{ "type": "genome", "identifier": "GCF_024703995.1", "organism": "Amycolatopsis iheyensis", "title": "Amycolatopsis iheyensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Mahidol University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024703995.1", "bioproject": "PRJNA224116", "biosample": "SAMN28556989", "wgs_master": "JAMXQV000000000.1", "refseq_category": "reference genome", "taxid": "2945988", "species_taxid": "2945988", "organism_name": "Amycolatopsis iheyensis", "infraspecific_name": "strain=OK19-0408", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/16", "asm_name": "ASM2470399v1", "asm_submitter": "Mahidol University", "gbrs_paired_asm": "GCA_024703995.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/703/995/GCF_024703995.1_ASM2470399v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "10438610", "genome_size_ungapped": "10438610", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "77", "contig_count": "77", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024703995.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "9951", "protein_coding_gene_count": "9764", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-08-16", "dateModified": "2022-08-16", "datePublished": "2022-08-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Amycolatopsis iheyensis" ], "sample_taxid": [ "2945988" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan: Iheya island, Okinawa" ], "sample_host_location_id": [], "data_size": "2.781 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "10438610", "Number of Sequences": "77", "Longest Sequences (bp)": "753473", "N50 (bp)": "272942", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.5", "Number of CDSs": "9930", "Average Protein Length": "320.7", "Coding Ratio (%)": "91.5", "Number of rRNAs": "0", "Number of tRNAs": "74", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amycolatopsis pretoriensis", "strain": "strain=NRRL B-24133", "accession": "GCA_002156025.1", "taxid": 218821, "species_taxid": 218821, "relation_to_type": "type", "validated": true, "ani": 90.1402, "matched_fragments": 2366, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis pretoriensis", "strain": "strain=DSM 44654", "accession": "GCA_900107925.1", "taxid": 218821, "species_taxid": 218821, "relation_to_type": "type", "validated": true, "ani": 90.1207, "matched_fragments": 2609, "total_fragments": 3442, "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": 89.8963, "matched_fragments": 2632, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis eburnea", "strain": "strain=GLM-1", "accession": "GCA_003937945.1", "taxid": 2267691, "species_taxid": 2267691, "relation_to_type": "type", "validated": true, "ani": 89.2543, "matched_fragments": 2557, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis lexingtonensis", "strain": "strain=DSM 44653", "accession": "GCA_014873755.1", "taxid": 218822, "species_taxid": 218822, "relation_to_type": "type", "validated": true, "ani": 89.1364, "matched_fragments": 2584, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis lexingtonensis", "strain": "strain=NRRL B-24131", "accession": "GCA_002156005.1", "taxid": 218822, "species_taxid": 218822, "relation_to_type": "type", "validated": true, "ani": 89.0023, "matched_fragments": 2271, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis vancoresmycina", "strain": "strain=DSM 44592", "accession": "GCA_000388135.1", "taxid": 208444, "species_taxid": 208444, "relation_to_type": "type", "validated": true, "ani": 88.5808, "matched_fragments": 2052, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis vancoresmycina", "strain": "strain=NRRL B-24208", "accession": "GCA_000716785.1", "taxid": 208444, "species_taxid": 208444, "relation_to_type": "type", "validated": true, "ani": 88.5786, "matched_fragments": 2438, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis mediterranei", "strain": "strain=S699", "accession": "GCA_000220945.1", "taxid": 33910, "species_taxid": 33910, "relation_to_type": "type", "validated": true, "ani": 88.3379, "matched_fragments": 2380, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis kentuckyensis", "strain": "strain=NRRL B-24129", "accession": "GCA_002155975.1", "taxid": 218823, "species_taxid": 218823, "relation_to_type": "type", "validated": true, "ani": 88.2984, "matched_fragments": 2073, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis tolypomycina", "strain": "strain=DSM 44544", "accession": "GCA_900105945.1", "taxid": 208445, "species_taxid": 208445, "relation_to_type": "type", "validated": true, "ani": 88.284, "matched_fragments": 2389, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis balhimycina", "strain": "strain=DSM 44591", "accession": "GCA_000384295.1", "taxid": 208443, "species_taxid": 208443, "relation_to_type": "type", "validated": true, "ani": 88.2533, "matched_fragments": 2304, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis rifamycinica", "strain": "strain=DSM 46095", "accession": "GCA_000695625.1", "taxid": 287986, "species_taxid": 287986, "relation_to_type": "type", "validated": true, "ani": 88.2291, "matched_fragments": 2294, "total_fragments": 3442, "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": 80.7345, "matched_fragments": 1542, "total_fragments": 3442, "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": 80.0365, "matched_fragments": 1373, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prauserella aidingensis", "strain": "strain=DSM 45266", "accession": "GCA_024171865.1", "taxid": 387890, "species_taxid": 387890, "relation_to_type": "type", "validated": true, "ani": 78.5869, "matched_fragments": 894, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentzea tibetensis", "strain": "strain=FXJ1.1311", "accession": "GCA_007845675.1", "taxid": 2591470, "species_taxid": 2591470, "relation_to_type": "type", "validated": true, "ani": 77.9179, "matched_fragments": 1156, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentzea californiensis", "strain": "strain=DSM 43393", "accession": "GCA_024648825.1", "taxid": 438851, "species_taxid": 438851, "relation_to_type": "type", "validated": true, "ani": 77.8386, "matched_fragments": 1132, "total_fragments": 3442, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900107925.1", "gtdb_species": "s__Amycolatopsis pretoriensis", "ani": 90.1111, "matched_fragments": 2611, "total_fragments": 3442, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000716785.1", "gtdb_species": "s__Amycolatopsis vancoresmycina", "ani": 88.5751, "matched_fragments": 2439, "total_fragments": 3442, "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_002234595.1", "gtdb_species": "s__Amycolatopsis vastitatis", "ani": 88.4842, "matched_fragments": 2309, "total_fragments": 3442, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "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_002904335.1", "gtdb_species": "s__Amycolatopsis sp002904335", "ani": 88.4449, "matched_fragments": 2423, "total_fragments": 3442, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "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_014654205.1", "gtdb_species": "s__Amycolatopsis bullii", "ani": 88.4274, "matched_fragments": 2338, "total_fragments": 3442, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "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", 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