{ "type": "genome", "identifier": "GCF_010723575.1", "organism": "Mycobacterium bourgelatii", "title": "Mycobacterium bourgelatii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Department of Infection Metagenomics, Osaka University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_010723575.1", "bioproject": "PRJNA224116", "biosample": "SAMD00153222", "wgs_master": "BLKZ00000000.1", "refseq_category": "reference genome", "taxid": "1273442", "species_taxid": "1273442", "organism_name": "Mycobacterium bourgelatii", "infraspecific_name": "strain=JCM 30725", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/06", "asm_name": "ASM1072357v1", "asm_submitter": "Department of Infection Metagenomics, Osaka University", "gbrs_paired_asm": "GCA_010723575.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/010/723/575/GCF_010723575.1_ASM1072357v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6912804", "genome_size_ungapped": "6912804", "gc_percent": "65.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_010723575.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "6057", "protein_coding_gene_count": "5772", "non_coding_gene_count": "54", "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": [ "Mycobacterium bourgelatii" ], "sample_taxid": [ "1273442" ], "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": "1.900 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)": "6912804", "Number of Sequences": "2", "Longest Sequences (bp)": "5817465", "N50 (bp)": "5817465", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.7", "Number of CDSs": "6163", "Average Protein Length": "340.4", "Coding Ratio (%)": "91.0", "Number of rRNAs": "3", "Number of tRNAs": "59", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium shinjukuense", "strain": "strain=JCM 14233", "accession": "GCA_010730055.1", "taxid": 398694, "species_taxid": 398694, "relation_to_type": "type", "validated": true, "ani": 80.8676, "matched_fragments": 963, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium shinjukuense", "strain": "strain=CCUG 53584", "accession": "GCA_002086755.1", "taxid": 398694, "species_taxid": 398694, "relation_to_type": "type", "validated": true, "ani": 80.8647, "matched_fragments": 923, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium heidelbergense", "strain": "strain=JCM 14842", "accession": "GCA_010730745.1", "taxid": 53376, "species_taxid": 53376, "relation_to_type": "type", "validated": true, "ani": 80.8241, "matched_fragments": 1013, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium angelicum", "strain": "strain=DSM 45057", "accession": "GCA_002086155.1", "taxid": 470074, "species_taxid": 470074, "relation_to_type": "type", "validated": true, "ani": 80.8188, "matched_fragments": 1176, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium paraense", "strain": "strain=IEC26", "accession": "GCA_002101815.1", "taxid": 767916, "species_taxid": 767916, "relation_to_type": "type", "validated": true, "ani": 80.795, "matched_fragments": 1100, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium riyadhense", "strain": "strain=DSM 45176", "accession": "GCA_002101845.1", "taxid": 486698, "species_taxid": 486698, "relation_to_type": "type", "validated": true, "ani": 80.4816, "matched_fragments": 1098, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium innocens", "strain": "strain=MK13", "accession": "GCA_900566055.1", "taxid": 2341083, "species_taxid": 2341083, "relation_to_type": "type", "validated": true, "ani": 80.4562, "matched_fragments": 1011, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium kubicae", "strain": "strain=JCM 13573", "accession": "GCA_010723135.1", "taxid": 120959, "species_taxid": 120959, "relation_to_type": "type", "validated": true, "ani": 80.4243, "matched_fragments": 1039, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium colombiense", "strain": "strain=CECT 3035", "accession": "GCA_002105755.1", "taxid": 339268, "species_taxid": 339268, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4012, "matched_fragments": 1024, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium colombiense", "strain": "strain=CECT 3035", "accession": "GCA_000222105.4", "taxid": 339268, "species_taxid": 339268, "relation_to_type": "suspected-type", "validated": true, "ani": 80.3951, "matched_fragments": 1035, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium asiaticum", "strain": "strain=DSM 44297", "accession": "GCA_000613245.1", "taxid": 1790, "species_taxid": 1790, "relation_to_type": "suspected-type", "validated": true, "ani": 80.3234, "matched_fragments": 1199, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium simulans", "strain": "strain=FI-09026", "accession": "GCA_900232995.1", "taxid": 627089, "species_taxid": 627089, "relation_to_type": "type", "validated": true, "ani": 80.3124, "matched_fragments": 1146, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium asiaticum", "strain": "strain=DSM 44297", "accession": "GCA_002086545.1", "taxid": 1790, "species_taxid": 1790, "relation_to_type": "suspected-type", "validated": true, "ani": 80.2974, "matched_fragments": 1215, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium ostraviense", "strain": "strain=241/15", "accession": "GCA_002705925.1", "taxid": 2738409, "species_taxid": 2738409, "relation_to_type": "type", "validated": true, "ani": 80.2824, "matched_fragments": 1066, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium gordonae", "strain": "strain=DSM 44160", "accession": "GCA_002101675.1", "taxid": 1778, "species_taxid": 1778, "relation_to_type": "type", "validated": true, "ani": 80.2585, "matched_fragments": 1241, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium persicum", "strain": "strain=AFPC-000227", "accession": "GCA_002086675.1", "taxid": 1487726, "species_taxid": 1487726, "relation_to_type": "type", "validated": true, "ani": 80.2503, "matched_fragments": 995, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare subsp. yongonense", "strain": "strain=05-1390", "accession": "GCA_000418535.2", "taxid": 1203599, "species_taxid": 1767, "relation_to_type": "type", "validated": true, "ani": 80.2397, "matched_fragments": 1038, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium pseudokansasii", "strain": "strain=MK142", "accession": "GCA_900566075.1", "taxid": 2341080, "species_taxid": 2341080, "relation_to_type": "type", "validated": true, "ani": 80.0796, "matched_fragments": 1077, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium parmense", "strain": "strain=DSM 44553", "accession": "GCA_002102335.1", "taxid": 185642, "species_taxid": 185642, "relation_to_type": "type", "validated": true, "ani": 80.0555, "matched_fragments": 987, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium vicinigordonae", "strain": "strain=24", "accession": "GCA_013466425.1", "taxid": 1719132, "species_taxid": 1719132, "relation_to_type": "type", "validated": true, "ani": 79.9367, "matched_fragments": 1066, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium haemophilum", "strain": "strain=ATCC 29548", "accession": "GCA_000340435.3", "taxid": 29311, "species_taxid": 29311, "relation_to_type": "type", "validated": true, "ani": 79.4921, "matched_fragments": 748, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium pallens", "strain": "strain=JCM 16370", "accession": "GCA_019456675.1", "taxid": 370524, "species_taxid": 370524, "relation_to_type": "type", "validated": true, "ani": 78.363, "matched_fragments": 702, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium fortuitum subsp. fortuitum", "strain": 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"GCA_003719305.1", "taxid": 2358193, "species_taxid": 2358193, "relation_to_type": "type", "validated": true, "ani": 78.1562, "matched_fragments": 664, "total_fragments": 2304, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_010723575.1", "gtdb_species": "s__Mycobacterium bourgelatii", "ani": 100.0, "matched_fragments": 2303, "total_fragments": 2304, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_002086275.1", "gtdb_species": "s__Mycobacterium intermedium", "ani": 91.9281, "matched_fragments": 1898, "total_fragments": 2304, "gtdb_taxonomy": 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