{ "type": "genome", "identifier": "GCF_001660385.1", "organism": "Thermobifida halotolerans", "title": "Thermobifida halotolerans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Yunnan Institute of Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001660385.1", "bioproject": "PRJNA224116", "biosample": "SAMN04009169", "wgs_master": "LIZN00000000.1", "refseq_category": "na", "taxid": "483545", "species_taxid": "483545", "organism_name": "Thermobifida halotolerans", "infraspecific_name": "strain=YIM 90462", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/06/08", "asm_name": "ASM166038v1", "asm_submitter": "Yunnan Institute of Microbiology", "gbrs_paired_asm": "GCA_001660385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/660/385/GCF_001660385.1_ASM166038v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5453353", "genome_size_ungapped": "5428596", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "74", "contig_count": "74", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001660385.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "5153", "protein_coding_gene_count": "4738", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-06-08", "dateModified": "2016-06-08", "datePublished": "2016-06-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Thermobifida halotolerans" ], "sample_taxid": [ "483545" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Yunnan" ], "sample_host_location_id": [], "data_size": "1.466 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)": "5453353", "Number of Sequences": "74", "Longest Sequences (bp)": "708299", "N50 (bp)": "195468", "Gap Ratio (%)": "0.463916", "GCcontent (%)": "71.2", "Number of CDSs": "4938", "Average Protein Length": "305.0", "Coding Ratio (%)": "82.9", "Number of rRNAs": "0", "Number of tRNAs": "64", "Number of CRISPRs": "25" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thermobifida halotolerans", "strain": "strain=YIM 90462", "accession": "GCA_001660385.1", "taxid": 483545, "species_taxid": 483545, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1777, "total_fragments": 1782, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thermobifida halotolerans", "strain": "strain=DSM 44931", "accession": "GCA_003574835.2", "taxid": 483545, "species_taxid": 483545, "relation_to_type": "type", "validated": true, "ani": 99.9562, "matched_fragments": 1774, "total_fragments": 1782, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thermobifida alba", "strain": "strain=DSM 43795", "accession": "GCA_023208015.1", "taxid": 53522, "species_taxid": 53522, "relation_to_type": "type", "validated": true, "ani": 88.826, "matched_fragments": 1280, "total_fragments": 1782, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermobifida cellulosilytica", "strain": "strain=TB100", "accession": "GCA_001517975.1", "taxid": 144786, "species_taxid": 144786, "relation_to_type": "type", "validated": true, "ani": 88.0551, "matched_fragments": 1186, "total_fragments": 1782, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermobifida fusca", "strain": "strain=NBRC 14071", "accession": "GCA_001592045.1", "taxid": 2021, "species_taxid": 2021, "relation_to_type": "type", "validated": true, "ani": 83.1782, "matched_fragments": 944, "total_fragments": 1782, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis mwathae", "strain": "strain=DSM 46659", "accession": "GCA_014201195.1", "taxid": 1472723, "species_taxid": 1472723, "relation_to_type": "type", "validated": true, "ani": 80.1552, "matched_fragments": 771, "total_fragments": 1782, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis sinuspersici", "strain": "strain=UTMC 00102", "accession": "GCA_001998325.1", "taxid": 501010, "species_taxid": 501010, "relation_to_type": "type", "validated": true, "ani": 79.9812, "matched_fragments": 773, "total_fragments": 1782, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis 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"GCA_024134545.1", "taxid": 163604, "species_taxid": 163604, "relation_to_type": "type", "validated": true, "ani": 79.3157, "matched_fragments": 752, "total_fragments": 1782, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001660385.1", "gtdb_species": "s__Thermobifida halotolerans", "ani": 100.0, "matched_fragments": 1777, "total_fragments": 1782, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Thermobifida", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.91", "min_intra_species_ani": "99.91", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_001517975.1", "gtdb_species": "s__Thermobifida cellulosilytica", "ani": 88.0406, "matched_fragments": 1187, "total_fragments": 1782, 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