{ "type": "genome", "identifier": "GCF_016863515.1", "organism": "Micromonospora gifhornensis", "title": "Micromonospora gifhornensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016863515.1", "bioproject": "PRJNA224116", "biosample": "SAMD00233774", "wgs_master": "BOPA00000000.1", "refseq_category": "reference genome", "taxid": "84594", "species_taxid": "84594", "organism_name": "Micromonospora gifhornensis", "infraspecific_name": "strain=NBRC 16317", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/01/29", "asm_name": "ASM1686351v1", "asm_submitter": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "gbrs_paired_asm": "GCA_016863515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/863/515/GCF_016863515.1_ASM1686351v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6807616", "genome_size_ungapped": "6807616", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "113", "contig_count": "113", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016863515.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "6136", "protein_coding_gene_count": "5945", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-01-29", "dateModified": "2021-01-29", "datePublished": "2021-01-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Micromonospora gifhornensis" ], "sample_taxid": [ "84594" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany:Lower Saxony, near Gifhorn" ], "sample_host_location_id": [], "data_size": "1.831 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)": "6807616", "Number of Sequences": "113", "Longest Sequences (bp)": "382352", "N50 (bp)": "152273", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.7", "Number of CDSs": "6060", "Average Protein Length": "331.5", "Coding Ratio (%)": "88.5", "Number of rRNAs": "2", "Number of tRNAs": "61", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Micromonospora gifhornensis", "strain": "strain=NBRC 16317", "accession": "GCA_016863515.1", "taxid": 84594, 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"validated": true, "ani": 95.9008, "matched_fragments": 1926, "total_fragments": 2214, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Micromonospora zingiberis", "strain": "strain=PLAI 1-1", "accession": "GCA_004331455.1", "taxid": 2053011, "species_taxid": 2053011, "relation_to_type": "type", "validated": true, "ani": 89.4233, "matched_fragments": 1540, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora radicis", "strain": "strain=AZ1-13", "accession": "GCA_003583405.1", "taxid": 1894971, "species_taxid": 1894971, "relation_to_type": "type", "validated": true, "ani": 87.9229, "matched_fragments": 1492, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora craterilacus", "strain": "strain=NA12", "accession": "GCA_003236315.1", "taxid": 1655439, "species_taxid": 1655439, "relation_to_type": "type", "validated": true, "ani": 87.0208, "matched_fragments": 1355, "total_fragments": 2214, "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": 86.1815, "matched_fragments": 1491, "total_fragments": 2214, "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": 84.1983, "matched_fragments": 995, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora coxensis", "strain": "strain=DSM 45161", "accession": "GCA_900090295.1", "taxid": 356852, "species_taxid": 356852, "relation_to_type": "type", "validated": true, "ani": 84.0202, "matched_fragments": 1284, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora kangleipakensis", "strain": "strain=DSM 45612", "accession": "GCA_004217615.1", "taxid": 1077942, "species_taxid": 1077942, "relation_to_type": "type", "validated": true, "ani": 83.6959, "matched_fragments": 1236, "total_fragments": 2214, "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": 83.5573, "matched_fragments": 1133, "total_fragments": 2214, "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": 83.393, "matched_fragments": 1325, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora carbonacea", "strain": "strain=aurantiaca", "accession": "GCA_013389765.1", "taxid": 47853, "species_taxid": 47853, "relation_to_type": "type", "validated": true, "ani": 83.3183, "matched_fragments": 1332, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora viridifaciens", "strain": "strain=DSM 43909", "accession": "GCA_900091545.1", "taxid": 1881, "species_taxid": 1881, "relation_to_type": "type", "validated": true, "ani": 83.2724, "matched_fragments": 1187, "total_fragments": 2214, "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": 83.1715, "matched_fragments": 1268, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016863515.1", "gtdb_species": "s__Micromonospora gifhornensis", "ani": 100.0, "matched_fragments": 2208, "total_fragments": 2214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.77", "min_intra_species_ani": "95.90", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCF_004331455.1", "gtdb_species": "s__Micromonospora zingiberis", "ani": 89.4366, "matched_fragments": 1539, "total_fragments": 2214, "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", 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