{ "type": "genome", "identifier": "GCF_025821485.1", "organism": "Mycobacterium palustre", "title": "Mycobacterium palustre", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Uppsala University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025821485.1", "bioproject": "PRJNA224116", "biosample": "SAMN15569007", "wgs_master": "JACKRZ000000000.1", "refseq_category": "na", "taxid": "153971", "species_taxid": "153971", "organism_name": "Mycobacterium palustre", "infraspecific_name": "strain=DSM 44572", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/24", "asm_name": "ASM2582148v1", "asm_submitter": "Uppsala University", "gbrs_paired_asm": "GCA_025821485.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/821/485/GCF_025821485.1_ASM2582148v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5574396", "genome_size_ungapped": "5574296", "gc_percent": "68.500000", "replicon_count": "0", "scaffold_count": "497", "contig_count": "497", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_025821485.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "5751", "protein_coding_gene_count": "5211", "non_coding_gene_count": "53", "pubmed_id": "36243697" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-10-24", "dateModified": "2022-10-24", "datePublished": "2022-10-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycobacterium palustre" ], "sample_taxid": [ "153971" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Finland: Karstula" ], "sample_host_location_id": [], "data_size": "1.533 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 37.0, "max": 37.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5574396", "Number of Sequences": "497", "Longest Sequences (bp)": "228101", "N50 (bp)": "23054", "Gap Ratio (%)": "0.002906", "GCcontent (%)": "68.7", "Number of CDSs": "5023", "Average Protein Length": "305.1", "Coding Ratio (%)": "82.5", "Number of rRNAs": "3", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium palustre", "strain": "strain=DSM 44572", "accession": "GCA_002101785.1", "taxid": 153971, "species_taxid": 153971, "relation_to_type": "type", "validated": true, "ani": 99.9142, "matched_fragments": 1578, "total_fragments": 1629, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mycobacterium heidelbergense", "strain": "strain=DSM 44471", "accession": "GCA_002086215.1", "taxid": 53376, "species_taxid": 53376, "relation_to_type": "type", "validated": true, "ani": 85.8121, "matched_fragments": 1063, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium heidelbergense", "strain": "strain=JCM 14842", "accession": "GCA_010730745.1", "taxid": 53376, "species_taxid": 53376, "relation_to_type": "type", "validated": true, "ani": 85.8077, "matched_fragments": 1073, "total_fragments": 1629, "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": 85.7308, "matched_fragments": 1227, "total_fragments": 1629, "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": 84.2706, "matched_fragments": 1039, "total_fragments": 1629, "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": 84.2119, "matched_fragments": 1082, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium paraseoulense", "strain": "strain=JCM 16952", "accession": "GCA_010731655.1", "taxid": 590652, "species_taxid": 590652, "relation_to_type": "type", "validated": true, "ani": 83.7132, "matched_fragments": 1113, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare", "strain": "strain=ATCC 13950", "accession": "GCA_000172115.1", "taxid": 1767, "species_taxid": 1767, "relation_to_type": "suspected-type", "validated": true, "ani": 83.7028, "matched_fragments": 995, "total_fragments": 1629, "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": 83.6831, "matched_fragments": 1090, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare subsp. chimaera", "strain": "strain=DSM 44623", "accession": "GCA_002219285.1", "taxid": 222805, "species_taxid": 1767, "relation_to_type": "type", "validated": true, "ani": 83.6751, "matched_fragments": 1080, "total_fragments": 1629, "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": 83.634, "matched_fragments": 1099, "total_fragments": 1629, "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": 83.6085, "matched_fragments": 1072, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium helveticum", "strain": "strain=16-83", "accession": "GCA_007714205.1", "taxid": 2592811, "species_taxid": 2592811, "relation_to_type": "type", "validated": true, "ani": 83.6014, "matched_fragments": 971, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium conspicuum", "strain": "strain=JCM 14738", "accession": "GCA_010730195.1", "taxid": 44010, "species_taxid": 44010, "relation_to_type": "type", "validated": true, "ani": 82.797, "matched_fragments": 1070, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium conspicuum", "strain": "strain=DSM 44136", "accession": "GCA_002102095.1", "taxid": 44010, "species_taxid": 44010, "relation_to_type": "type", "validated": true, "ani": 82.7727, "matched_fragments": 1076, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium lacus", "strain": "strain=DSM 44577", "accession": "GCA_002102215.1", "taxid": 169765, "species_taxid": 169765, "relation_to_type": "type", "validated": true, "ani": 82.2548, "matched_fragments": 879, "total_fragments": 1629, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium lacus", "strain": "strain=JCM 15657", "accession": "GCA_010731535.1", "taxid": 169765, "species_taxid": 169765, 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