{ "type": "genome", "identifier": "GCF_011762085.1", "organism": "Sphingomonas japonica", "title": "Sphingomonas japonica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011762085.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025060", "wgs_master": "JAASQP000000000.1", "refseq_category": "reference genome", "taxid": "511662", "species_taxid": "511662", "organism_name": "Sphingomonas japonica", "infraspecific_name": "strain=DSM 22753", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/27", "asm_name": "ASM1176208v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_011762085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/762/085/GCF_011762085.1_ASM1176208v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2862547", "genome_size_ungapped": "2862547", "gc_percent": "66.500000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011762085.1-RS_2024_03_17", "annotation_date": "2024-03-17", "total_gene_count": "2852", "protein_coding_gene_count": "2784", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-27", "dateModified": "2020-03-27", "datePublished": "2020-03-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas japonica" ], "sample_taxid": [ "511662" ], "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": "0.780 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)": "2862547", "Number of Sequences": "1", "Longest Sequences (bp)": "2862547", "N50 (bp)": "2862547", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.3", "Number of CDSs": "2791", "Average Protein Length": "316.3", "Coding Ratio (%)": "92.5", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas japonica", "strain": "strain=DSM 22753", "accession": "GCA_011762085.1", "taxid": 511662, "species_taxid": 511662, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 954, "total_fragments": 954, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphingomonas baiyangensis", "strain": "strain=L-1-4 w-11", "accession": "GCA_005144715.1", "taxid": 2572576, "species_taxid": 2572576, "relation_to_type": "type", "validated": true, "ani": 80.5074, "matched_fragments": 585, "total_fragments": 954, "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": 80.0956, "matched_fragments": 566, "total_fragments": 954, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas naasensis", "strain": "strain=KIS18-15", "accession": "GCA_004792695.1", "taxid": 1344951, "species_taxid": 1344951, "relation_to_type": "type", "validated": true, "ani": 79.9967, "matched_fragments": 553, "total_fragments": 954, "ani_threshold": 95, "status": "below_threshold" 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"strain": "strain=JSS26", "accession": "GCA_002797435.1", "taxid": 93064, "species_taxid": 93064, "relation_to_type": "type", "validated": true, "ani": 79.7667, "matched_fragments": 518, "total_fragments": 954, "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": 79.7626, "matched_fragments": 493, "total_fragments": 954, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas koreensis", "strain": "strain=NBRC 16723", "accession": "GCA_001598395.1", "taxid": 93064, "species_taxid": 93064, "relation_to_type": "type", "validated": true, "ani": 79.7484, "matched_fragments": 506, "total_fragments": 954, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas trueperi", "strain": "strain=DSM 7225", "accession": "GCA_011927635.1", 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79.2941, "matched_fragments": 503, "total_fragments": 954, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas rubra", "strain": "strain=CGMCC 1.9113", "accession": "GCA_900115745.1", "taxid": 634430, "species_taxid": 634430, "relation_to_type": "type", "validated": true, "ani": 79.2114, "matched_fragments": 450, "total_fragments": 954, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas turrisvirgatae", "strain": "strain=MCT13", "accession": "GCA_001721295.1", "taxid": 1888892, "species_taxid": 1888892, "relation_to_type": "type", "validated": true, "ani": 79.1926, "matched_fragments": 463, "total_fragments": 954, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas citri", "strain": "strain=RRHST34", "accession": "GCA_019429485.1", "taxid": 2862499, "species_taxid": 2862499, "relation_to_type": "type", "validated": true, "ani": 79.0833, "matched_fragments": 483, "total_fragments": 954, 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