{ "type": "genome", "identifier": "GCF_007829995.1", "organism": "Micromonospora sagamiensis", "title": "Micromonospora sagamiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007829995.1", "bioproject": "PRJNA224116", "biosample": "SAMN02946529", "wgs_master": "VLLP00000000.1", "refseq_category": "na", "taxid": "47875", "species_taxid": "47875", "organism_name": "Micromonospora sagamiensis", "infraspecific_name": "strain=DSM 43912", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/08/02", "asm_name": "ASM782999v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_007829995.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/829/995/GCF_007829995.1_ASM782999v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6928726", "genome_size_ungapped": "6928726", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007829995.1-RS_2024_04_27", "annotation_date": "2024-04-27", "total_gene_count": "5960", "protein_coding_gene_count": "5713", "non_coding_gene_count": "82", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-08-02", "dateModified": "2019-08-02", "datePublished": "2019-08-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Micromonospora sagamiensis" ], "sample_taxid": [ "47875" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.825 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)": "6928726", "Number of Sequences": "2", "Longest Sequences (bp)": "6924912", "N50 (bp)": "6924912", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.5", "Number of CDSs": "5949", "Average Protein Length": "349.1", "Coding Ratio (%)": "89.9", "Number of rRNAs": "9", "Number of tRNAs": "81", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Micromonospora sagamiensis", "strain": "strain=DSM 43912", "accession": "GCA_007829995.1", "taxid": 47875, "species_taxid": 47875, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2308, "total_fragments": 2309, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Micromonospora sagamiensis", "strain": "strain=JCM 3310", "accession": "GCA_014680085.1", "taxid": 47875, "species_taxid": 47875, "relation_to_type": "type", "validated": true, "ani": 99.9976, "matched_fragments": 2306, "total_fragments": 2309, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Micromonospora inyonensis", "strain": "strain=DSM 46123", "accession": "GCA_900091415.1", "taxid": 47866, "species_taxid": 47866, "relation_to_type": "type", "validated": true, "ani": 96.0768, "matched_fragments": 1717, "total_fragments": 2309, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Micromonospora echinospora", "strain": "strain=ATCC 15837", "accession": "GCA_002266845.1", "taxid": 1877, "species_taxid": 1877, "relation_to_type": "type", "validated": true, "ani": 91.8499, "matched_fragments": 1924, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora echinospora", "strain": "strain=DSM 43816", "accession": "GCA_900091495.1", "taxid": 1877, "species_taxid": 1877, "relation_to_type": "type", "validated": true, "ani": 91.8493, "matched_fragments": 1952, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora pallida", "strain": "strain=DSM 43817", "accession": "GCA_900090325.1", "taxid": 145854, "species_taxid": 145854, "relation_to_type": "type", "validated": true, "ani": 90.3227, "matched_fragments": 1837, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora phytophila", "strain": "strain=DSM 105363", "accession": "GCA_023656545.1", "taxid": 709888, "species_taxid": 709888, "relation_to_type": "type", "validated": true, "ani": 84.7184, "matched_fragments": 1065, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora peucetia", "strain": "strain=DSM 43363", "accession": "GCA_900091625.1", "taxid": 47871, "species_taxid": 47871, "relation_to_type": "type", "validated": true, "ani": 84.1809, "matched_fragments": 1419, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora rosaria", "strain": "strain=DSM 803", "accession": "GCA_001567585.1", "taxid": 47874, "species_taxid": 47874, "relation_to_type": "type", "validated": true, "ani": 84.0545, "matched_fragments": 1306, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora nigra", "strain": "strain=DSM 43818", "accession": "GCA_900091585.1", "taxid": 145857, "species_taxid": 145857, "relation_to_type": "type", "validated": true, "ani": 83.913, "matched_fragments": 1315, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora ferruginea", "strain": "strain=28ISP2-46", "accession": "GCA_013694245.1", "taxid": 2749844, "species_taxid": 2749844, "relation_to_type": "type", "validated": true, "ani": 83.856, "matched_fragments": 1377, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora humida", "strain": "strain=MMS20-R1-14", "accession": "GCA_016901255.1", "taxid": 2809018, "species_taxid": 2809018, "relation_to_type": "type", "validated": true, "ani": 83.8417, "matched_fragments": 1371, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora chersina", "strain": "strain=DSM 44151", "accession": "GCA_900091475.1", "taxid": 47854, "species_taxid": 47854, "relation_to_type": "type", "validated": true, "ani": 83.8093, "matched_fragments": 1382, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora acroterricola", "strain": "strain=5R2A7", "accession": "GCA_003172955.1", "taxid": 2202421, "species_taxid": 2202421, "relation_to_type": "type", "validated": true, "ani": 83.7871, "matched_fragments": 1168, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora humi", "strain": "strain=DSM 45647", "accession": "GCA_900090105.1", "taxid": 745366, "species_taxid": 745366, "relation_to_type": "type", "validated": true, "ani": 83.664, "matched_fragments": 1333, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora phaseoli", "strain": "strain=NBRC 110907", "accession": "GCA_016863675.1", "taxid": 1144548, "species_taxid": 1144548, "relation_to_type": "type", "validated": true, "ani": 83.1658, "matched_fragments": 1205, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora craniellae", "strain": "strain=LHW63014", "accession": "GCA_003419945.1", "taxid": 2294034, "species_taxid": 2294034, "relation_to_type": "type", "validated": true, "ani": 83.1096, "matched_fragments": 1166, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora craniellae", "strain": "strain=LHW63014", "accession": "GCA_014764405.1", "taxid": 2294034, "species_taxid": 2294034, "relation_to_type": "type", "validated": true, "ani": 83.0432, "matched_fragments": 1193, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora maris", "strain": "strain=NRRL B-24793", "accession": "GCA_001507315.1", "taxid": 1003110, "species_taxid": 1003110, "relation_to_type": "type", "validated": true, "ani": 82.9163, "matched_fragments": 1223, "total_fragments": 2309, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900091415.1", "gtdb_species": "s__Micromonospora inyonensis", "ani": 96.0768, "matched_fragments": 1717, "total_fragments": 2309, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.10", "min_intra_species_ani": "96.06", "mean_intra_species_af": "0.74", "min_intra_species_af": "0.74", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_900091495.1", "gtdb_species": "s__Micromonospora echinospora", "ani": 91.8674, "matched_fragments": 1950, "total_fragments": 2309, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.77", "min_intra_species_ani": "97.55", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900090325.1", "gtdb_species": "s__Micromonospora pallida", "ani": 90.3085, "matched_fragments": 1842, "total_fragments": 2309, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_900090295.1", "gtdb_species": "s__Micromonospora coxensis", "ani": 84.7759, "matched_fragments": 1420, "total_fragments": 2309, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_900090245.1", "gtdb_species": "s__Micromonospora halophytica", "ani": 84.5951, "matched_fragments": 1382, "total_fragments": 2309, "gtdb_taxonomy": 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