{
    "type": "genome",
    "identifier": "GCF_001431425.1",
    "organism": "Stenotrophomonas nitritireducens",
    "title": "Stenotrophomonas nitritireducens",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "CSIR-Institute of Microbial Technology",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001431425.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN03701629",
        "wgs_master": "LDJG00000000.1",
        "refseq_category": "na",
        "taxid": "83617",
        "species_taxid": "83617",
        "organism_name": "Stenotrophomonas nitritireducens",
        "infraspecific_name": "strain=DSM 12575",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2015/11/04",
        "asm_name": "ASM143142v1",
        "asm_submitter": "CSIR-Institute of Microbial Technology",
        "gbrs_paired_asm": "GCA_001431425.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/431/425/GCF_001431425.1_ASM143142v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3983487",
        "genome_size_ungapped": "3983487",
        "gc_percent": "68.500000",
        "replicon_count": "0",
        "scaffold_count": "95",
        "contig_count": "95",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_001431425.1-RS_2024_05_05",
        "annotation_date": "2024-05-05",
        "total_gene_count": "3615",
        "protein_coding_gene_count": "3497",
        "non_coding_gene_count": "61",
        "pubmed_id": "27014232"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2015-11-04",
    "dateModified": "2015-11-04",
    "datePublished": "2015-11-04",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Stenotrophomonas nitritireducens"
        ],
        "sample_taxid": [
            "83617"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Germany"
        ],
        "sample_host_location_id": [],
        "data_size": "1.078 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)": "3983487",
        "Number of Sequences": "95",
        "Longest Sequences (bp)": "322412",
        "N50 (bp)": "167790",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "68.3",
        "Number of CDSs": "3496",
        "Average Protein Length": "333.9",
        "Coding Ratio (%)": "87.9",
        "Number of rRNAs": "3",
        "Number of tRNAs": "59",
        "Number of CRISPRs": "2"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Stenotrophomonas nitritireducens",
                "strain": "strain=DSM 12575",
                "accession": "GCA_001431425.1",
                "taxid": 83617,
                "species_taxid": 83617,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1283,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Stenotrophomonas acidaminiphila",
                "strain": "strain=DSM 13117",
                "accession": "GCA_024221815.1",
                "taxid": 128780,
                "species_taxid": 128780,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.1186,
                "matched_fragments": 989,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stenotrophomonas acidaminiphila",
                "strain": "strain=JCM 13310",
                "accession": "GCA_001431595.1",
                "taxid": 128780,
                "species_taxid": 128780,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.9154,
                "matched_fragments": 937,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stenotrophomonas daejeonensis",
                "strain": "strain=JCM 16244",
                "accession": "GCA_001431505.1",
                "taxid": 659018,
                "species_taxid": 659018,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.694,
                "matched_fragments": 807,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stenotrophomonas pictorum",
                "strain": "strain=JCM 9942",
                "accession": "GCA_001431585.1",
                "taxid": 86184,
                "species_taxid": 86184,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.8463,
                "matched_fragments": 837,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stenotrophomonas pavanii",
                "strain": "strain=DSM 25135",
                "accession": "GCA_001431565.1",
                "taxid": 487698,
                "species_taxid": 487698,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.1444,
                "matched_fragments": 750,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stenotrophomonas pavanii",
                "strain": "strain=LMG 25348",
                "accession": "GCA_900101175.1",
                "taxid": 487698,
                "species_taxid": 487698,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.0405,
                "matched_fragments": 788,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stenotrophomonas lactitubi",
                "strain": "strain=M15",
                "accession": "GCA_002803515.1",
                "taxid": 2045214,
                "species_taxid": 2045214,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.4244,
                "matched_fragments": 809,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halorhodospira neutriphila",
                "strain": "strain=DSM 15116",
                "accession": "GCA_016584055.1",
                "taxid": 168379,
                "species_taxid": 168379,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7917,
                "matched_fragments": 115,
                "total_fragments": 1285,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001431425.1",
                "gtdb_species": "s__Stenotrophomonas nitritireducens",
                "ani": 100.0,
                "matched_fragments": 1283,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.94",
                "min_intra_species_ani": "98.42",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 3,
                "status": "conclusive"
            },
            {
                "accession": "GCF_009496535.1",
                "gtdb_species": "s__Stenotrophomonas sp003504055",
                "ani": 92.3655,
                "matched_fragments": 1010,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.53",
                "min_intra_species_ani": "96.53",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_001431595.1",
                "gtdb_species": "s__Stenotrophomonas acidaminiphila",
                "ani": 90.8981,
                "matched_fragments": 938,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.49",
                "min_intra_species_ani": "97.05",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 11,
                "status": "-"
            },
            {
                "accession": "GCF_002951995.1",
                "gtdb_species": "s__Stenotrophomonas acidaminiphila_A",
                "ani": 90.805,
                "matched_fragments": 991,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.50",
                "min_intra_species_ani": "98.36",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 13,
                "status": "-"
            },
            {
                "accession": "GCF_001431505.1",
                "gtdb_species": "s__Stenotrophomonas daejeonensis",
                "ani": 88.6768,
                "matched_fragments": 808,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas",
                "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": "GCA_900078405.1",
                "gtdb_species": "s__Stenotrophomonas sp900078405",
                "ani": 88.1006,
                "matched_fragments": 846,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas",
                "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_004348115.1",
                "gtdb_species": "s__Stenotrophomonas sp004348115",
                "ani": 86.3765,
                "matched_fragments": 905,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.00",
                "min_intra_species_ani": "98.00",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_004216795.1",
                "gtdb_species": "s__Stenotrophomonas_A sp004216795",
                "ani": 83.6692,
                "matched_fragments": 751,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas_A",
                "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": "GCA_004322525.1",
                "gtdb_species": "s__Lysobacter sp004322525",
                "ani": 78.4958,
                "matched_fragments": 303,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Lysobacter",
                "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_016584055.1",
                "gtdb_species": "s__Halorhodospira neutriphila",
                "ani": 76.8119,
                "matched_fragments": 114,
                "total_fragments": 1285,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Nitrococcales;f__Halorhodospiraceae;g__Halorhodospira",
                "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": -0.449,
        "cell_length": 0.058,
        "doubling_h": null,
        "growth_tmp": 30.0,
        "optimum_tmp": 29.25,
        "optimum_ph": 7.55,
        "genome_size": 4394601.25,
        "gc_content": 63.8,
        "coding_genes": 3764.0,
        "rRNA16S_genes": 4.0,
        "tRNA_genes": 67.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.625,
        "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": [
        "Stenotrophomonas",
        "nitritireducens"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}