{
    "type": "genome",
    "identifier": "GCF_004340975.1",
    "organism": "Frisingicoccus caecimuris",
    "title": "Frisingicoccus caecimuris",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_004340975.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN10864766",
        "wgs_master": "SLXA00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1796636",
        "species_taxid": "1796636",
        "organism_name": "Frisingicoccus caecimuris",
        "infraspecific_name": "strain=DSM 28559",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/03/11",
        "asm_name": "ASM434097v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_004340975.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/340/975/GCF_004340975.1_ASM434097v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2716364",
        "genome_size_ungapped": "2716170",
        "gc_percent": "43.500000",
        "replicon_count": "0",
        "scaffold_count": "35",
        "contig_count": "35",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_004340975.1-RS_2024_12_13",
        "annotation_date": "2024-12-13",
        "total_gene_count": "2720",
        "protein_coding_gene_count": "2605",
        "non_coding_gene_count": "64",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-03-11",
    "dateModified": "2019-03-11",
    "datePublished": "2019-03-11",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Frisingicoccus caecimuris"
        ],
        "sample_taxid": [
            "1796636"
        ],
        "sample_host_organism": [
            "not applicable"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "0.770 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)": "2716364",
        "Number of Sequences": "35",
        "Longest Sequences (bp)": "467712",
        "N50 (bp)": "177881",
        "Gap Ratio (%)": "0.007142",
        "GCcontent (%)": "43.7",
        "Number of CDSs": "2631",
        "Average Protein Length": "310.7",
        "Coding Ratio (%)": "90.3",
        "Number of rRNAs": "2",
        "Number of tRNAs": "56",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Frisingicoccus caecimuris",
                "strain": "strain=DSM 28559",
                "accession": "GCA_004340975.1",
                "taxid": 1796636,
                "species_taxid": 1796636,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 884,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Frisingicoccus caecimuris",
                "strain": "strain=DSM 28559",
                "accession": "GCA_024622585.1",
                "taxid": 1796636,
                "species_taxid": 1796636,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.999,
                "matched_fragments": 878,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Coprococcus comes",
                "strain": "strain=ATCC 27758",
                "accession": "GCA_025149785.1",
                "taxid": 410072,
                "species_taxid": 410072,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.2563,
                "matched_fragments": 72,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Jingyaoa shaoxingensis",
                "strain": "strain=NSJ-46",
                "accession": "GCA_014385005.1",
                "taxid": 2763671,
                "species_taxid": 2763671,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.6124,
                "matched_fragments": 59,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Coprococcus catus",
                "strain": "strain=ATCC 27761",
                "accession": "GCA_025289135.1",
                "taxid": 116085,
                "species_taxid": 116085,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 77.2253,
                "matched_fragments": 106,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Coprococcus catus",
                "strain": "strain=VPIC661",
                "accession": "GCA_019734885.1",
                "taxid": 116085,
                "species_taxid": 116085,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 77.2185,
                "matched_fragments": 106,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Blautia luti",
                "strain": "strain=DSM 14534",
                "accession": "GCA_009707925.1",
                "taxid": 89014,
                "species_taxid": 89014,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 77.1853,
                "matched_fragments": 54,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Hominisplanchenecus faecis",
                "strain": "strain=CLA-AA-H246",
                "accession": "GCA_020687205.1",
                "taxid": 2885351,
                "species_taxid": 2885351,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1219,
                "matched_fragments": 53,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Blautia obeum",
                "strain": "strain=ATCC 29174",
                "accession": "GCA_000153905.1",
                "taxid": 40520,
                "species_taxid": 40520,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8567,
                "matched_fragments": 51,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Blautia obeum",
                "strain": "strain=ATCC 29174",
                "accession": "GCA_025147765.1",
                "taxid": 40520,
                "species_taxid": 40520,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8068,
                "matched_fragments": 52,
                "total_fragments": 886,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_004340975.1",
                "gtdb_species": "s__Frisingicoccus caecimuris",
                "ani": 100.0,
                "matched_fragments": 884,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Frisingicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.08",
                "min_intra_species_ani": "97.54",
                "mean_intra_species_af": "0.83",
                "min_intra_species_af": "0.77",
                "num_clustered_genomes": 6,
                "status": "conclusive"
            },
            {
                "accession": "GCA_900549105.1",
                "gtdb_species": "s__Frisingicoccus sp900549105",
                "ani": 82.3646,
                "matched_fragments": 494,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Frisingicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.93",
                "min_intra_species_ani": "99.87",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_900753685.1",
                "gtdb_species": "s__Frisingicoccus sp900753685",
                "ani": 82.2483,
                "matched_fragments": 372,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Frisingicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.11",
                "min_intra_species_ani": "98.62",
                "mean_intra_species_af": "0.83",
                "min_intra_species_af": "0.76",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_002361775.1",
                "gtdb_species": "s__Oliverpabstia sp002361775",
                "ani": 81.481,
                "matched_fragments": 63,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.87",
                "min_intra_species_ani": "99.86",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_016298055.1",
                "gtdb_species": "s__Frisingicoccus sp016298055",
                "ani": 79.644,
                "matched_fragments": 265,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Frisingicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.75",
                "min_intra_species_ani": "95.75",
                "mean_intra_species_af": "0.73",
                "min_intra_species_af": "0.73",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_900757195.1",
                "gtdb_species": "s__Frisingicoccus sp900757195",
                "ani": 79.3146,
                "matched_fragments": 326,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Frisingicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.09",
                "min_intra_species_ani": "99.09",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_009929615.1",
                "gtdb_species": "s__Frisingicoccus sp009929615",
                "ani": 78.8663,
                "matched_fragments": 318,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Frisingicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.91",
                "min_intra_species_ani": "99.91",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_017391465.1",
                "gtdb_species": "s__Frisingicoccus sp017391465",
                "ani": 78.3502,
                "matched_fragments": 183,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Frisingicoccus",
                "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_902381825.1",
                "gtdb_species": "s__Coprococcus_A catus",
                "ani": 77.5203,
                "matched_fragments": 104,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.33",
                "min_intra_species_ani": "97.35",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.80",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
                "accession": "GCA_018711005.1",
                "gtdb_species": "s__Catenibacillus faecigallinarum",
                "ani": 77.2046,
                "matched_fragments": 72,
                "total_fragments": 886,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Catenibacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.82",
                "min_intra_species_ani": "99.82",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 2,
                "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": [
        "Frisingicoccus",
        "caecimuris"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}