{ "type": "genome", "identifier": "GCF_000519345.1", "organism": "Deinococcus pimensis DSM 21231", "title": "Deinococcus pimensis DSM 21231", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000519345.1", "bioproject": "PRJNA224116", "biosample": "SAMN02584908", "wgs_master": "AZYF00000000.1", "refseq_category": "reference genome", "taxid": "926554", "species_taxid": "309888", "organism_name": "Deinococcus pimensis DSM 21231", "infraspecific_name": "strain=DSM 21231", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/01/13", "asm_name": "ASM51934v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000519345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/519/345/GCF_000519345.1_ASM51934v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4765806", "genome_size_ungapped": "4676406", "gc_percent": "70.000000", "replicon_count": "0", "scaffold_count": "67", "contig_count": "961", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000519345.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "5193", "protein_coding_gene_count": "4807", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-01-13", "dateModified": "2014-01-13", "datePublished": "2014-01-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Deinococcus pimensis DSM 21231" ], "sample_taxid": [ "926554" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.268 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4765806", "Number of Sequences": "67", "Longest Sequences (bp)": "429922", "N50 (bp)": "118265", "Gap Ratio (%)": "1.876556", "GCcontent (%)": "69.9", "Number of CDSs": "4529", "Average Protein Length": "278.9", "Coding Ratio (%)": "79.5", "Number of rRNAs": "5", "Number of tRNAs": "54", "Number of CRISPRs": "7" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Deinococcus pimensis", "strain": "strain=DSM 21231", "accession": "GCA_000519345.1", "taxid": 309888, "species_taxid": 309888, "relation_to_type": "type", "validated": true, "ani": 99.9998, "matched_fragments": 1546, 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"status": "below_threshold" }, { "organism_name": "Deinococcus peraridilitoris", "strain": "strain=DSM 19664", "accession": "GCA_000317835.1", "taxid": 432329, "species_taxid": 432329, "relation_to_type": "type", "validated": true, "ani": 78.2679, "matched_fragments": 370, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus soli (ex Cha et al. 2016)", "strain": "strain=N5", "accession": "GCA_001007995.1", "taxid": 1309411, "species_taxid": 1309411, "relation_to_type": "type", "validated": true, "ani": 78.1499, "matched_fragments": 421, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus grandis", "strain": "strain=ATCC 43672", "accession": "GCA_001485435.1", "taxid": 57498, "species_taxid": 57498, "relation_to_type": "type", "validated": true, "ani": 78.0977, "matched_fragments": 485, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus sedimenti", "strain": "strain=JCM 31405", "accession": "GCA_014648135.1", "taxid": 1867090, "species_taxid": 1867090, "relation_to_type": "type", "validated": true, "ani": 78.0093, "matched_fragments": 458, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus arenae", "strain": "strain=JCM 31047", "accession": "GCA_014647995.1", "taxid": 1452751, "species_taxid": 1452751, "relation_to_type": "type", "validated": true, "ani": 77.9662, "matched_fragments": 481, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus saudiensis", "strain": "strain=CGMCC 1.15089", "accession": "GCA_014640655.1", "taxid": 1765963, "species_taxid": 1765963, "relation_to_type": "type", "validated": true, "ani": 77.9604, "matched_fragments": 464, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus daejeonensis", "strain": "strain=JCM 16918", "accession": "GCA_014647175.1", "taxid": 1007098, "species_taxid": 1007098, "relation_to_type": "type", "validated": true, "ani": 77.9316, "matched_fragments": 474, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus aerius", "strain": "strain=TR0125", "accession": "GCA_002897375.1", "taxid": 200253, "species_taxid": 200253, "relation_to_type": "type", "validated": true, "ani": 77.8567, "matched_fragments": 486, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus metalli", "strain": "strain=DSM 27521", "accession": "GCA_014201805.1", "taxid": 1141878, "species_taxid": 1141878, "relation_to_type": "type", "validated": true, "ani": 77.8232, "matched_fragments": 480, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinobacterium chartae", "strain": "strain=DSM 21458", "accession": "GCA_014202645.1", 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"type", "validated": true, "ani": 77.1831, "matched_fragments": 274, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus radiodurans", "strain": "strain=DSM 20539", "accession": "GCA_000685985.1", "taxid": 1299, "species_taxid": 1299, "relation_to_type": "type", "validated": true, "ani": 77.076, "matched_fragments": 269, "total_fragments": 1555, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000519345.1", "gtdb_species": "s__Deinococcus_A pimensis", "ani": 99.9998, "matched_fragments": 1546, "total_fragments": 1555, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Deinococcaceae;g__Deinococcus_A", "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", 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0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Deinococcus", "pimensis", "DSM", "21231" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }