{ "type": "genome", "identifier": "GCF_002983495.1", "organism": "Mycobacterium shigaense", "title": "Mycobacterium shigaense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "national institute of infectious diseases", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002983495.1", "bioproject": "PRJNA224116", "biosample": "SAMN06448869", "wgs_master": "MWON00000000.1", "refseq_category": "na", "taxid": "722731", "species_taxid": "722731", "organism_name": "Mycobacterium shigaense", "infraspecific_name": "strain=UN-152", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/08", "asm_name": "ASM298349v1", "asm_submitter": "national institute of infectious diseases", "gbrs_paired_asm": "GCA_002983495.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/983/495/GCF_002983495.1_ASM298349v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5198926", "genome_size_ungapped": "5198442", "gc_percent": "67.500000", "replicon_count": "0", "scaffold_count": "44", "contig_count": "44", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-09-06", "total_gene_count": "4993", "protein_coding_gene_count": "4722", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-08", "dateModified": "2018-03-08", "datePublished": "2018-03-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycobacterium shigaense" ], "sample_taxid": [ "722731" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "nontuberculous mycobacterial infection" ], "sample_host_disease_id": [], "sample_host_location": [ "Japan: Shiga" ], "sample_host_location_id": [], "data_size": "1.432 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)": "5198926", "Number of Sequences": "44", "Longest Sequences (bp)": "795030", "N50 (bp)": "345510", "Gap Ratio (%)": "0.009310", "GCcontent (%)": "67.3", "Number of CDSs": "4937", "Average Protein Length": "316.3", "Coding Ratio (%)": "90.1", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium shigaense", "strain": "strain=UN-152", "accession": "GCA_002983495.1", "taxid": 722731, "species_taxid": 722731, "relation_to_type": 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1714, "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": 82.6864, "matched_fragments": 1199, "total_fragments": 1714, "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": 82.6745, "matched_fragments": 1180, "total_fragments": 1714, "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": 82.3937, "matched_fragments": 1146, "total_fragments": 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