{
    "type": "genome",
    "identifier": "GCF_001644045.1",
    "organism": "Methylomonas methanica",
    "title": "Methylomonas methanica",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Ghent University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001644045.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN04555161",
        "wgs_master": "LUUF00000000.1",
        "refseq_category": "reference genome",
        "taxid": "421",
        "species_taxid": "421",
        "organism_name": "Methylomonas methanica",
        "infraspecific_name": "strain=NCIMB 11130",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2016/05/16",
        "asm_name": "ASM164404v1",
        "asm_submitter": "Ghent University",
        "gbrs_paired_asm": "GCA_001644045.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/644/045/GCF_001644045.1_ASM164404v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "5023270",
        "genome_size_ungapped": "5023270",
        "gc_percent": "51.500000",
        "replicon_count": "0",
        "scaffold_count": "115",
        "contig_count": "115",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_001644045.1-RS_2024_06_22",
        "annotation_date": "2024-06-22",
        "total_gene_count": "4656",
        "protein_coding_gene_count": "4548",
        "non_coding_gene_count": "47",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2016-05-16",
    "dateModified": "2016-05-16",
    "datePublished": "2016-05-16",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Methylomonas methanica"
        ],
        "sample_taxid": [
            "421"
        ],
        "sample_host_organism": [
            "NA"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "NA"
        ],
        "sample_host_location_id": [],
        "data_size": "1.434 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 97.4,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "5023270",
        "Number of Sequences": "115",
        "Longest Sequences (bp)": "340507",
        "N50 (bp)": "101790",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "51.7",
        "Number of CDSs": "4542",
        "Average Protein Length": "320.1",
        "Coding Ratio (%)": "86.8",
        "Number of rRNAs": "3",
        "Number of tRNAs": "42",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Methylomonas denitrificans",
                "strain": "strain=FJG1",
                "accession": "GCA_000785705.2",
                "taxid": 1538553,
                "species_taxid": 1538553,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9901,
                "matched_fragments": 1612,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Methylomonas albis",
                "strain": "strain=EbA",
                "accession": "GCA_014850955.1",
                "taxid": 1854563,
                "species_taxid": 1854563,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.3234,
                "matched_fragments": 1177,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylomonas koyamae",
                "strain": "strain=JCM 16701",
                "accession": "GCA_001312005.1",
                "taxid": 702114,
                "species_taxid": 702114,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 79.9855,
                "matched_fragments": 683,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylomonas koyamae",
                "strain": "strain=Fw12E-Y",
                "accession": "GCA_019669905.1",
                "taxid": 702114,
                "species_taxid": 702114,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 79.9613,
                "matched_fragments": 735,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylomonas rhizoryzae",
                "strain": "strain=GJ1",
                "accession": "GCA_008632455.1",
                "taxid": 2608981,
                "species_taxid": 2608981,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.9314,
                "matched_fragments": 329,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylomarinum vadi",
                "strain": "strain=IT-4",
                "accession": "GCA_000733935.1",
                "taxid": 438855,
                "species_taxid": 438855,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.0291,
                "matched_fragments": 174,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylomicrobium lacus",
                "strain": "strain=LW14",
                "accession": "GCA_000527095.1",
                "taxid": 136992,
                "species_taxid": 136992,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7986,
                "matched_fragments": 179,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylosarcina fibrata",
                "strain": "strain=AML-C10",
                "accession": "GCA_000372865.1",
                "taxid": 105972,
                "species_taxid": 105972,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7406,
                "matched_fragments": 168,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacter marinus",
                "strain": "strain=A45",
                "accession": "GCA_000383855.1",
                "taxid": 34058,
                "species_taxid": 34058,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.617,
                "matched_fragments": 159,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylotuvimicrobium alcaliphilum",
                "strain": "strain=20Z",
                "accession": "GCA_000968535.1",
                "taxid": 271065,
                "species_taxid": 271065,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.2958,
                "matched_fragments": 127,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylomagnum ishizawai",
                "strain": "strain=RS11D-Pr",
                "accession": "GCA_019670005.1",
                "taxid": 1760988,
                "species_taxid": 1760988,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.6824,
                "matched_fragments": 85,
                "total_fragments": 1613,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 97.4,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCA_001644045.1",
                "gtdb_species": "s__Methylomonas methanica",
                "ani": 100.0,
                "matched_fragments": 1607,
                "total_fragments": 1613,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "1.00",
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                "num_clustered_genomes": 3,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001644035.1",
                "gtdb_species": "s__Methylomonas methanica_A",
                "ani": 88.5614,
                "matched_fragments": 1229,
                "total_fragments": 1613,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.96",
                "min_intra_species_ani": "95.96",
                "mean_intra_species_af": "0.85",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000515215.1",
                "gtdb_species": "s__Methylomonas sp000515215",
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                "matched_fragments": 1263,
                "total_fragments": 1613,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.46",
                "min_intra_species_ani": "95.46",
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                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_016865255.1",
                "gtdb_species": "s__Methylomonas sp000702925",
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas",
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                "mean_intra_species_ani": "97.47",
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                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 5,
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            },
            {
                "accession": "GCF_903064685.1",
                "gtdb_species": "s__Methylomonas sp903064685",
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
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            },
            {
                "accession": "GCF_903064715.1",
                "gtdb_species": "s__Methylomonas sp903064715",
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas",
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                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": 0.096,
        "cell_length": 0.397,
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        "growth_tmp": 24.05,
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        "genome_size": 5160014.286,
        "gc_content": 51.3,
        "coding_genes": 4488.0,
        "rRNA16S_genes": 3.0,
        "tRNA_genes": 46.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
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        "range_salinity": 0.0,
        "facultative_respiration": 1.0,
        "anaerobic_respiration": 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": [
        "Methylomonas",
        "methanica"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}