{ "type": "genome", "identifier": "GCF_900454305.1", "organism": "Nocardia otitidiscaviarum", "title": "Nocardia otitidiscaviarum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900454305.1", "bioproject": "PRJNA224116", "biosample": "SAMEA103980426", "wgs_master": "UGRY00000000.1", "refseq_category": "na", "taxid": "1823", "species_taxid": "1823", "organism_name": "Nocardia otitidiscaviarum", "infraspecific_name": "strain=NCTC1934", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/01", "asm_name": "54984_D01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900454305.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/454/305/GCF_900454305.1_54984_D01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7536042", "genome_size_ungapped": "7536042", "gc_percent": "69.000000", "replicon_count": "0", "scaffold_count": "8", "contig_count": "8", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900454305.1-RS_2024_08_15", "annotation_date": "2024-08-15", "total_gene_count": "6947", "protein_coding_gene_count": "6775", "non_coding_gene_count": "82", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-01", "dateModified": "2018-08-01", "datePublished": "2018-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardia otitidiscaviarum" ], "sample_taxid": [ "1823" ], "sample_host_organism": [ "Guinea pig" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [ "Indonesia" ], "sample_host_location_id": [], "data_size": "2.042 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.31, "strain_heterogeneity": 40.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7536042", "Number of Sequences": "8", "Longest Sequences (bp)": "5133750", "N50 (bp)": "5133750", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "69.0", "Number of CDSs": "6996", "Average Protein Length": "320.8", "Coding Ratio (%)": "89.4", "Number of rRNAs": "9", "Number of tRNAs": "84", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardia otitidiscaviarum", "strain": "strain=NCTC1934", "accession": "GCA_900454305.1", "taxid": 1823, "species_taxid": 1823, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2506, "total_fragments": 2509, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia otitidiscaviarum", "strain": "strain=NBRC 14405", "accession": "GCA_000308635.1", "taxid": 1823, "species_taxid": 1823, "relation_to_type": "type", "validated": true, "ani": 99.9598, "matched_fragments": 2391, "total_fragments": 2509, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia uniformis", "strain": "strain=JCM 3224", "accession": "GCA_013004475.1", "taxid": 53432, "species_taxid": 53432, "relation_to_type": "type", "validated": true, "ani": 83.1072, "matched_fragments": 1660, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia uniformis", "strain": "strain=NBRC 13702", "accession": "GCA_001613345.1", "taxid": 53432, "species_taxid": 53432, "relation_to_type": "type", "validated": true, "ani": 83.099, "matched_fragments": 1618, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia huaxiensis", "strain": "strain=WCH-YHL-001", "accession": "GCA_013744875.1", "taxid": 2755382, "species_taxid": 2755382, "relation_to_type": "type", "validated": true, "ani": 82.7439, "matched_fragments": 1511, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia acididurans", "strain": "strain=LPG 2", "accession": "GCA_016741815.1", "taxid": 2802282, "species_taxid": 2802282, "relation_to_type": "type", "validated": true, "ani": 82.5009, "matched_fragments": 1534, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia yamanashiensis", "strain": "strain=NBRC 100130", "accession": "GCA_001613325.1", "taxid": 209247, "species_taxid": 209247, "relation_to_type": "type", "validated": true, "ani": 82.372, "matched_fragments": 1472, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia crassostreae", "strain": "strain=NBRC 100342", "accession": "GCA_001613405.1", "taxid": 53428, "species_taxid": 53428, "relation_to_type": "type", "validated": true, "ani": 82.3522, "matched_fragments": 1494, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia yunnanensis", "strain": "strain=CFH S0054", "accession": "GCA_003626895.1", "taxid": 2382165, "species_taxid": 2382165, "relation_to_type": "type", "validated": true, "ani": 82.2822, "matched_fragments": 1421, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia niigatensis", "strain": "strain=NBRC 100131", "accession": "GCA_000308655.1", "taxid": 209249, "species_taxid": 209249, "relation_to_type": "type", "validated": true, "ani": 82.2143, "matched_fragments": 1359, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia farcinica", "strain": "strain=DSM 43257", "accession": "GCA_900156775.1", "taxid": 37329, "species_taxid": 37329, "relation_to_type": "type", "validated": true, "ani": 80.661, "matched_fragments": 1072, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia bhagyanarayanae", "strain": "strain=DSM 103495", "accession": "GCA_006716565.1", "taxid": 1215925, "species_taxid": 1215925, "relation_to_type": "type", "validated": true, "ani": 80.4543, "matched_fragments": 1194, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia lijiangensis", "strain": "strain=NBRC 108240", "accession": "GCA_001613045.1", "taxid": 299618, "species_taxid": 299618, "relation_to_type": "type", "validated": true, "ani": 80.2779, "matched_fragments": 1175, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.31, "strain_heterogeneity": 40.0 }, "gtdb_result": [ { "accession": "GCF_000308635.1", "gtdb_species": "s__Nocardia otitidiscaviarum", 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