{ "type": "genome", "identifier": "GCF_002911665.1", "organism": "Actinomadura rubteroloni", "title": "Actinomadura rubteroloni", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Leibniz Institute DSMZ", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002911665.1", "bioproject": "PRJNA224116", "biosample": "SAMN06127924", "wgs_master": "MTBP00000000.1", "refseq_category": "reference genome", "taxid": "1926885", "species_taxid": "1926885", "organism_name": "Actinomadura rubteroloni", "infraspecific_name": "strain=RB29", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/02/01", "asm_name": "ASM291166v1", "asm_submitter": "Leibniz Institute DSMZ", "gbrs_paired_asm": "GCA_002911665.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/911/665/GCF_002911665.1_ASM291166v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6469137", "genome_size_ungapped": "6468522", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "7", "contig_count": "7", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002911665.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "5830", "protein_coding_gene_count": "5715", "non_coding_gene_count": "75", "pubmed_id": "28463423" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-02-01", "dateModified": "2018-02-01", "datePublished": "2018-02-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomadura rubteroloni" ], "sample_taxid": [ "1926885" ], "sample_host_organism": [ "Isoptera" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Africa: Pretoria" ], "sample_host_location_id": [], "data_size": "1.698 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)": "6469137", "Number of Sequences": "7", "Longest Sequences (bp)": "2582138", "N50 (bp)": "2134329", "Gap Ratio (%)": "0.009507", "GCcontent (%)": "73.1", "Number of CDSs": "5813", "Average Protein Length": "336.3", "Coding Ratio (%)": "90.6", "Number of rRNAs": "4", "Number of tRNAs": "79", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinomadura rubteroloni", "strain": "strain=RB29", "accession": "GCA_002911665.1", "taxid": 1926885, "species_taxid": 1926885, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2152, "total_fragments": 2152, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinomadura rayongensis", "strain": "strain=DSM 102126", "accession": "GCA_009831215.1", "taxid": 1429076, "species_taxid": 1429076, "relation_to_type": "type", "validated": true, "ani": 94.4411, "matched_fragments": 1883, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura atramentaria", "strain": "strain=SF2197", "accession": "GCA_000381885.1", "taxid": 1990, "species_taxid": 1990, "relation_to_type": "type", "validated": true, "ani": 85.5078, "matched_fragments": 1486, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura flavalba", "strain": "strain=DSM 45200", "accession": "GCA_000374305.1", "taxid": 1120938, "species_taxid": 1120938, "relation_to_type": "type", "validated": true, "ani": 82.8925, "matched_fragments": 1319, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura parmotrematis", "strain": "strain=PM05-2", "accession": "GCA_019458805.1", "taxid": 2864039, "species_taxid": 2864039, "relation_to_type": "type", "validated": true, "ani": 81.8878, "matched_fragments": 1295, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura macrotermitis", "strain": "strain=RB68", "accession": "GCA_009604375.1", "taxid": 2585200, "species_taxid": 2585200, "relation_to_type": "type", "validated": true, "ani": 81.8695, "matched_fragments": 1379, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura bangladeshensis", "strain": "strain=DSM 45347", "accession": "GCA_004348335.1", "taxid": 453573, "species_taxid": 453573, "relation_to_type": "type", "validated": true, "ani": 81.5816, "matched_fragments": 1140, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura 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"GCA_005889745.1", "taxid": 882440, "species_taxid": 882440, "relation_to_type": "type", "validated": true, "ani": 81.2042, "matched_fragments": 1151, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura graeca", "strain": "strain=32-07", "accession": "GCA_019175365.1", "taxid": 2750812, "species_taxid": 2750812, "relation_to_type": "type", "validated": true, "ani": 81.0683, "matched_fragments": 1233, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura rifamycini", "strain": "strain=DSM 43936", "accession": "GCA_000425065.1", "taxid": 31962, "species_taxid": 31962, "relation_to_type": "type", "validated": true, "ani": 81.0565, "matched_fragments": 1278, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura rupiterrae", "strain": "strain=DSM 45251", "accession": "GCA_024172125.1", "taxid": 559627, "species_taxid": 559627, "relation_to_type": "type", "validated": true, "ani": 80.8563, "matched_fragments": 1287, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura spongiicola", "strain": "strain=LHW52907", "accession": "GCA_003432485.1", "taxid": 2303421, "species_taxid": 2303421, "relation_to_type": "type", "validated": true, "ani": 80.7754, "matched_fragments": 1087, "total_fragments": 2152, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002911665.1", "gtdb_species": "s__Spirillospora rubteroloni", "ani": 100.0, "matched_fragments": 2152, "total_fragments": 2152, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Spirillospora", "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": "conclusive" }, { "accession": "GCF_009831215.1", "gtdb_species": "s__Spirillospora rayongensis", "ani": 94.4736, "matched_fragments": 1879, "total_fragments": 2152, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Spirillospora", "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_000381885.1", "gtdb_species": "s__Spirillospora atramentaria", "ani": 85.5276, "matched_fragments": 1484, "total_fragments": 2152, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Spirillospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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