{ "type": "genome", "identifier": "GCF_025821825.1", "organism": "Mycobacterium kubicae", "title": "Mycobacterium kubicae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Uppsala University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025821825.1", "bioproject": "PRJNA224116", "biosample": "SAMN15568989", "wgs_master": "JACKSR000000000.1", "refseq_category": "na", "taxid": "120959", "species_taxid": "120959", "organism_name": "Mycobacterium kubicae", "infraspecific_name": "strain=DSM 44627", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/24", "asm_name": "ASM2582182v1", "asm_submitter": "Uppsala University", "gbrs_paired_asm": "GCA_025821825.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/821/825/GCF_025821825.1_ASM2582182v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5812358", "genome_size_ungapped": "5812358", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "183", "contig_count": "183", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_025821825.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "5585", "protein_coding_gene_count": "5285", "non_coding_gene_count": "52", "pubmed_id": "36243697" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-10-24", "dateModified": "2022-10-24", "datePublished": "2022-10-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycobacterium kubicae" ], "sample_taxid": [ "120959" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: South Carolina" ], "sample_host_location_id": [], "data_size": "1.613 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 37.0, "max": 37.0 }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5812358", "Number of Sequences": "183", "Longest Sequences (bp)": "392117", "N50 (bp)": "185156", "Gap Ratio (%)": "0.001600", "GCcontent (%)": "66.0", "Number of CDSs": "5416", "Average Protein Length": "321.8", "Coding Ratio (%)": "90.0", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium kubicae", "strain": "strain=JCM 13573", "accession": "GCA_015689175.1", "taxid": 120959, "species_taxid": 120959, "relation_to_type": "type", "validated": true, "ani": 99.9925, "matched_fragments": 1882, "total_fragments": 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"organism_name": "Mycobacterium paraense", "strain": "strain=IEC26", "accession": "GCA_002101815.1", "taxid": 767916, "species_taxid": 767916, "relation_to_type": "type", "validated": true, "ani": 81.4856, "matched_fragments": 1094, "total_fragments": 1885, "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": 81.4453, "matched_fragments": 1013, "total_fragments": 1885, "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": 81.267, "matched_fragments": 1099, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium bohemicum", "strain": "strain=DSM 44277", "accession": "GCA_002102025.1", "taxid": 56425, "species_taxid": 56425, "relation_to_type": "type", "validated": true, "ani": 81.0984, "matched_fragments": 997, "total_fragments": 1885, "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": 81.087, "matched_fragments": 1034, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium paragordonae", "strain": "strain=49061", "accession": "GCA_003614435.1", "taxid": 1389713, "species_taxid": 1389713, "relation_to_type": "type", "validated": true, "ani": 80.9818, "matched_fragments": 1148, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium paragordonae", "strain": "strain=JCM 18565", "accession": "GCA_010723415.1", "taxid": 1389713, "species_taxid": 1389713, "relation_to_type": "type", "validated": true, "ani": 80.9712, "matched_fragments": 1138, "total_fragments": 1885, "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": 80.5328, "matched_fragments": 1003, "total_fragments": 1885, "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": 80.4751, "matched_fragments": 1005, "total_fragments": 1885, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { 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