{ "type": "genome", "identifier": "GCF_014199215.1", "organism": "Sphingobium boeckii", "title": "Sphingobium boeckii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014199215.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025209", "wgs_master": "JACIJC000000000.1", "refseq_category": "reference genome", "taxid": "1082345", "species_taxid": "1082345", "organism_name": "Sphingobium boeckii", "infraspecific_name": "strain=DSM 25079", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1419921v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014199215.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/199/215/GCF_014199215.1_ASM1419921v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4031522", "genome_size_ungapped": "4031522", "gc_percent": "62.000000", "replicon_count": "0", "scaffold_count": "14", "contig_count": "14", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014199215.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3895", "protein_coding_gene_count": "3816", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingobium boeckii" ], "sample_taxid": [ "1082345" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.118 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)": "4031522", "Number of Sequences": "14", "Longest Sequences (bp)": "1061910", "N50 (bp)": "638410", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.0", "Number of CDSs": "3814", "Average Protein Length": "318.2", "Coding Ratio (%)": "90.3", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingobium boeckii", "strain": "strain=DSM 25079", "accession": "GCA_014199215.1", "taxid": 1082345, "species_taxid": 1082345, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1336, "total_fragments": 1337, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphingomonas colocasiae", "strain": "strain=JCM 31229", "accession": "GCA_019880585.1", "taxid": 1848973, "species_taxid": 1848973, "relation_to_type": "type", "validated": true, "ani": 79.4652, "matched_fragments": 600, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas cavernae", "strain": "strain=K2R01-6", "accession": "GCA_003590775.1", "taxid": 2320861, "species_taxid": 2320861, "relation_to_type": "type", "validated": true, "ani": 78.9178, "matched_fragments": 540, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas echinoides", "strain": "strain=ATCC 14820", "accession": "GCA_000241465.1", "taxid": 59803, "species_taxid": 59803, "relation_to_type": "type", "validated": true, "ani": 78.2984, "matched_fragments": 360, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas alpina", "strain": "strain=DSM 22537", "accession": "GCA_025370095.1", "taxid": 653931, "species_taxid": 653931, "relation_to_type": "type", "validated": true, "ani": 78.1265, "matched_fragments": 369, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas changnyeongensis", "strain": "strain=C33", "accession": "GCA_009913435.1", "taxid": 2698679, "species_taxid": 2698679, "relation_to_type": "type", "validated": true, "ani": 78.1026, "matched_fragments": 369, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingosinithalassobacter tenebrarum", "strain": "strain=zrk23", "accession": "GCA_011057975.1", "taxid": 2711215, "species_taxid": 2711215, "relation_to_type": "type", "validated": true, "ani": 78.0815, "matched_fragments": 356, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium scionense", "strain": "strain=DSM 19371", "accession": "GCA_014197035.1", "taxid": 1404341, "species_taxid": 1404341, "relation_to_type": "type", "validated": true, "ani": 78.0388, "matched_fragments": 401, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas koreensis", "strain": "strain=KCTC 2882", "accession": "GCA_003953035.1", "taxid": 93064, "species_taxid": 93064, "relation_to_type": "type", "validated": true, "ani": 77.9699, "matched_fragments": 340, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas koreensis", "strain": "strain=JSS26", "accession": "GCA_002797435.1", "taxid": 93064, "species_taxid": 93064, "relation_to_type": "type", "validated": true, "ani": 77.9693, "matched_fragments": 351, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas koreensis", "strain": "strain=NBRC 16723", "accession": 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77.6006, "matched_fragments": 309, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium sufflavum", "strain": "strain=HL-25", "accession": "GCA_021403115.1", "taxid": 1129547, "species_taxid": 1129547, "relation_to_type": "type", "validated": true, "ani": 77.518, "matched_fragments": 318, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas spermidinifaciens", "strain": "strain=9NM-10", "accession": "GCA_002351485.1", "taxid": 1141889, "species_taxid": 1141889, "relation_to_type": "type", "validated": true, "ani": 77.3003, "matched_fragments": 278, "total_fragments": 1337, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter colymbi", "strain": "strain=JCM 18338", "accession": "GCA_002155685.1", "taxid": 1161202, "species_taxid": 1161202, "relation_to_type": "type", "validated": true, "ani": 77.2124, "matched_fragments": 237, 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