{ "type": "genome", "identifier": "GCF_900639985.1", "organism": "Legionella rowbothamii", "title": "Legionella rowbothamii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "INSTITUT PASTEUR", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900639985.1", "bioproject": "PRJNA224116", "biosample": "SAMEA5198062", "wgs_master": "CAAAIM000000000.1", "refseq_category": "reference genome", "taxid": "96229", "species_taxid": "96229", "organism_name": "Legionella rowbothamii", "infraspecific_name": "strain=LLAP6", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/02/04", "asm_name": "Leg_rowbothamii_LLAP6.v1", "asm_submitter": "INSTITUT PASTEUR", "gbrs_paired_asm": "GCA_900639985.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/639/985/GCF_900639985.1_Leg_rowbothamii_LLAP6.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": "3968753", "genome_size_ungapped": "3968753", "gc_percent": "39.500000", "replicon_count": "0", "scaffold_count": "35", "contig_count": "35", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900639985.1-RS_2024_04_10", "annotation_date": "2024-04-10", "total_gene_count": "3444", "protein_coding_gene_count": "3339", "non_coding_gene_count": "51", "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 rowbothamii" ], "sample_taxid": [ "96229" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.129 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)": "3968753", "Number of Sequences": "35", "Longest Sequences (bp)": "1271492", "N50 (bp)": "288806", "Gap Ratio (%)": "0.000025", "GCcontent (%)": "39.3", "Number of CDSs": "3387", "Average Protein Length": "334.7", "Coding Ratio (%)": "85.7", "Number of rRNAs": "3", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Legionella rowbothamii", "strain": "strain=LLAP6", "accession": "GCA_900639985.1", "taxid": 96229, "species_taxid": 96229, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1303, "total_fragments": 1307, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Legionella lytica", "strain": "strain=PCM 2298", "accession": "GCA_023921225.1", "taxid": 96232, "species_taxid": 96232, "relation_to_type": "type", "validated": true, "ani": 86.9873, "matched_fragments": 962, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella saoudiensis", "strain": "strain=LS-1", "accession": "GCA_001465875.1", "taxid": 1750561, "species_taxid": 1750561, "relation_to_type": "type", "validated": true, "ani": 84.249, "matched_fragments": 894, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella drancourtii", "strain": "strain=LLAP12", "accession": "GCA_000162755.2", "taxid": 168933, "species_taxid": 168933, "relation_to_type": "type", "validated": true, "ani": 79.8437, "matched_fragments": 431, "total_fragments": 1307, "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": 78.7673, "matched_fragments": 164, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella steelei", "strain": "strain=IMVS3376", "accession": "GCA_001468005.1", "taxid": 947033, "species_taxid": 947033, "relation_to_type": "type", "validated": true, "ani": 78.4588, "matched_fragments": 288, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella sainthelensi", "strain": "strain=Mt.St.Helens-4", "accession": "GCA_001468105.1", "taxid": 28087, "species_taxid": 28087, "relation_to_type": "type", "validated": true, "ani": 78.3422, "matched_fragments": 227, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella cherrii", "strain": "strain=ORW", "accession": "GCA_001467035.1", "taxid": 28084, "species_taxid": 28084, "relation_to_type": "type", "validated": true, "ani": 78.2123, "matched_fragments": 247, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fluoribacter dumoffii", "strain": "strain=NY 23", "accession": "GCA_000236165.1", "taxid": 463, "species_taxid": 463, "relation_to_type": "type", "validated": true, "ani": 78.199, "matched_fragments": 208, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella tucsonensis", "strain": "strain=1087-AZ-H", "accession": "GCA_900640035.1", "taxid": 40335, "species_taxid": 40335, "relation_to_type": "type", "validated": true, "ani": 78.0932, "matched_fragments": 222, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella tucsonensis", "strain": "strain=ATCC 49180", "accession": "GCA_001468035.1", "taxid": 40335, "species_taxid": 40335, "relation_to_type": "type", "validated": true, "ani": 78.0591, "matched_fragments": 227, "total_fragments": 1307, "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": 77.9848, "matched_fragments": 235, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella longbeachae", "strain": "strain=NCTC11477", "accession": "GCA_004283175.1", "taxid": 450, "species_taxid": 450, "relation_to_type": "type", "validated": true, "ani": 77.9481, "matched_fragments": 230, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella pneumophila subsp. pneumophila", "strain": "strain=PartS-Lpneumophila-RM8376", "accession": "GCA_022870105.1", "taxid": 91891, "species_taxid": 446, "relation_to_type": "type", "validated": true, "ani": 77.8294, "matched_fragments": 148, "total_fragments": 1307, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900639985.1", "gtdb_species": "s__Legionella rowbothamii", "ani": 100.0, "matched_fragments": 1303, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "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_001465875.1", "gtdb_species": "s__Legionella saoudiensis", "ani": 84.2597, "matched_fragments": 893, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "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_000162755.2", "gtdb_species": "s__Legionella drancourtii", "ani": 79.8682, "matched_fragments": 429, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "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_000423305.1", "gtdb_species": "s__Legionella moravica", "ani": 79.8378, "matched_fragments": 178, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.09", 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"mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001468005.1", "gtdb_species": "s__Legionella steelei", "ani": 78.4588, "matched_fragments": 288, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "98.94", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000236165.1", "gtdb_species": "s__Legionella dumoffii", "ani": 78.199, "matched_fragments": 208, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.81", "min_intra_species_ani": "99.55", "mean_intra_species_af": "0.97", 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"status": "-" }, { "accession": "GCA_016191305.1", "gtdb_species": "s__Legionella longbeachae_A", "ani": 77.9345, "matched_fragments": 163, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "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_001467695.1", "gtdb_species": "s__Legionella gratiana", "ani": 77.8889, "matched_fragments": 272, "total_fragments": 1307, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { 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