{ "type": "genome", "identifier": "GCF_002086275.1", "organism": "Mycobacterium intermedium", "title": "Mycobacterium intermedium", "description": "na", "data type": "Genome sequencing and assembly", "organization": "San Raffaele Scientific Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002086275.1", "bioproject": "PRJNA224116", "biosample": "SAMN06064242", "wgs_master": "MVHT00000000.1", "refseq_category": "na", "taxid": "28445", "species_taxid": "28445", "organism_name": "Mycobacterium intermedium", "infraspecific_name": "strain=DSM 44049", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/04/11", "asm_name": "ASM208627v1", "asm_submitter": "San Raffaele Scientific Institute", "gbrs_paired_asm": "GCA_002086275.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/086/275/GCF_002086275.1_ASM208627v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6817968", "genome_size_ungapped": "6817968", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "384", "contig_count": "384", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002086275.1-RS_2024_05_17", "annotation_date": "2024-05-17", "total_gene_count": "6216", "protein_coding_gene_count": "5882", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-04-11", "dateModified": "2017-04-11", "datePublished": "2017-04-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycobacterium intermedium" ], "sample_taxid": [ "28445" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.908 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6817968", "Number of Sequences": "384", "Longest Sequences (bp)": "186391", "N50 (bp)": "56227", "Gap Ratio (%)": "0.000015", "GCcontent (%)": "65.8", "Number of CDSs": "5834", "Average Protein Length": "336.6", "Coding Ratio (%)": "86.4", "Number of rRNAs": "3", "Number of tRNAs": "52", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium shinjukuense", "strain": "strain=CCUG 53584", "accession": "GCA_002086755.1", "taxid": 398694, "species_taxid": 398694, "relation_to_type": "type", "validated": true, "ani": 80.9535, "matched_fragments": 890, 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"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": 80.7222, "matched_fragments": 1097, "total_fragments": 2131, "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": 80.5968, "matched_fragments": 1167, "total_fragments": 2131, "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": 80.5881, "matched_fragments": 1149, "total_fragments": 2131, "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": 80.5511, "matched_fragments": 1200, "total_fragments": 2131, "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": 80.4687, "matched_fragments": 1148, "total_fragments": 2131, "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": 80.412, "matched_fragments": 1026, "total_fragments": 2131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium bohemicum", "strain": 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1487726, "relation_to_type": "type", "validated": true, "ani": 80.2778, "matched_fragments": 974, "total_fragments": 2131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium kansasii", "strain": "strain=ATCC 12478", "accession": "GCA_000157895.2", "taxid": 1768, "species_taxid": 1768, "relation_to_type": "type", "validated": true, "ani": 80.2302, "matched_fragments": 1057, "total_fragments": 2131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium bohemicum", "strain": "strain=DSM 44277", "accession": "GCA_001053185.1", "taxid": 56425, "species_taxid": 56425, "relation_to_type": "type", "validated": true, "ani": 80.2297, "matched_fragments": 926, "total_fragments": 2131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium tuberculosis", "strain": "strain=H37Rv", "accession": "GCA_000195955.2", "taxid": 1773, "species_taxid": 1773, "relation_to_type": "type", "validated": true, "ani": 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