{ "type": "genome", "identifier": "GCF_015751755.1", "organism": "Actinomadura viridis", "title": "Actinomadura viridis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_015751755.1", "bioproject": "PRJNA224116", "biosample": "SAMN16774016", "wgs_master": "JADOUA000000000.1", "refseq_category": "reference genome", "taxid": "58110", "species_taxid": "58110", "organism_name": "Actinomadura viridis", "infraspecific_name": "strain=DSM 43175", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/12/04", "asm_name": "ASM1575175v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_015751755.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/015/751/755/GCF_015751755.1_ASM1575175v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8992097", "genome_size_ungapped": "8992097", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_015751755.1-RS_2024_03_24", "annotation_date": "2024-03-24", "total_gene_count": "8144", "protein_coding_gene_count": "7998", "non_coding_gene_count": "88", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-12-04", "dateModified": "2020-12-04", "datePublished": "2020-12-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomadura viridis" ], "sample_taxid": [ "58110" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "2.386 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)": "8992097", "Number of Sequences": "1", "Longest Sequences (bp)": "8992097", "N50 (bp)": "8992097", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.7", "Number of CDSs": "8248", "Average Protein Length": "324.0", "Coding Ratio (%)": "89.2", "Number of rRNAs": "15", "Number of tRNAs": "78", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinomadura viridis", "strain": "strain=DSM 43175", "accession": "GCA_015751755.1", "taxid": 58110, "species_taxid": 58110, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2997, "total_fragments": 2997, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinomadura rubrobrunea", "strain": "strain=NBRC 15275", "accession": "GCA_001552235.1", "taxid": 115335, "species_taxid": 115335, "relation_to_type": "type", "validated": true, "ani": 82.2593, "matched_fragments": 1387, "total_fragments": 2997, "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": 82.1697, "matched_fragments": 1540, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura mexicana", "strain": "strain=DSM 44485", "accession": "GCA_900188105.1", "taxid": 134959, "species_taxid": 134959, "relation_to_type": "type", "validated": true, "ani": 82.1283, "matched_fragments": 1585, "total_fragments": 2997, "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": 82.0086, "matched_fragments": 1531, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura formosensis", "strain": "strain=NBRC 14204", "accession": "GCA_001552155.1", "taxid": 60706, "species_taxid": 60706, "relation_to_type": "type", "validated": true, "ani": 81.8344, "matched_fragments": 1269, "total_fragments": 2997, "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": 81.8199, "matched_fragments": 1565, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura rubrisoli", "strain": "strain=H3C3", "accession": "GCA_004349215.1", "taxid": 2530368, "species_taxid": 2530368, "relation_to_type": "type", "validated": true, "ani": 81.8072, "matched_fragments": 1419, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura madurae", "strain": "strain=DSM 43067", "accession": "GCA_900115095.1", "taxid": 1993, "species_taxid": 1993, "relation_to_type": "type", "validated": true, "ani": 81.7364, "matched_fragments": 1640, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura geliboluensis", "strain": "strain=A8036", "accession": "GCA_005889745.1", "taxid": 882440, "species_taxid": 882440, "relation_to_type": "type", "validated": true, "ani": 81.7357, "matched_fragments": 1424, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura physcomitrii", "strain": "strain=LD22", "accession": "GCA_008923205.2", "taxid": 2650748, "species_taxid": 2650748, "relation_to_type": "type", "validated": true, "ani": 81.7008, "matched_fragments": 1583, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura montaniterrae", "strain": "strain=CYP1-1B", "accession": "GCA_008923365.1", "taxid": 1803903, "species_taxid": 1803903, "relation_to_type": "type", "validated": true, "ani": 81.6831, "matched_fragments": 1575, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura litoris", "strain": "strain=NEAU-AAG5", "accession": "GCA_009733595.1", "taxid": 2678616, "species_taxid": 2678616, "relation_to_type": "type", "validated": true, "ani": 81.6171, "matched_fragments": 1482, "total_fragments": 2997, "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": 81.5954, "matched_fragments": 1687, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura darangshiensis", "strain": "strain=DSM 45941", "accession": "GCA_004349235.1", "taxid": 705336, "species_taxid": 705336, "relation_to_type": "type", "validated": true, "ani": 81.5788, "matched_fragments": 1477, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura roseirufa", "strain": "", "accession": "GCA_900659635.1", "taxid": 2094049, "species_taxid": 2094049, "relation_to_type": "type", "validated": true, "ani": 81.5711, "matched_fragments": 1366, "total_fragments": 2997, "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": 81.517, "matched_fragments": 1467, "total_fragments": 2997, "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": 81.511, "matched_fragments": 1698, "total_fragments": 2997, "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": 81.1449, "matched_fragments": 1454, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura decatromicini", "strain": "strain=CYP1-5", "accession": "GCA_008121305.1", "taxid": 2604572, "species_taxid": 2604572, "relation_to_type": "type", "validated": true, "ani": 81.1123, "matched_fragments": 1490, "total_fragments": 2997, "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": 80.8864, "matched_fragments": 1278, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermomonospora catenispora", "strain": "strain=3-22-3", "accession": "GCA_006363815.1", "taxid": 2493090, "species_taxid": 2493090, "relation_to_type": "type", "validated": true, "ani": 80.7756, "matched_fragments": 1131, "total_fragments": 2997, "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": 80.7152, "matched_fragments": 1425, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoallomurus spadix", "strain": "strain=KCTC 9252", "accession": "GCA_024055725.1", "taxid": 79912, "species_taxid": 79912, "relation_to_type": "type", "validated": true, "ani": 78.6099, "matched_fragments": 1072, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoallomurus bryophytorum", "strain": "strain=DSM 102200", "accession": "GCA_006716425.1", "taxid": 1490222, "species_taxid": 1490222, "relation_to_type": "type", "validated": true, "ani": 78.4787, "matched_fragments": 1074, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila paucisporea", "strain": "strain=CGMCC 4.2025", "accession": "GCA_900142575.1", "taxid": 310782, "species_taxid": 310782, "relation_to_type": "type", "validated": true, "ani": 76.5791, "matched_fragments": 816, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila 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"GCA_004886325.1", "taxid": 2306636, "species_taxid": 2306636, "relation_to_type": "type", "validated": true, "ani": 75.7358, "matched_fragments": 489, "total_fragments": 2997, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015751755.1", "gtdb_species": "s__Spirillospora viridis", "ani": 100.0, "matched_fragments": 2997, "total_fragments": 2997, "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": "GCA_003001795.1", "gtdb_species": "s__Actinomadura_B viridilutea", "ani": 82.2151, "matched_fragments": 1432, "total_fragments": 2997, 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