{ "type": "genome", "identifier": "GCF_028617085.1", "organism": "Rubrobacter naiadicus", "title": "Rubrobacter naiadicus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Center for Neuroscience and Cell Biology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_028617085.1", "bioproject": "PRJNA224116", "biosample": "SAMN32795712", "wgs_master": "JAQKGW000000000.1", "refseq_category": "reference genome", "taxid": "1392641", "species_taxid": "1392641", "organism_name": "Rubrobacter naiadicus", "infraspecific_name": "strain=RG-3", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/02/13", "asm_name": "ASM2861708v1", "asm_submitter": "Center for Neuroscience and Cell Biology", "gbrs_paired_asm": "GCA_028617085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/028/617/085/GCF_028617085.1_ASM2861708v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2949138", "genome_size_ungapped": "2949138", "gc_percent": "66.500000", "replicon_count": "0", "scaffold_count": "42", "contig_count": "42", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_028617085.1-RS_2024_03_24", "annotation_date": "2024-03-24", "total_gene_count": "3020", "protein_coding_gene_count": "2954", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-02-13", "dateModified": "2023-02-13", "datePublished": "2023-02-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Rubrobacter naiadicus" ], "sample_taxid": [ "1392641" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Portugal: S.Miguel, Azores" ], "sample_host_location_id": [], "data_size": "0.814 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)": "2949138", "Number of Sequences": "42", "Longest Sequences (bp)": "308956", "N50 (bp)": "127604", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.5", "Number of CDSs": "2937", "Average Protein Length": "307.8", "Coding Ratio (%)": "92.0", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rubrobacter marinus", "strain": "strain=SCSIO 52915", "accession": "GCA_011492965.1", "taxid": 2653852, "species_taxid": 2653852, "relation_to_type": "type", "validated": true, "ani": 78.0119, "matched_fragments": 315, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrobacter aplysinae", "strain": "strain=RV113", "accession": "GCA_001029505.1", "taxid": 909625, "species_taxid": 909625, "relation_to_type": "type", "validated": true, "ani": 77.5425, "matched_fragments": 235, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrobacter radiotolerans", "strain": "strain=DSM 5868", "accession": "GCA_900175965.1", "taxid": 42256, "species_taxid": 42256, "relation_to_type": "type", "validated": true, "ani": 77.5128, "matched_fragments": 264, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrobacter tropicus", "strain": "strain=SCSIO 52909", "accession": "GCA_011492945.1", "taxid": 2653851, "species_taxid": 2653851, "relation_to_type": "type", "validated": true, "ani": 77.4288, "matched_fragments": 295, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrobacter indicoceani", "strain": "strain=SCSIO 08198", "accession": "GCA_003568865.1", "taxid": 2051957, "species_taxid": 2051957, "relation_to_type": "type", "validated": true, "ani": 77.0108, "matched_fragments": 174, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraconexibacter algicola", "strain": "strain=Seoho-28", "accession": "GCA_003044185.1", "taxid": 2133960, "species_taxid": 2133960, "relation_to_type": "type", "validated": true, "ani": 75.4116, "matched_fragments": 108, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phycicoccus jejuensis", "strain": "strain=NRRL B-24460", "accession": "GCA_000720925.1", "taxid": 367299, "species_taxid": 367299, "relation_to_type": "type", "validated": true, "ani": 75.0985, "matched_fragments": 85, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia kujensis", "strain": "strain=KCTC 29062", "accession": "GCA_021283305.1", "taxid": 1128675, "species_taxid": 1128675, "relation_to_type": "type", "validated": true, "ani": 75.083, "matched_fragments": 115, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia oroxyli", "strain": "strain=CGMCC 4.3143", "accession": "GCA_900102195.1", "taxid": 366584, "species_taxid": 366584, "relation_to_type": "type", "validated": true, "ani": 74.7411, "matched_fragments": 83, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007164525.1", "gtdb_species": "s__Rubrobacter_B xylanophilus_A", "ani": 81.5847, "matched_fragments": 453, "total_fragments": 966, "gtdb_taxonomy": 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