{ "type": "genome", "identifier": "GCF_000011965.2", "organism": "Ruegeria pomeroyi DSS-3", "title": "Ruegeria pomeroyi DSS-3", "description": "na", "data type": "Genome sequencing and assembly", "organization": "TIGR", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000011965.2", "bioproject": "PRJNA224116", "biosample": "SAMN02604003", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "246200", "species_taxid": "89184", "organism_name": "Ruegeria pomeroyi DSS-3", "infraspecific_name": "strain=DSS-3", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/12/10", "asm_name": "ASM1196v2", "asm_submitter": "TIGR", "gbrs_paired_asm": "GCA_000011965.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/011/965/GCF_000011965.2_ASM1196v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4601048", "genome_size_ungapped": "4601048", "gc_percent": "64.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000011965.2-RS_2024_06_16", "annotation_date": "2024-06-16", "total_gene_count": "4472", "protein_coding_gene_count": "4365", "non_coding_gene_count": "64", "pubmed_id": "25780504;17526795;15602564" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-12-10", "dateModified": "2013-12-10", "datePublished": "2013-12-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Ruegeria pomeroyi DSS-3" ], "sample_taxid": [ "246200" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.268 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)": "4601048", "Number of Sequences": "2", "Longest Sequences (bp)": "4109437", "N50 (bp)": "4109437", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.1", "Number of CDSs": "4448", "Average Protein Length": "312.6", "Coding Ratio (%)": "90.6", "Number of rRNAs": "9", "Number of tRNAs": "57", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ruegeria pomeroyi", "strain": "strain=DSS-3", "accession": "GCA_000011965.2", "taxid": 89184, "species_taxid": 89184, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1529, "total_fragments": 1532, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Ruegeria marina", "strain": "strain=CGMCC 1.9108", "accession": "GCA_900101475.1", "taxid": 639004, "species_taxid": 639004, "relation_to_type": "type", "validated": true, "ani": 84.3661, "matched_fragments": 987, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria intermedia", "strain": "strain=DSM 29341", "accession": "GCA_900129345.1", "taxid": 996115, "species_taxid": 996115, "relation_to_type": "type", "validated": true, "ani": 81.5722, "matched_fragments": 768, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria marisrubri", "strain": "strain=ZGT118", "accession": "GCA_001507595.1", "taxid": 1685379, "species_taxid": 1685379, "relation_to_type": "type", "validated": true, "ani": 81.483, "matched_fragments": 783, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria sediminis", "strain": "strain=CAU 1488", "accession": 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alexandriicola marinus", "strain": "strain=LZ-14", "accession": "GCA_004000435.1", "taxid": 2081710, "species_taxid": 2081710, "relation_to_type": "type", "validated": true, "ani": 77.809, "matched_fragments": 410, "total_fragments": 1532, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000011965.2", "gtdb_species": "s__Ruegeria_B pomeroyi", "ani": 100.0, "matched_fragments": 1531, "total_fragments": 1532, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Ruegeria_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.92", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_010500245.1", 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