{ "type": "genome", "identifier": "GCF_002101875.1", "organism": "Mycobacterium saskatchewanense", "title": "Mycobacterium saskatchewanense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Trento", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002101875.1", "bioproject": "PRJNA224116", "biosample": "SAMN04216948", "wgs_master": "LQPR00000000.1", "refseq_category": "na", "taxid": "220927", "species_taxid": "220927", "organism_name": "Mycobacterium saskatchewanense", "infraspecific_name": "strain=DSM 44616", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/04/20", "asm_name": "ASM210187v1", "asm_submitter": "University of Trento", "gbrs_paired_asm": "GCA_002101875.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/101/875/GCF_002101875.1_ASM210187v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5930935", "genome_size_ungapped": "5930935", "gc_percent": "68.500000", "replicon_count": "0", "scaffold_count": "87", "contig_count": "87", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-01-16", "total_gene_count": "5668", "protein_coding_gene_count": "5413", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-04-20", "dateModified": "2017-04-20", "datePublished": "2017-04-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycobacterium saskatchewanense" ], "sample_taxid": [ "220927" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada: Saskatchewan" ], "sample_host_location_id": [], "data_size": "1.632 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)": "5930935", "Number of Sequences": "87", "Longest Sequences (bp)": "316848", "N50 (bp)": "152462", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.3", "Number of CDSs": "5577", "Average Protein Length": "318.6", "Coding Ratio (%)": "89.9", "Number of rRNAs": "3", "Number of tRNAs": "54", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycobacterium saskatchewanense", "strain": "strain=DSM 44616", "accession": "GCA_002101875.1", "taxid": 220927, "species_taxid": 220927, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"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": 83.8264, "matched_fragments": 1142, "total_fragments": 1928, "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": 83.8171, "matched_fragments": 1126, "total_fragments": 1928, "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": 83.7584, "matched_fragments": 1270, "total_fragments": 1928, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium seoulense", "strain": "strain=JCM 16018", "accession": "GCA_010731595.1", "taxid": 386911, "species_taxid": 386911, "relation_to_type": "type", "validated": true, "ani": 83.3148, "matched_fragments": 1246, "total_fragments": 1928, "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": 83.2431, "matched_fragments": 1240, "total_fragments": 1928, "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": 83.1584, "matched_fragments": 1222, "total_fragments": 1928, "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": 82.8192, "matched_fragments": 1024, "total_fragments": 1928, "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": 82.8157, "matched_fragments": 1136, "total_fragments": 1928, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium intracellulare", "strain": "strain=ATCC 13950", "accession": "GCA_000277125.1", "taxid": 1767, "species_taxid": 1767, "relation_to_type": "suspected-type", "validated": true, "ani": 82.7981, "matched_fragments": 1139, "total_fragments": 1928, "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": 82.7462, "matched_fragments": 1146, "total_fragments": 1928, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_010729105.1", "gtdb_species": "s__Mycobacterium saskatchewanense", "ani": 99.9819, "matched_fragments": 1928, "total_fragments": 1928, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_902652685.1", "gtdb_species": "s__Mycobacterium sp902652685", 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