{
    "type": "genome",
    "identifier": "GCF_001039055.1",
    "organism": "Pectobacterium carotovorum subsp. carotovorum ICMP 5702",
    "title": "Pectobacterium carotovorum subsp. carotovorum ICMP 5702",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Lincoln University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001039055.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN03782483",
        "wgs_master": "AODT00000000.1",
        "refseq_category": "na",
        "taxid": "1267545",
        "species_taxid": "554",
        "organism_name": "Pectobacterium carotovorum subsp. carotovorum ICMP 5702",
        "infraspecific_name": "strain=ICMP 5702",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2015/06/24",
        "asm_name": "ASM103905v1",
        "asm_submitter": "Lincoln University",
        "gbrs_paired_asm": "GCA_001039055.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/039/055/GCF_001039055.1_ASM103905v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "4774457",
        "genome_size_ungapped": "4774457",
        "gc_percent": "52.000000",
        "replicon_count": "0",
        "scaffold_count": "46",
        "contig_count": "46",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)",
        "annotation_date": "2024-02-03",
        "total_gene_count": "4340",
        "protein_coding_gene_count": "4175",
        "non_coding_gene_count": "104",
        "pubmed_id": "26251498"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2015-06-24",
    "dateModified": "2015-06-24",
    "datePublished": "2015-06-24",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Pectobacterium carotovorum subsp. carotovorum ICMP 5702"
        ],
        "sample_taxid": [
            "1267545"
        ],
        "sample_host_organism": [
            "potato"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Denmark"
        ],
        "sample_host_location_id": [],
        "data_size": "1.356 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)": "4774457",
        "Number of Sequences": "46",
        "Longest Sequences (bp)": "954987",
        "N50 (bp)": "448171",
        "Gap Ratio (%)": "0.000189",
        "GCcontent (%)": "51.9",
        "Number of CDSs": "4260",
        "Average Protein Length": "321.9",
        "Coding Ratio (%)": "86.2",
        "Number of rRNAs": "11",
        "Number of tRNAs": "74",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Pectobacterium carotovorum subsp. carotovorum",
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                "accession": "GCA_001039055.1",
                "taxid": 555,
                "species_taxid": 554,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1578,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Pectobacterium carotovorum",
                "strain": "strain=DSM 30168",
                "accession": "GCA_900129615.1",
                "taxid": 554,
                "species_taxid": 554,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9951,
                "matched_fragments": 1567,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Pectobacterium carotovorum subsp. carotovorum",
                "strain": "strain=NCPPB 312",
                "accession": "GCA_000749855.1",
                "taxid": 555,
                "species_taxid": 554,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 99.9838,
                "matched_fragments": 1563,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Pectobacterium versatile",
                "strain": "strain=CFBP6051",
                "accession": "GCA_004296685.1",
                "taxid": 2488639,
                "species_taxid": 2488639,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.7154,
                "matched_fragments": 1415,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Pectobacterium odoriferum",
                "strain": "strain=NCPPB 3839",
                "accession": "GCA_000754765.1",
                "taxid": 78398,
                "species_taxid": 78398,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.2536,
                "matched_fragments": 1346,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Pectobacterium aquaticum",
                "strain": "strain=A212-S19-A16",
                "accession": "GCA_003382565.3",
                "taxid": 2204145,
                "species_taxid": 2204145,
                "relation_to_type": "type",
                "validated": true,
                "ani": 94.105,
                "matched_fragments": 1220,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pectobacterium brasiliense",
                "strain": "strain=LMG 21371",
                "accession": "GCA_000754695.1",
                "taxid": 180957,
                "species_taxid": 180957,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.3076,
                "matched_fragments": 1371,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pectobacterium brasiliense",
                "strain": "strain=IPO:3540 CFBP:6617 ATCC:BAA-417 IBSBF:1692",
                "accession": "GCA_016950255.1",
                "taxid": 180957,
                "species_taxid": 180957,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.3032,
                "matched_fragments": 1379,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pectobacterium quasiaquaticum",
                "strain": "strain=A477-S1-J17",
                "accession": "GCA_014946775.2",
                "taxid": 2774015,
                "species_taxid": 2774015,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.0179,
                "matched_fragments": 1237,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pectobacterium colocasium",
                "strain": "strain=LJ1",
                "accession": "GCA_020181655.1",
                "taxid": 2878098,
                "species_taxid": 2878098,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.6214,
                "matched_fragments": 1319,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Serratia bockelmannii",
                "strain": "strain=S3",
                "accession": "GCA_008011855.1",
                "taxid": 2703793,
                "species_taxid": 2703793,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.6194,
                "matched_fragments": 449,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rahnella ecdela",
                "strain": "strain=FRB 231",
                "accession": "GCA_019049625.1",
                "taxid": 2816250,
                "species_taxid": 2816250,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.5417,
                "matched_fragments": 415,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rahnella rivi",
                "strain": "strain=FC061912-K",
                "accession": "GCA_019049655.1",
                "taxid": 2816249,
                "species_taxid": 2816249,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.4559,
                "matched_fragments": 425,
                "total_fragments": 1578,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_900129615.1",
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                "ani": 99.9951,
                "matched_fragments": 1567,
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pectobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.11",
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                "num_clustered_genomes": 81,
                "status": "conclusive"
            },
            {
                "accession": "GCF_003382565.2",
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pectobacterium",
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                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 15,
                "status": "-"
            },
            {
                "accession": "GCF_002307355.1",
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pectobacterium",
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                "min_intra_species_ani": "95.13",
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                "num_clustered_genomes": 21,
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            },
            {
                "accession": "GCF_000803315.1",
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pectobacterium",
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                "status": "-"
            },
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            },
            {
                "accession": "GCF_013449685.1",
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            },
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                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
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                "num_clustered_genomes": 1,
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            },
            {
                "accession": "GCF_015689195.1",
                "gtdb_species": "s__Pectobacterium aroidearum",
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                "num_clustered_genomes": 12,
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        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": -0.155,
        "growth_tmp": 27.5,
        "optimum_tmp": 27.25,
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        "gc_content": 51.876,
        "coding_genes": 4171.091,
        "rRNA16S_genes": 7.0,
        "tRNA_genes": 77.0,
        "gram_stain": 0.0,
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        "motility": 1.0,
        "range_salinity": 0.0,
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        "mesophilic_range_tmp": 1.0,
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        "bacillus_cell_shape": 1.0,
        "coccus_cell_shape": 0.0,
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        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
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    },
    "_genome_taxon": [
        "Pectobacterium",
        "carotovorum",
        "subsp.",
        "carotovorum",
        "ICMP",
        "5702"
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    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}