{ "type": "genome", "identifier": "GCF_010730055.1", "organism": "Mycobacterium shinjukuense", "title": "Mycobacterium shinjukuense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Department of Infection Metagenomics, Osaka University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_010730055.1", "bioproject": "PRJNA224116", "biosample": "SAMD00153190", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "398694", "species_taxid": "398694", "organism_name": "Mycobacterium shinjukuense", "infraspecific_name": "strain=JCM 14233", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/06", "asm_name": "ASM1073005v1", "asm_submitter": "Department of Infection Metagenomics, Osaka University", "gbrs_paired_asm": "GCA_010730055.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/010/730/055/GCF_010730055.1_ASM1073005v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4504020", "genome_size_ungapped": "4504020", "gc_percent": "68.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_010730055.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "4127", "protein_coding_gene_count": "3764", "non_coding_gene_count": "51", "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 shinjukuense" ], "sample_taxid": [ "398694" ], "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": "1.222 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)": "4504020", "Number of Sequences": "1", "Longest Sequences (bp)": "4504020", "N50 (bp)": "4504020", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.8", "Number of CDSs": "4119", "Average Protein Length": "327.0", "Coding Ratio (%)": "89.7", "Number of rRNAs": "3", "Number of tRNAs": "52", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium shinjukuense", "strain": "strain=JCM 14233", "accession": "GCA_010730055.1", "taxid": 398694, "species_taxid": 398694, 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1501, "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": 82.4219, "matched_fragments": 1071, "total_fragments": 1501, "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": 82.1933, "matched_fragments": 1049, "total_fragments": 1501, "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": 82.1059, "matched_fragments": 934, "total_fragments": 1501, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium avium subsp. avium", "strain": "strain=ATCC 25291", "accession": "GCA_000174035.1", "taxid": 44454, "species_taxid": 1764, "relation_to_type": "type", "validated": true, "ani": 82.0335, "matched_fragments": 824, "total_fragments": 1501, "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": 81.9897, "matched_fragments": 1052, "total_fragments": 1501, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium avium subsp. avium", "strain": "strain=DSM 44156", "accession": "GCA_009741445.1", "taxid": 44454, "species_taxid": 1764, "relation_to_type": "type", "validated": true, "ani": 81.96, "matched_fragments": 892, "total_fragments": 1501, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium 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