{ "type": "genome", "identifier": "GCF_010726645.1", "organism": "Mycolicibacterium duvalii", "title": "Mycolicibacterium duvalii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Department of Infection Metagenomics, Osaka University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_010726645.1", "bioproject": "PRJNA224116", "biosample": "SAMD00153169", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "39688", "species_taxid": "39688", "organism_name": "Mycolicibacterium duvalii", "infraspecific_name": "strain=JCM 6396", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/06", "asm_name": "ASM1072664v1", "asm_submitter": "Department of Infection Metagenomics, Osaka University", "gbrs_paired_asm": "GCA_010726645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/010/726/645/GCF_010726645.1_ASM1072664v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5657388", "genome_size_ungapped": "5657388", "gc_percent": "68.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_010726645.1-RS_2024_07_07", "annotation_date": "2024-07-07", "total_gene_count": "5442", "protein_coding_gene_count": "5293", "non_coding_gene_count": "55", "pubmed_id": "31287781" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-06", "dateModified": "2020-02-06", "datePublished": "2020-02-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycolicibacterium duvalii" ], "sample_taxid": [ "39688" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.536 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)": "5657388", "Number of Sequences": "1", "Longest Sequences (bp)": "5657388", "N50 (bp)": "5657388", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.3", "Number of CDSs": "5449", "Average Protein Length": "323.5", "Coding Ratio (%)": "93.5", "Number of rRNAs": "6", "Number of tRNAs": "55", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycolicibacterium vaccae", "strain": "strain=95051", "accession": "GCA_001655245.1", "taxid": 1810, "species_taxid": 1810, "relation_to_type": "type", "validated": true, "ani": 82.572, "matched_fragments": 1182, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium vaccae", "strain": "strain=NBRC 14118", "accession": "GCA_001552715.1", "taxid": 1810, "species_taxid": 1810, "relation_to_type": "type", "validated": true, "ani": 82.4525, "matched_fragments": 1086, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium chubuense", "strain": "strain=DSM 44219", "accession": "GCA_002086595.1", "taxid": 1800, "species_taxid": 1800, "relation_to_type": "type", "validated": true, "ani": 81.9949, "matched_fragments": 1119, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium chubuense", "strain": "strain=DSM 44219", "accession": "GCA_001044255.1", "taxid": 1800, "species_taxid": 1800, "relation_to_type": "type", "validated": true, "ani": 81.9889, "matched_fragments": 1115, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium chubuense", "strain": "strain=NCTC10819", "accession": "GCA_900453455.1", "taxid": 1800, "species_taxid": 1800, "relation_to_type": "type", "validated": true, "ani": 81.9632, "matched_fragments": 1133, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium psychrotolerans", "strain": "strain=JCM 13323", "accession": "GCA_010729305.1", "taxid": 216929, "species_taxid": 216929, "relation_to_type": "type", "validated": true, "ani": 81.9018, "matched_fragments": 1123, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium phlei", "strain": "strain=CCUG 21000", "accession": "GCA_009192875.1", "taxid": 1771, "species_taxid": 1771, "relation_to_type": "type", "validated": true, "ani": 81.328, "matched_fragments": 1054, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium phlei", "strain": "strain=CCUG 21000", "accession": "GCA_001583415.1", "taxid": 1771, "species_taxid": 1771, "relation_to_type": "type", "validated": true, "ani": 81.2927, "matched_fragments": 1076, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium phlei", "strain": "strain=DSM 43239 = CCUG 21000", "accession": "GCA_001582015.1", "taxid": 1771, "species_taxid": 1771, "relation_to_type": "type", "validated": true, "ani": 81.2921, "matched_fragments": 1058, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium rutilum", "strain": "strain=DSM 45405", "accession": "GCA_900108565.1", "taxid": 370526, "species_taxid": 370526, "relation_to_type": "type", "validated": true, "ani": 81.2139, "matched_fragments": 1039, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium aurum", "strain": "strain=NCTC 10437", "accession": "GCA_001049355.1", "taxid": 1791, "species_taxid": 1791, "relation_to_type": "type", "validated": true, "ani": 81.0893, "matched_fragments": 1093, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium aurum", "strain": "strain=NCTC10437", "accession": "GCA_900637195.1", "taxid": 1791, "species_taxid": 1791, "relation_to_type": "type", "validated": true, "ani": 81.0762, "matched_fragments": 1103, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium malmesburyense", "strain": "strain=WCM 7299", "accession": "GCA_001050015.1", "taxid": 1566886, "species_taxid": 1566886, "relation_to_type": "type", "validated": true, "ani": 80.5394, "matched_fragments": 998, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium doricum", "strain": "strain=JCM 12405", "accession": "GCA_010728155.1", "taxid": 126673, "species_taxid": 126673, "relation_to_type": "type", "validated": true, "ani": 80.3514, "matched_fragments": 709, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium baixiangningiae", "strain": "strain=LJ126", "accession": "GCA_016313185.1", "taxid": 2761578, "species_taxid": 2761578, "relation_to_type": "type", "validated": true, "ani": 80.3415, "matched_fragments": 968, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium baixiangningiae", "strain": "strain=LJ126", "accession": "GCA_014893035.1", "taxid": 2761578, "species_taxid": 2761578, "relation_to_type": "type", "validated": true, "ani": 80.2593, "matched_fragments": 966, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium doricum", "strain": "strain=DSM 44339", "accession": "GCA_002102115.1", "taxid": 126673, "species_taxid": 126673, "relation_to_type": "type", "validated": true, "ani": 80.2267, "matched_fragments": 702, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium houstonense", "strain": "strain=type strain: ATCC 49403", "accession": "GCA_900078665.2", "taxid": 146021, "species_taxid": 146021, "relation_to_type": "type", "validated": true, "ani": 80.018, "matched_fragments": 907, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium moriokaense", "strain": "strain=JCM 6375", "accession": "GCA_010726085.1", "taxid": 39691, "species_taxid": 39691, "relation_to_type": "type", "validated": true, "ani": 79.9456, "matched_fragments": 935, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium fortuitum subsp. fortuitum", "strain": "strain=JCM 6387", "accession": "GCA_022179545.1", "taxid": 144549, "species_taxid": 1766, "relation_to_type": "type", "validated": true, "ani": 79.8776, "matched_fragments": 845, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium moriokaense", "strain": "strain=CIP105393", "accession": "GCA_002086395.1", "taxid": 39691, "species_taxid": 39691, "relation_to_type": "type", "validated": true, "ani": 79.8489, "matched_fragments": 928, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium mageritense", "strain": "strain=CIP 104973", "accession": "GCA_000612825.1", "taxid": 53462, "species_taxid": 53462, "relation_to_type": "type", "validated": true, "ani": 79.8176, "matched_fragments": 887, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium lacusdiani", "strain": "strain=JXJ CY 35", 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1431246, "species_taxid": 1431246, "relation_to_type": "type", "validated": true, "ani": 79.5672, "matched_fragments": 790, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_010726645.1", "gtdb_species": "s__Mycobacterium duvalii", "ani": 100.0, "matched_fragments": 1885, "total_fragments": 1885, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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, "status": "conclusive" }, { "accession": "GCF_001545925.1", "gtdb_species": "s__Mycobacterium sp001545925", "ani": 82.5377, "matched_fragments": 1015, "total_fragments": 1885, "gtdb_taxonomy": 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