": 326,
                "total_fragments": 633,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_002370355.1",
                "gtdb_species": "s__Latilactobacillus sakei",
                "ani": 99.9886,
                "matched_fragments": 630,
                "total_fragments": 633,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Latilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.25",
                "min_intra_species_ani": "97.13",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 56,
                "status": "conclusive"
            },
            {
                "accession": "GCF_002953655.1",
                "gtdb_species": "s__Latilactobacillus sakei_A",
                "ani": 92.9037,
                "matched_fragments": 555,
                "total_fragments": 633,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Latilactobacillus",
                "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_004101845.1",
                "gtdb_species": "s__Latilactobacillus curvatus",
                "ani": 82.7158,
                "matched_fragments": 359,
                "total_fragments": 633,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Latilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.79",
                "min_intra_species_ani": "97.67",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 25,
                "status": "-"
            },
            {
                "accession": "GCF_009683145.1",
                "gtdb_species": "s__Latilactobacillus curvatus_A",
                "ani": 81.6345,
                "matched_fragments": 319,
                "total_fragments": 633,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Latilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.02",
                "min_intra_species_ani": "98.50",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_000615805.1",
                "gtdb_species": "s__Latilactobacillus fuchuensis",
                "ani": 80.2635,
                "matched_fragments": 303,
                "total_fragments": 633,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Latilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.39",
                "min_intra_species_ani": "98.80",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 3,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": null,
        "optimum_tmp": null,
        "optimum_ph": null,
        "genome_size": null,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": null,
        "sporulation": null,
        "motility": null,
        "range_salinity": null,
        "facultative_respiration": null,
        "anaerobic_respiration": null,
        "aerobic_respiration": null,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "bacillus_cell_shape": null,
        "coccus_cell_shape": null,
        "filament_cell_shape": null,
        "coccobacillus_cell_shape": null,
        "vibrio_cell_shape": null,
        "spiral_cell_shape": null
    },
    "_genome_taxon": [
        "Latilactobacillus",
        "sakei",
        "subsp.",
        "sakei"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}