{ "type": "genome", "identifier": "GCF_900566085.1", "organism": "Mycobacterium attenuatum", "title": "Mycobacterium attenuatum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CHUV-UNIL", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900566085.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4938330", "wgs_master": "UPHT00000000.1", "refseq_category": "reference genome", "taxid": "2341086", "species_taxid": "2341086", "organism_name": "Mycobacterium attenuatum", "infraspecific_name": "strain=MK41", "isolate": "MK41", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/11/01", "asm_name": "LAUMK41", "asm_submitter": "CHUV-UNIL", "gbrs_paired_asm": "GCA_900566085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/566/085/GCF_900566085.1_LAUMK41", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6527895", "genome_size_ungapped": "6527895", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "230", "contig_count": "230", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900566085.1-RS_2024_04_25", "annotation_date": "2024-04-25", "total_gene_count": "5919", "protein_coding_gene_count": "5507", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-11-01", "dateModified": "2018-11-01", "datePublished": "2018-11-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycobacterium attenuatum" ], "sample_taxid": [ "2341086" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "diseased" ], "sample_host_disease_id": [], "sample_host_location": [ "Switzerland" ], "sample_host_location_id": [], "data_size": "1.818 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)": "6527895", "Number of Sequences": "230", "Longest Sequences (bp)": "215071", "N50 (bp)": "54408", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.8", "Number of CDSs": "5668", "Average Protein Length": "326.5", "Coding Ratio (%)": "85.0", "Number of rRNAs": "3", "Number of tRNAs": "55", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium attenuatum", "strain": "strain=MK41", "accession": "GCA_900566085.1", "taxid": 2341086, "species_taxid": 2341086, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2045, "total_fragments": 2059, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mycobacterium kansasii", "strain": "strain=ATCC 12478", "accession": "GCA_000157895.2", "taxid": 1768, "species_taxid": 1768, "relation_to_type": "type", "validated": true, "ani": 90.2196, "matched_fragments": 1765, "total_fragments": 2059, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium pseudokansasii", "strain": "strain=MK142", "accession": "GCA_900566075.1", "taxid": 2341080, "species_taxid": 2341080, "relation_to_type": "type", "validated": true, "ani": 89.7502, "matched_fragments": 1706, "total_fragments": 2059, "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": 88.3265, "matched_fragments": 1537, "total_fragments": 2059, "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": 87.922, "matched_fragments": 1640, "total_fragments": 2059, "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": 87.8999, "matched_fragments": 1640, "total_fragments": 2059, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium gastri", "strain": "strain=DSM 43505", "accession": "GCA_002102175.1", "taxid": 1777, "species_taxid": 1777, "relation_to_type": "type", "validated": true, "ani": 87.8384, "matched_fragments": 1520, "total_fragments": 2059, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium paraense", "strain": "strain=IEC26", 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