{ "type": "genome", "identifier": "GCF_900640115.1", "organism": "Legionella yabuuchiae", "title": "Legionella yabuuchiae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "INSTITUT PASTEUR", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900640115.1", "bioproject": "PRJNA224116", "biosample": "SAMEA5198072", "wgs_master": "CAAAIW000000000.1", "refseq_category": "reference genome", "taxid": "376727", "species_taxid": "376727", "organism_name": "Legionella yabuuchiae", "infraspecific_name": "strain=OA1-2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/02/04", "asm_name": "Leg_yabuuchiae_OA1-2.v1", "asm_submitter": "INSTITUT PASTEUR", "gbrs_paired_asm": "GCA_900640115.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/640/115/GCF_900640115.1_Leg_yabuuchiae_OA1-2.v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2649555", "genome_size_ungapped": "2649555", "gc_percent": "41.000000", "replicon_count": "0", "scaffold_count": "89", "contig_count": "89", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900640115.1-RS_2024_04_10", "annotation_date": "2024-04-10", "total_gene_count": "2451", "protein_coding_gene_count": "2323", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-02-04", "dateModified": "2019-02-04", "datePublished": "2019-02-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Legionella yabuuchiae" ], "sample_taxid": [ "376727" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.757 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)": "2649555", "Number of Sequences": "89", "Longest Sequences (bp)": "169189", "N50 (bp)": "88988", "Gap Ratio (%)": "0.000189", "GCcontent (%)": "41.0", "Number of CDSs": "2336", "Average Protein Length": "322.9", "Coding Ratio (%)": "85.4", "Number of rRNAs": "3", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Legionella yabuuchiae", "strain": "strain=OA1-2", "accession": "GCA_900640115.1", "taxid": 376727, "species_taxid": 376727, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 842, "total_fragments": 845, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Legionella impletisoli", "strain": "strain=OA1-1", "accession": "GCA_900639875.1", "taxid": 343510, "species_taxid": 343510, "relation_to_type": "type", "validated": true, "ani": 79.8901, "matched_fragments": 449, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella impletisoli", "strain": "strain=JCM 13919", "accession": "GCA_014646855.1", "taxid": 343510, "species_taxid": 343510, "relation_to_type": "type", "validated": true, "ani": 79.7705, "matched_fragments": 464, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella oakridgensis", "strain": "strain=Oak Ridge-10", "accession": "GCA_001467925.1", "taxid": 29423, "species_taxid": 29423, "relation_to_type": "type", "validated": true, "ani": 78.1651, "matched_fragments": 82, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella maceachernii", "strain": "strain=PX-1-G2-E2", "accession": "GCA_001467845.1", "taxid": 466, "species_taxid": 466, "relation_to_type": "type", "validated": true, "ani": 77.9124, "matched_fragments": 59, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella longbeachae", "strain": "strain=FDAARGOS_1481", "accession": "GCA_019930685.1", "taxid": 450, "species_taxid": 450, "relation_to_type": "type", "validated": true, "ani": 77.6596, "matched_fragments": 52, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella lytica", "strain": "strain=PCM 2298", "accession": "GCA_023921225.1", "taxid": 96232, "species_taxid": 96232, "relation_to_type": "type", "validated": true, "ani": 77.4386, "matched_fragments": 51, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella adelaidensis", "strain": "strain=1762-AUS-E", "accession": "GCA_001467055.1", "taxid": 45056, "species_taxid": 45056, "relation_to_type": "type", "validated": true, "ani": 77.3513, "matched_fragments": 58, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella bononiensis", "strain": "strain=30cs62", "accession": "GCA_016786415.1", "taxid": 2793102, "species_taxid": 2793102, "relation_to_type": "type", "validated": true, "ani": 77.3149, "matched_fragments": 54, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella septentrionalis", "strain": "strain=km711", "accession": "GCA_003989745.1", "taxid": 2498109, "species_taxid": 2498109, "relation_to_type": "type", "validated": true, "ani": 77.2996, "matched_fragments": 73, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella nagasakiensis", "strain": "strain=JCM 15315", "accession": "GCA_900639915.1", "taxid": 535290, "species_taxid": 535290, "relation_to_type": "type", "validated": true, "ani": 77.2201, "matched_fragments": 85, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella anisa", "strain": "strain=WA-316-C3", "accession": "GCA_001467525.1", "taxid": 28082, "species_taxid": 28082, "relation_to_type": "type", "validated": true, "ani": 76.8342, "matched_fragments": 66, "total_fragments": 845, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900640115.1", "gtdb_species": "s__Legionella_A yabuuchiae", "ani": 100.0, "matched_fragments": 842, "total_fragments": 845, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella_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": "conclusive" }, { "accession": "GCF_004571175.1", "gtdb_species": "s__Legionella_D israelensis", "ani": 80.2828, "matched_fragments": 76, "total_fragments": 845, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.34", "min_intra_species_ani": "97.95", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.86", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900639875.1", "gtdb_species": "s__Legionella_A impletisoli", "ani": 79.8901, "matched_fragments": 449, "total_fragments": 845, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella_A", "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", 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"coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Legionella", "yabuuchiae" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }