{ "type": "genome", "identifier": "GCF_025823385.1", "organism": "Mycobacterium paraense", "title": "Mycobacterium paraense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Uppsala University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025823385.1", "bioproject": "PRJNA224116", "biosample": "SAMN15568912", "wgs_master": "JACKVQ000000000.1", "refseq_category": "na", "taxid": "767916", "species_taxid": "767916", "organism_name": "Mycobacterium paraense", "infraspecific_name": "strain=DSM 46749", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/24", "asm_name": "ASM2582338v1", "asm_submitter": "Uppsala University", "gbrs_paired_asm": "GCA_025823385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/823/385/GCF_025823385.1_ASM2582338v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5624936", "genome_size_ungapped": "5624936", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "11", "contig_count": "11", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_025823385.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "5380", "protein_coding_gene_count": "5248", "non_coding_gene_count": "52", "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 paraense" ], "sample_taxid": [ "767916" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Brazil: Para, Parauapebas" ], "sample_host_location_id": [], "data_size": "1.527 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)": "5624936", "Number of Sequences": "11", "Longest Sequences (bp)": "1849602", "N50 (bp)": "1466099", "Gap Ratio (%)": "0.000231", "GCcontent (%)": "69.3", "Number of CDSs": "5354", "Average Protein Length": "325.7", "Coding Ratio (%)": "93.0", "Number of rRNAs": "3", "Number of tRNAs": "55", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium paraense", "strain": "strain=IEC26", "accession": "GCA_002101815.1", "taxid": 767916, "species_taxid": 767916, "relation_to_type": "type", "validated": true, "ani": 99.9869, "matched_fragments": 1841, "total_fragments": 1870, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mycobacterium heidelbergense", "strain": "strain=JCM 14842", "accession": "GCA_010730745.1", "taxid": 53376, "species_taxid": 53376, "relation_to_type": "type", "validated": true, "ani": 86.149, "matched_fragments": 1268, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium heidelbergense", "strain": "strain=DSM 44471", "accession": "GCA_002086215.1", "taxid": 53376, "species_taxid": 53376, "relation_to_type": "type", "validated": true, "ani": 86.1224, "matched_fragments": 1240, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium palustre", "strain": "strain=DSM 44572", "accession": "GCA_002101785.1", "taxid": 153971, "species_taxid": 153971, "relation_to_type": "type", "validated": true, "ani": 85.694, "matched_fragments": 1373, "total_fragments": 1870, "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": 84.3387, "matched_fragments": 1196, "total_fragments": 1870, "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": 84.3071, "matched_fragments": 1297, "total_fragments": 1870, "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": 84.2402, "matched_fragments": 1323, "total_fragments": 1870, "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": 84.1263, "matched_fragments": 1332, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare", "strain": "strain=ATCC 13950", "accession": "GCA_023278525.1", "taxid": 1767, "species_taxid": 1767, "relation_to_type": "suspected-type", "validated": true, "ani": 84.0325, "matched_fragments": 1265, "total_fragments": 1870, "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": 84.0121, "matched_fragments": 1291, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare subsp. yongonense", "strain": "strain=05-1390", "accession": "GCA_000418535.2", "taxid": 1203599, "species_taxid": 1767, "relation_to_type": "type", "validated": true, "ani": 84.003, "matched_fragments": 1291, "total_fragments": 1870, "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": 83.9522, "matched_fragments": 1284, "total_fragments": 1870, "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": 83.7751, "matched_fragments": 1140, "total_fragments": 1870, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium sherrisii", 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95.0, "mean_intra_species_ani": "98.85", "min_intra_species_ani": "98.84", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_001667185.1", "gtdb_species": "s__Mycobacterium sp001667185", "ani": 92.0481, "matched_fragments": 1594, "total_fragments": 1870, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001667015.1", "gtdb_species": "s__Mycobacterium sp001667015", "ani": 91.9406, "matched_fragments": 1575, "total_fragments": 1870, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, 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