{ "type": "genome", "identifier": "GCF_022267515.1", "organism": "Rubinisphaera margarita", "title": "Rubinisphaera margarita", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Faculty of Sciencies of University of Porto", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022267515.1", "bioproject": "PRJNA224116", "biosample": "SAMN24838003", "wgs_master": "JAKFGB000000000.1", "refseq_category": "reference genome", "taxid": "2909586", "species_taxid": "2909586", "organism_name": "Rubinisphaera margarita", "infraspecific_name": "strain=ICM_H10", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/02/16", "asm_name": "ASM2226751v1", "asm_submitter": "Faculty of Sciencies of University of Porto", "gbrs_paired_asm": "GCA_022267515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/267/515/GCF_022267515.1_ASM2226751v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5979725", "genome_size_ungapped": "5979725", "gc_percent": "58.000000", "replicon_count": "0", "scaffold_count": "22", "contig_count": "22", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_022267515.1-RS_2024_10_11", "annotation_date": "2024-10-11", "total_gene_count": "4565", "protein_coding_gene_count": "4489", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-02-16", "dateModified": "2022-02-16", "datePublished": "2022-02-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Rubinisphaera margarita" ], "sample_taxid": [ "2909586" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Portugal: Matosinhos" ], "sample_host_location_id": [], "data_size": "1.685 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5979725", "Number of Sequences": "22", "Longest Sequences (bp)": "1047324", "N50 (bp)": "409891", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.0", "Number of CDSs": "4713", "Average Protein Length": "362.4", "Coding Ratio (%)": "85.7", "Number of rRNAs": "2", "Number of tRNAs": "54", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rubinisphaera margarita", "strain": "strain=ICM_H10", "accession": "GCA_022267515.1", "taxid": 2909586, "species_taxid": 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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": "GCA_002359185.1", "gtdb_species": "s__Rubinisphaera sp002359185", "ani": 76.547, "matched_fragments": 265, "total_fragments": 1983, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Planctomycetales;f__Planctomycetaceae;g__Rubinisphaera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007859715.1", "gtdb_species": "s__Rubinisphaera italica", "ani": 76.404, "matched_fragments": 265, "total_fragments": 1983, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Planctomycetales;f__Planctomycetaceae;g__Rubinisphaera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": 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