{ "type": "genome", "identifier": "GCF_013466425.1", "organism": "Mycobacterium vicinigordonae", "title": "Mycobacterium vicinigordonae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Beijing Chest Hospital, Capital Medical University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013466425.1", "bioproject": "PRJNA224116", "biosample": "SAMN15540336", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1719132", "species_taxid": "1719132", "organism_name": "Mycobacterium vicinigordonae", "infraspecific_name": "strain=24", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/22", "asm_name": "ASM1346642v1", "asm_submitter": "Beijing Chest Hospital, Capital Medical University", "gbrs_paired_asm": "GCA_013466425.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/466/425/GCF_013466425.1_ASM1346642v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6266765", "genome_size_ungapped": "6266765", "gc_percent": "65.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013466425.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "5677", "protein_coding_gene_count": "5526", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-22", "dateModified": "2020-07-22", "datePublished": "2020-07-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycobacterium vicinigordonae" ], "sample_taxid": [ "1719132" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Guangdong" ], "sample_host_location_id": [], "data_size": "1.735 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)": "6266765", "Number of Sequences": "1", "Longest Sequences (bp)": "6266765", "N50 (bp)": "6266765", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.4", "Number of CDSs": "5674", "Average Protein Length": "337.2", "Coding Ratio (%)": "91.6", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium vicinigordonae", "strain": "strain=24", "accession": "GCA_013466425.1", "taxid": 1719132, "species_taxid": 1719132, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2088, "total_fragments": 2088, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mycobacterium paragordonae", "strain": "strain=JCM 18565", "accession": "GCA_010723415.1", "taxid": 1389713, "species_taxid": 1389713, "relation_to_type": "type", "validated": true, "ani": 81.342, "matched_fragments": 1312, "total_fragments": 2088, "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": 81.339, "matched_fragments": 1318, "total_fragments": 2088, "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": 81.1542, "matched_fragments": 1235, "total_fragments": 2088, "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": 80.76, "matched_fragments": 1223, "total_fragments": 2088, "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": 80.7556, "matched_fragments": 1224, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium szulgai", "strain": "strain=DSM 44166", "accession": "GCA_002116635.1", "taxid": 1787, "species_taxid": 1787, "relation_to_type": "type", "validated": true, "ani": 80.269, "matched_fragments": 1081, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium paraintracellulare", "strain": "strain=JCM 30622", "accession": "GCA_010731935.1", "taxid": 1138383, "species_taxid": 1138383, "relation_to_type": "suspected-type", "validated": true, "ani": 80.2429, "matched_fragments": 1014, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare", "strain": "strain=ATCC 13950", "accession": "GCA_023278525.1", "taxid": 1767, "species_taxid": 1767, "relation_to_type": "suspected-type", "validated": true, "ani": 80.2318, "matched_fragments": 1008, "total_fragments": 2088, "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": 80.2262, "matched_fragments": 1024, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare", "strain": "strain=ATCC 13950", "accession": "GCA_000277125.1", "taxid": 1767, "species_taxid": 1767, "relation_to_type": "suspected-type", "validated": true, "ani": 80.2242, "matched_fragments": 1012, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium kubicae", "strain": "strain=CIP 106428", "accession": "GCA_002101745.1", "taxid": 120959, "species_taxid": 120959, "relation_to_type": "type", "validated": true, "ani": 80.1805, "matched_fragments": 1019, "total_fragments": 2088, "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": 80.1675, "matched_fragments": 1001, "total_fragments": 2088, "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": 80.0175, "matched_fragments": 985, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium nebraskense", "strain": "strain=DSM 44803", "accession": "GCA_002102255.1", "taxid": 244292, "species_taxid": 244292, "relation_to_type": "type", "validated": true, "ani": 79.9761, "matched_fragments": 993, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium saskatchewanense", "strain": "strain=DSM 44616", "accession": "GCA_002101875.1", "taxid": 220927, "species_taxid": 220927, "relation_to_type": "type", "validated": true, "ani": 79.9573, "matched_fragments": 947, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium saskatchewanense", "strain": "strain=JCM 13016", "accession": "GCA_010729105.1", "taxid": 220927, "species_taxid": 220927, "relation_to_type": "type", "validated": true, "ani": 79.8644, "matched_fragments": 982, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium sherrisii", "strain": "strain=ATCC BAA-832", "accession": "GCA_002102355.1", "taxid": 243061, "species_taxid": 243061, "relation_to_type": "type", "validated": true, "ani": 79.7893, "matched_fragments": 938, "total_fragments": 2088, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013466425.1", "gtdb_species": "s__Mycobacterium vicinigordonae", "ani": 100.0, "matched_fragments": 2088, "total_fragments": 2088, "gtdb_taxonomy": 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