{ "type": "genome", "identifier": "GCF_003600245.1", "organism": "Amycolatopsis panacis", "title": "Amycolatopsis panacis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Yunnan Institute of Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003600245.1", "bioproject": "PRJNA224116", "biosample": "SAMN10089540", "wgs_master": "QZFV00000000.1", "refseq_category": "reference genome", "taxid": "2340917", "species_taxid": "2340917", "organism_name": "Amycolatopsis panacis", "infraspecific_name": "strain=YIM PH21725", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/09/26", "asm_name": "ASM360024v1", "asm_submitter": "Yunnan Institute of Microbiology", "gbrs_paired_asm": "GCA_003600245.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/600/245/GCF_003600245.1_ASM360024v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6978358", "genome_size_ungapped": "6978266", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "153", "contig_count": "153", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003600245.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "6367", "protein_coding_gene_count": "6145", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-09-26", "dateModified": "2018-09-26", "datePublished": "2018-09-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Amycolatopsis panacis" ], "sample_taxid": [ "2340917" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.900 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)": "6978358", "Number of Sequences": "153", "Longest Sequences (bp)": "281414", "N50 (bp)": "94522", "Gap Ratio (%)": "0.001318", "GCcontent (%)": "69.4", "Number of CDSs": "6359", "Average Protein Length": "319.2", "Coding Ratio (%)": "87.3", "Number of rRNAs": "3", "Number of tRNAs": "59", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amycolatopsis panacis", "strain": "strain=YIM PH21725", "accession": "GCA_003600245.1", "taxid": 2340917, "species_taxid": 2340917, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2243, "total_fragments": 2252, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Amycolatopsis sulphurea", "strain": "strain=DSM 46092", "accession": "GCA_002564045.1", "taxid": 76022, "species_taxid": 76022, "relation_to_type": "type", "validated": true, "ani": 95.1974, "matched_fragments": 1875, "total_fragments": 2252, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Amycolatopsis jiangsuensis", "strain": "strain=DSM 45859", "accession": "GCA_014204865.1", "taxid": 1181879, "species_taxid": 1181879, "relation_to_type": "type", "validated": true, "ani": 85.9324, "matched_fragments": 1489, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis rubida", "strain": "strain=DSM 44637", "accession": "GCA_900115345.1", "taxid": 112413, "species_taxid": 112413, "relation_to_type": "type", "validated": true, "ani": 83.1594, "matched_fragments": 1364, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis circi", "strain": "strain=DSM 45561", "accession": "GCA_003385235.1", "taxid": 871959, "species_taxid": 871959, "relation_to_type": "type", "validated": true, "ani": 83.1016, "matched_fragments": 1307, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis dendrobii", "strain": "strain=DR6-1", "accession": "GCA_014145675.1", "taxid": 2760662, "species_taxid": 2760662, "relation_to_type": "type", "validated": true, "ani": 83.0824, "matched_fragments": 1367, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis benzoatilytica", "strain": "strain=AK 16/65", "accession": "GCA_000383915.1", "taxid": 346045, "species_taxid": 346045, "relation_to_type": "type", "validated": true, "ani": 83.0181, "matched_fragments": 1367, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis nivea", "strain": "strain=CFH S0261", "accession": "GCA_004522235.1", "taxid": 1644109, "species_taxid": 1644109, "relation_to_type": "type", "validated": true, "ani": 82.9749, "matched_fragments": 1392, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis jejuensis", "strain": "strain=NRRL B-24427", "accession": "GCA_000717335.1", "taxid": 330084, "species_taxid": 330084, "relation_to_type": "type", "validated": true, "ani": 82.9677, "matched_fragments": 1331, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis saalfeldensis", "strain": "strain=DSM 44993", "accession": "GCA_900110575.1", "taxid": 394193, "species_taxid": 394193, "relation_to_type": "type", "validated": true, "ani": 82.7862, "matched_fragments": 1373, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis camponoti", "strain": "strain=A23", "accession": "GCA_902497555.1", "taxid": 2606593, "species_taxid": 2606593, "relation_to_type": "type", "validated": true, "ani": 81.0783, "matched_fragments": 1215, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis regifaucium", "strain": "strain=GY080", "accession": "GCA_001613935.1", "taxid": 546365, "species_taxid": 546365, "relation_to_type": "type", "validated": true, "ani": 80.4083, "matched_fragments": 1019, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis regifaucium", "strain": "strain=DSM 45072", "accession": "GCA_900113515.1", "taxid": 546365, "species_taxid": 546365, "relation_to_type": "type", "validated": true, "ani": 80.406, "matched_fragments": 1010, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis regifaucium", "strain": "strain=GY080", "accession": "GCA_001558125.2", "taxid": 546365, "species_taxid": 546365, "relation_to_type": "type", "validated": true, "ani": 80.3668, "matched_fragments": 1018, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis thermalba", "strain": "strain=NRRL B-24845", "accession": "GCA_003385215.1", "taxid": 944492, "species_taxid": 944492, "relation_to_type": "type", "validated": true, "ani": 80.0242, "matched_fragments": 916, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis acidiphila", "strain": "strain=KCTC 39523", "accession": "GCA_021391495.1", "taxid": 715473, "species_taxid": 715473, "relation_to_type": "type", "validated": true, "ani": 79.881, "matched_fragments": 920, "total_fragments": 2252, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prauserella cavernicola", "strain": "strain=ASG 168", "accession": "GCA_016595675.1", "taxid": 2800127, "species_taxid": 2800127, 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_002796545.1", "gtdb_species": "s__Amycolatopsis sp002796545", "ani": 83.1769, "matched_fragments": 1370, "total_fragments": 2252, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "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": "-" }, { "accession": "GCF_900115345.1", "gtdb_species": "s__Amycolatopsis rubida", "ani": 83.1532, "matched_fragments": 1365, "total_fragments": 2252, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "99.27", "mean_intra_species_af": "0.88", 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