{
    "type": "genome",
    "identifier": "GCF_002240575.1",
    "organism": "Clavibacter michiganensis subsp. michiganensis",
    "title": "Clavibacter michiganensis subsp. michiganensis",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Canadian Food Inspection Agency",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002240575.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN06579286",
        "wgs_master": "MZMP00000000.1",
        "refseq_category": "na",
        "taxid": "33013",
        "species_taxid": "28447",
        "organism_name": "Clavibacter michiganensis subsp. michiganensis",
        "infraspecific_name": "strain=LMG 7333",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2017/03/24",
        "asm_name": "ASM224057v1",
        "asm_submitter": "Canadian Food Inspection Agency",
        "gbrs_paired_asm": "GCA_002240575.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/240/575/GCF_002240575.1_ASM224057v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3391512",
        "genome_size_ungapped": "3391512",
        "gc_percent": "72.500000",
        "replicon_count": "0",
        "scaffold_count": "5",
        "contig_count": "5",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002240575.1-RS_2024_10_22",
        "annotation_date": "2024-10-22",
        "total_gene_count": "3233",
        "protein_coding_gene_count": "3143",
        "non_coding_gene_count": "56",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2017-03-24",
    "dateModified": "2017-03-24",
    "datePublished": "2017-03-24",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Clavibacter michiganensis subsp. michiganensis"
        ],
        "sample_taxid": [
            "33013"
        ],
        "sample_host_organism": [
            "tomato"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Hungary"
        ],
        "sample_host_location_id": [],
        "data_size": "0.889 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)": "3391512",
        "Number of Sequences": "5",
        "Longest Sequences (bp)": "3301513",
        "N50 (bp)": "3301513",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "72.6",
        "Number of CDSs": "3202",
        "Average Protein Length": "320.2",
        "Coding Ratio (%)": "90.7",
        "Number of rRNAs": "6",
        "Number of tRNAs": "53",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Clavibacter michiganensis subsp. michiganensis",
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                "accession": "GCA_002240575.1",
                "taxid": 33013,
                "species_taxid": 28447,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1125,
                "total_fragments": 1128,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Clavibacter michiganensis",
                "strain": "strain=LMG7333",
                "accession": "GCA_021216655.1",
                "taxid": 28447,
                "species_taxid": 28447,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 99.9994,
                "matched_fragments": 1115,
                "total_fragments": 1128,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Clavibacter michiganensis",
                "strain": "strain=VKM Ac-1403",
                "accession": "GCA_900168345.1",
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                "species_taxid": 28447,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 99.9916,
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                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Clavibacter californiensis",
                "strain": "strain=CFBP 8216",
                "accession": "GCA_021952865.1",
                "taxid": 1401995,
                "species_taxid": 1401995,
                "relation_to_type": "type",
                "validated": true,
                "ani": 94.8824,
                "matched_fragments": 961,
                "total_fragments": 1128,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clavibacter californiensis",
                "strain": "strain=CFBP 8216",
                "accession": "GCA_003576155.1",
                "taxid": 1401995,
                "species_taxid": 1401995,
                "relation_to_type": "type",
                "validated": true,
                "ani": 94.6674,
                "matched_fragments": 643,
                "total_fragments": 1128,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clavibacter michiganensis subsp. insidiosus",
                "strain": "strain=CFBP 2404",
                "accession": "GCA_003693415.1",
                "taxid": 33014,
                "species_taxid": 28447,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.4486,
                "matched_fragments": 940,
                "total_fragments": 1128,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clavibacter phaseoli",
                "strain": "strain=LPPA 982",
                "accession": "GCA_021922925.1",
                "taxid": 1734031,
                "species_taxid": 1734031,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.4394,
                "matched_fragments": 953,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clavibacter michiganensis subsp. insidiosus",
                "strain": "strain=ATCC 10253",
                "accession": "GCA_003076355.1",
                "taxid": 33014,
                "species_taxid": 28447,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.4114,
                "matched_fragments": 950,
                "total_fragments": 1128,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_900168345.1",
                "gtdb_species": "s__Clavibacter michiganensis",
                "ani": 99.9916,
                "matched_fragments": 1083,
                "total_fragments": 1128,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.05",
                "min_intra_species_ani": "95.09",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 49,
                "status": "conclusive"
            },
            {
                "accession": "GCF_002931175.1",
                "gtdb_species": "s__Clavibacter californiensis",
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                "matched_fragments": 947,
                "total_fragments": 1128,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.71",
                "min_intra_species_ani": "98.71",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_016907085.1",
                "gtdb_species": "s__Clavibacter michiganensis_O",
                "ani": 93.9202,
                "matched_fragments": 972,
                "total_fragments": 1128,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter",
                "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_000355695.1",
                "gtdb_species": "s__Clavibacter nebraskensis",
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                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter",
                "ani_circumscription_radius": 95.1408,
                "mean_intra_species_ani": "99.97",
                "min_intra_species_ani": "99.95",
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                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 6,
                "status": "-"
            },
            {
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                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter",
                "ani_circumscription_radius": 95.1408,
                "mean_intra_species_ani": "99.26",
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                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 7,
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            },
            {
                "accession": "GCF_003576185.1",
                "gtdb_species": "s__Clavibacter phaseoli",
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                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter",
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                "mean_intra_species_ani": "N/A",
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                "num_clustered_genomes": 1,
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        ]
    },
    "_bac2feature": {
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    "_genome_taxon": [
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        "michiganensis",
        "subsp.",
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    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}