{
    "type": "genome",
    "identifier": "GCF_000429385.1",
    "organism": "Alcaligenes phenolicus DSM 16503",
    "title": "Alcaligenes phenolicus DSM 16503",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000429385.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02441201",
        "wgs_master": "AUBT00000000.1",
        "refseq_category": "na",
        "taxid": "1120962",
        "species_taxid": "232846",
        "organism_name": "Alcaligenes phenolicus DSM 16503",
        "infraspecific_name": "strain=DSM 16503",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2013/09/05",
        "asm_name": "ASM42938v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_000429385.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/429/385/GCF_000429385.1_ASM42938v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "4248310",
        "genome_size_ungapped": "4247680",
        "gc_percent": "56.500000",
        "replicon_count": "0",
        "scaffold_count": "27",
        "contig_count": "29",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000429385.1-RS_2024_07_17",
        "annotation_date": "2024-07-17",
        "total_gene_count": "3936",
        "protein_coding_gene_count": "3840",
        "non_coding_gene_count": "55",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2013-09-05",
    "dateModified": "2013-09-05",
    "datePublished": "2013-09-05",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Alcaligenes phenolicus DSM 16503"
        ],
        "sample_taxid": [
            "1120962"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA"
        ],
        "sample_host_location_id": [],
        "data_size": "1.206 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)": "4248310",
        "Number of Sequences": "27",
        "Longest Sequences (bp)": "579418",
        "N50 (bp)": "345065",
        "Gap Ratio (%)": "0.014829",
        "GCcontent (%)": "56.4",
        "Number of CDSs": "3873",
        "Average Protein Length": "321.4",
        "Coding Ratio (%)": "87.9",
        "Number of rRNAs": "3",
        "Number of tRNAs": "47",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Alcaligenes faecalis subsp. faecalis",
                "strain": "strain=NBRC 13111",
                "accession": "GCA_000739855.1",
                "taxid": 32001,
                "species_taxid": 511,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.2661,
                "matched_fragments": 1134,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alcaligenes faecalis",
                "strain": "strain=ATCC 8750",
                "accession": "GCA_001298815.1",
                "taxid": 511,
                "species_taxid": 511,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.2306,
                "matched_fragments": 1135,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alcaligenes faecalis subsp. faecalis",
                "strain": "strain=NBRC 13111",
                "accession": "GCA_001748345.1",
                "taxid": 32001,
                "species_taxid": 511,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.2225,
                "matched_fragments": 1143,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alcaligenes faecalis",
                "strain": "strain=DSM 30030",
                "accession": "GCA_002443155.1",
                "taxid": 511,
                "species_taxid": 511,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.2016,
                "matched_fragments": 1142,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alcaligenes ammonioxydans",
                "strain": "strain=HO-1",
                "accession": "GCA_019343455.1",
                "taxid": 2582914,
                "species_taxid": 2582914,
                "relation_to_type": "type",
                "validated": true,
                "ani": 87.2406,
                "matched_fragments": 1042,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alcaligenes pakistanensis",
                "strain": "strain=KCTC 42083",
                "accession": "GCA_014652815.1",
                "taxid": 1482717,
                "species_taxid": 1482717,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.8155,
                "matched_fragments": 1072,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Eoetvoesia caeni",
                "strain": "strain=PB3-7B",
                "accession": "GCA_022688825.1",
                "taxid": 645616,
                "species_taxid": 645616,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.6539,
                "matched_fragments": 204,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pusillimonas faecipullorum",
                "strain": "strain=CC-YST705",
                "accession": "GCA_020539505.1",
                "taxid": 2755040,
                "species_taxid": 2755040,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1124,
                "matched_fragments": 129,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Bordetella bronchiseptica",
                "strain": "strain=CCUG 219",
                "accession": "GCA_021391275.1",
                "taxid": 518,
                "species_taxid": 518,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 76.8052,
                "matched_fragments": 178,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Achromobacter insolitus",
                "strain": "strain=NCTC 13520",
                "accession": "GCA_024168865.1",
                "taxid": 217204,
                "species_taxid": 217204,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.589,
                "matched_fragments": 201,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Limnohabitans radicicola",
                "strain": "strain=JUR4",
                "accession": "GCA_014837235.1",
                "taxid": 2771427,
                "species_taxid": 2771427,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.1382,
                "matched_fragments": 76,
                "total_fragments": 1403,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_005311025.1",
                "gtdb_species": "s__Alcaligenes phenolicus",
                "ani": 96.1636,
                "matched_fragments": 1206,
                "total_fragments": 1403,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Alcaligenes",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.79",
                "min_intra_species_ani": "96.15",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 11,
                "status": "conclusive"
            },
            {
                "accession": "GCF_009497775.1",
                "gtdb_species": "s__Alcaligenes faecalis_D",
                "ani": 93.2141,
                "matched_fragments": 1168,
                "total_fragments": 1403,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Alcaligenes",
                "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_002443155.1",
                "gtdb_species": "s__Alcaligenes faecalis",
                "ani": 93.2016,
                "matched_fragments": 1142,
                "total_fragments": 1403,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Alcaligenes",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.39",
                "min_intra_species_ani": "97.71",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 22,
                "status": "-"
            },
            {
                "accession": "GCF_003076515.1",
                "gtdb_species": "s__Alcaligenes aquatilis",
                "ani": 90.0797,
                "matched_fragments": 1080,
                "total_fragments": 1403,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Alcaligenes",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.23",
                "min_intra_species_ani": "96.52",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
                "accession": "GCF_017377875.1",
                "gtdb_species": "s__Alcaligenes sp017377875",
                "ani": 89.4674,
                "matched_fragments": 1145,
                "total_fragments": 1403,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Alcaligenes",
                "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": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.134,
        "cell_length": 0.059,
        "doubling_h": null,
        "growth_tmp": 31.0,
        "optimum_tmp": 25.75,
        "optimum_ph": null,
        "genome_size": 4102893.75,
        "gc_content": 56.732,
        "coding_genes": 3698.667,
        "rRNA16S_genes": 3.0,
        "tRNA_genes": 57.4,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": 1.0,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "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": [
        "Alcaligenes",
        "phenolicus",
        "DSM",
        "16503"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}