{ "type": "genome", "identifier": "GCF_009831215.1", "organism": "Actinomadura rayongensis", "title": "Actinomadura rayongensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Karlsruhe Institute of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009831215.1", "bioproject": "PRJNA224116", "biosample": "SAMN13622850", "wgs_master": "WUTW00000000.1", "refseq_category": "reference genome", "taxid": "1429076", "species_taxid": "1429076", "organism_name": "Actinomadura rayongensis", "infraspecific_name": "strain=DSM 102126", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/06", "asm_name": "ASM983121v1", "asm_submitter": "Karlsruhe Institute of Technology", "gbrs_paired_asm": "GCA_009831215.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/831/215/GCF_009831215.1_ASM983121v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6868284", "genome_size_ungapped": "6867419", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "15", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009831215.1-RS_2024_03_16", "annotation_date": "2024-03-16", "total_gene_count": "6127", "protein_coding_gene_count": "6023", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-06", "dateModified": "2020-01-06", "datePublished": "2020-01-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomadura rayongensis" ], "sample_taxid": [ "1429076" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Thailand:Rayong Province" ], "sample_host_location_id": [], "data_size": "1.804 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6868284", "Number of Sequences": "15", "Longest Sequences (bp)": "1990735", "N50 (bp)": "1778705", "Gap Ratio (%)": "0.012652", "GCcontent (%)": "73.1", "Number of CDSs": "6162", "Average Protein Length": "336.8", "Coding Ratio (%)": "90.6", "Number of rRNAs": "2", "Number of tRNAs": "75", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinomadura rayongensis", "strain": "strain=DSM 102126", "accession": "GCA_009831215.1", "taxid": 1429076, "species_taxid": 1429076, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"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": 81.8879, "matched_fragments": 1375, "total_fragments": 2282, "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": 81.6295, "matched_fragments": 1323, "total_fragments": 2282, "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": 81.5472, "matched_fragments": 1152, "total_fragments": 2282, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura hibisca", "strain": "strain=NBRC 15177", "accession": "GCA_001552635.1", "taxid": 68565, "species_taxid": 68565, "relation_to_type": "type", "validated": true, "ani": 81.4258, "matched_fragments": 1280, "total_fragments": 2282, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura nitritigenes", "strain": "strain=L46", "accession": "GCA_017573545.1", "taxid": 134602, "species_taxid": 134602, "relation_to_type": "type", "validated": true, "ani": 81.3542, "matched_fragments": 1375, "total_fragments": 2282, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura meyerae", "strain": "strain=DSM 44715", "accession": "GCA_900188445.1", "taxid": 240840, "species_taxid": 240840, "relation_to_type": "type", "validated": true, "ani": 81.3516, "matched_fragments": 1305, "total_fragments": 2282, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura violacea", "strain": "strain=LCR2-06", "accession": "GCA_017573465.1", "taxid": 2819934, "species_taxid": 2819934, "relation_to_type": "type", "validated": true, "ani": 81.3433, "matched_fragments": 1424, "total_fragments": 2282, "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": 81.0273, "matched_fragments": 1308, "total_fragments": 2282, "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": 80.9912, "matched_fragments": 1253, "total_fragments": 2282, "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": 80.9643, "matched_fragments": 1298, "total_fragments": 2282, "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": 80.6477, "matched_fragments": 1119, "total_fragments": 2282, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009831215.1", "gtdb_species": "s__Spirillospora rayongensis", "ani": 100.0, "matched_fragments": 2280, "total_fragments": 2282, "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_002911665.1", "gtdb_species": "s__Spirillospora rubteroloni", "ani": 94.4154, "matched_fragments": 1879, "total_fragments": 2282, "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": 85.6826, "matched_fragments": 1491, "total_fragments": 2282, "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", 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"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_008923205.2", "gtdb_species": "s__Spirillospora physcomitrii", "ani": 81.6165, "matched_fragments": 1307, "total_fragments": 2282, "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_004348335.1", "gtdb_species": "s__Spirillospora bangladeshensis", "ani": 81.6034, "matched_fragments": 1142, "total_fragments": 2282, "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", 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}