{
    "type": "genome",
    "identifier": "GCF_002749945.1",
    "organism": "Clostridium combesii",
    "title": "Clostridium combesii",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Institute for Environmental Health",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002749945.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN07839333",
        "wgs_master": "PEIK00000000.1",
        "refseq_category": "reference genome",
        "taxid": "39481",
        "species_taxid": "39481",
        "organism_name": "Clostridium combesii",
        "infraspecific_name": "strain=DSM 20696",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2017/11/04",
        "asm_name": "ASM274994v1",
        "asm_submitter": "Institute for Environmental Health",
        "gbrs_paired_asm": "GCA_002749945.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/749/945/GCF_002749945.1_ASM274994v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3892013",
        "genome_size_ungapped": "3891978",
        "gc_percent": "28.000000",
        "replicon_count": "0",
        "scaffold_count": "38",
        "contig_count": "38",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002749945.1-RS_2024_12_16",
        "annotation_date": "2024-12-16",
        "total_gene_count": "3669",
        "protein_coding_gene_count": "3467",
        "non_coding_gene_count": "110",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2017-11-04",
    "dateModified": "2017-11-04",
    "datePublished": "2017-11-04",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Clostridium combesii"
        ],
        "sample_taxid": [
            "39481"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Guinea"
        ],
        "sample_host_location_id": [],
        "data_size": "1.053 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)": "3892013",
        "Number of Sequences": "38",
        "Longest Sequences (bp)": "508239",
        "N50 (bp)": "218847",
        "Gap Ratio (%)": "0.000899",
        "GCcontent (%)": "28.1",
        "Number of CDSs": "3545",
        "Average Protein Length": "298.4",
        "Coding Ratio (%)": "81.5",
        "Number of rRNAs": "6",
        "Number of tRNAs": "78",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Clostridium combesii",
                "strain": "strain=DSM 20696",
                "accession": "GCA_002749945.1",
                "taxid": 39481,
                "species_taxid": 39481,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1278,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Clostridium botulinum",
                "strain": "strain=ATCC 25763",
                "accession": "GCA_001276985.1",
                "taxid": 1491,
                "species_taxid": 1491,
                "relation_to_type": "type",
                "validated": true,
                "ani": 97.397,
                "matched_fragments": 1161,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Clostridium botulinum",
                "strain": "strain=ATCC 25763",
                "accession": "GCA_011017965.1",
                "taxid": 1491,
                "species_taxid": 1491,
                "relation_to_type": "type",
                "validated": true,
                "ani": 97.3445,
                "matched_fragments": 1136,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Clostridium sporogenes",
                "strain": "strain=NCTC13020",
                "accession": "GCA_900461305.1",
                "taxid": 1509,
                "species_taxid": 1509,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.986,
                "matched_fragments": 1090,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium sporogenes",
                "strain": "strain=DSM 795",
                "accession": "GCA_001020205.1",
                "taxid": 1509,
                "species_taxid": 1509,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.9706,
                "matched_fragments": 1093,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium mobile",
                "strain": "strain=MSJ-11",
                "accession": "GCA_018918285.1",
                "taxid": 2841512,
                "species_taxid": 2841512,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.2409,
                "matched_fragments": 253,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium tetanomorphum",
                "strain": "strain=DSM 4474",
                "accession": "GCA_017873215.1",
                "taxid": 1553,
                "species_taxid": 1553,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.7334,
                "matched_fragments": 329,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium simiarum",
                "strain": "strain=MSJ-4",
                "accession": "GCA_018919175.1",
                "taxid": 2841506,
                "species_taxid": 2841506,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4821,
                "matched_fragments": 218,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium autoethanogenum",
                "strain": "strain=DSM 10061",
                "accession": "GCA_000484505.2",
                "taxid": 84023,
                "species_taxid": 84023,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 76.5409,
                "matched_fragments": 202,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium acidisoli",
                "strain": "strain=DSM 12555",
                "accession": "GCA_900176305.1",
                "taxid": 91624,
                "species_taxid": 91624,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4056,
                "matched_fragments": 169,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium bornimense",
                "strain": "strain=type strain: M2/40",
                "accession": "GCA_000577895.1",
                "taxid": 1216932,
                "species_taxid": 1216932,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.0574,
                "matched_fragments": 146,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium kluyveri",
                "strain": "strain=NBRC 12016",
                "accession": "GCA_000010265.1",
                "taxid": 1534,
                "species_taxid": 1534,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.042,
                "matched_fragments": 172,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clostridium kluyveri",
                "strain": "strain=DSM 555",
                "accession": "GCA_000016505.1",
                "taxid": 1534,
                "species_taxid": 1534,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.0416,
                "matched_fragments": 172,
                "total_fragments": 1278,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001276985.1",
                "gtdb_species": "s__Clostridium_F botulinum",
                "ani": 97.4166,
                "matched_fragments": 1160,
                "total_fragments": 1278,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_F",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.69",
                "min_intra_species_ani": "95.97",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 213,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001889325.1",
                "gtdb_species": "s__Clostridium_F botulinum_A",
                "ani": 93.4495,
                "matched_fragments": 1129,
                "total_fragments": 1278,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_F",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.92",
                "min_intra_species_ani": "95.51",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 52,
                "status": "-"
            },
            {
                "accession": "GCF_001020205.1",
                "gtdb_species": "s__Clostridium_F sporogenes",
                "ani": 91.9681,
                "matched_fragments": 1094,
                "total_fragments": 1278,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_F",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.24",
                "min_intra_species_ani": "98.80",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 81,
                "status": "-"
            },
            {
                "accession": "GCF_001276215.1",
                "gtdb_species": "s__Clostridium_F sp001276215",
                "ani": 89.2058,
                "matched_fragments": 975,
                "total_fragments": 1278,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_F",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.32",
                "min_intra_species_ani": "95.44",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 10,
                "status": "-"
            },
            {
                "accession": "GCF_002008345.1",
                "gtdb_species": "s__Clostridium_F tepidum",
                "ani": 87.9031,
                "matched_fragments": 811,
                "total_fragments": 1278,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_F",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.70",
                "min_intra_species_ani": "99.54",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 5,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.16,
        "cell_length": 0.434,
        "doubling_h": 0.353,
        "growth_tmp": 33.457,
        "optimum_tmp": 35.173,
        "optimum_ph": 6.947,
        "genome_size": 4165901.003,
        "gc_content": 29.49,
        "coding_genes": 3796.985,
        "rRNA16S_genes": 9.374,
        "tRNA_genes": 78.312,
        "gram_stain": 0.945,
        "sporulation": 0.967,
        "motility": 0.92,
        "range_salinity": 0.0,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 1.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 0.944,
        "thermophilic_range_tmp": 0.055,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 1.0,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Clostridium",
        "combesii"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}