{ "type": "genome", "identifier": "GCF_011758565.1", "organism": "Lysinibacter cavernae", "title": "Lysinibacter cavernae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011758565.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025613", "wgs_master": "JAAMOX000000000.1", "refseq_category": "reference genome", "taxid": "1640652", "species_taxid": "1640652", "organism_name": "Lysinibacter cavernae", "infraspecific_name": "strain=DSM 27960", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/26", "asm_name": "ASM1175856v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_011758565.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/758/565/GCF_011758565.1_ASM1175856v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3751826", "genome_size_ungapped": "3751826", "gc_percent": "60.500000", "replicon_count": "0", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011758565.1-RS_2024_04_19", "annotation_date": "2024-04-19", "total_gene_count": "3211", "protein_coding_gene_count": "3143", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-26", "dateModified": "2020-03-26", "datePublished": "2020-03-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Lysinibacter cavernae" ], "sample_taxid": [ "1640652" ], "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": "1.057 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)": "3751826", "Number of Sequences": "4", "Longest Sequences (bp)": "2210339", "N50 (bp)": "2210339", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.3", "Number of CDSs": "3187", "Average Protein Length": "352.0", "Coding Ratio (%)": "89.7", "Number of rRNAs": "6", "Number of tRNAs": "47", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lysinibacter cavernae", "strain": "strain=DSM 27960", "accession": "GCA_011758565.1", "taxid": 1640652, "species_taxid": 1640652, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1246, "total_fragments": 1248, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Klugiella xanthotipulae", "strain": "strain=DSM 18031", "accession": "GCA_006716695.1", "taxid": 244735, "species_taxid": 244735, "relation_to_type": "type", "validated": true, "ani": 78.2141, "matched_fragments": 205, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter aridicollis", "strain": "strain=DSM 17380", "accession": "GCA_013409595.1", "taxid": 283878, "species_taxid": 283878, "relation_to_type": "type", "validated": true, "ani": 77.7098, "matched_fragments": 107, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter exalbidus", "strain": "strain=DSM 22850", "accession": "GCA_017834145.1", "taxid": 662960, "species_taxid": 662960, "relation_to_type": "type", "validated": true, "ani": 77.6075, "matched_fragments": 96, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Okibacterium fritillariae", "strain": "strain=VKM Ac-2059", "accession": "GCA_900167575.1", "taxid": 123320, "species_taxid": 123320, "relation_to_type": "type", "validated": true, "ani": 77.479, "matched_fragments": 142, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbiconiux ginsengi", "strain": "strain=CGMCC 4.3491", "accession": "GCA_900107435.1", "taxid": 381665, "species_taxid": 381665, "relation_to_type": "type", "validated": true, "ani": 77.4513, "matched_fragments": 119, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinibacterium amurskyense", "strain": "strain=JCM 12362", "accession": "GCA_003668745.1", "taxid": 205941, "species_taxid": 205941, "relation_to_type": "type", "validated": true, "ani": 77.4031, "matched_fragments": 100, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microterricola viridarii", "strain": "strain=DSM 21772", "accession": "GCA_900104895.1", "taxid": 412690, "species_taxid": 412690, "relation_to_type": "type", "validated": true, "ani": 77.4022, "matched_fragments": 157, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter aridicollis", "strain": "strain=L-9", "accession": "GCA_016758215.1", "taxid": 283878, "species_taxid": 283878, "relation_to_type": "type", "validated": true, "ani": 77.2732, "matched_fragments": 104, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinibacterium amurskyense", "strain": "strain=DSM 16400", "accession": "GCA_002797685.1", "taxid": 205941, "species_taxid": 205941, "relation_to_type": "type", "validated": true, "ani": 77.26, "matched_fragments": 98, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter komagatae", "strain": "strain=DSM 8803", "accession": "GCA_006716085.1", "taxid": 55969, "species_taxid": 55969, "relation_to_type": "type", "validated": true, "ani": 77.2474, "matched_fragments": 117, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium tepidiphilum", "strain": "strain=NEAU-85", "accession": "GCA_003716325.1", "taxid": 2486026, "species_taxid": 2486026, "relation_to_type": "type", "validated": true, "ani": 77.2055, "matched_fragments": 132, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agreia pratensis", "strain": "strain=VKM Ac-2510", "accession": "GCA_900177685.1", "taxid": 150121, "species_taxid": 150121, "relation_to_type": "type", "validated": true, "ani": 77.1221, "matched_fragments": 105, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Curtobacterium flaccumfaciens", "strain": "strain=LMG 3645", "accession": "GCA_013359815.1", "taxid": 2035, "species_taxid": 2035, "relation_to_type": "suspected-type", "validated": true, "ani": 77.0494, "matched_fragments": 92, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbiconiux solani", "strain": "strain=NBRC 106740", "accession": "GCA_001571005.1", "taxid": 661329, "species_taxid": 661329, "relation_to_type": "type", "validated": true, "ani": 76.9197, "matched_fragments": 130, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter sedimenti", "strain": "strain=MIC A30", "accession": "GCA_011750795.2", "taxid": 2694931, "species_taxid": 2694931, "relation_to_type": "type", "validated": true, "ani": 76.8868, "matched_fragments": 68, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium saccharophilum", "strain": "strain=NBRC 108778", "accession": "GCA_007992455.1", "taxid": 1213358, "species_taxid": 1213358, "relation_to_type": "type", "validated": true, "ani": 76.8829, "matched_fragments": 90, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbiconiux moechotypicola", "strain": "strain=KCTC 19653", "accession": "GCA_024979255.1", "taxid": 637393, "species_taxid": 637393, "relation_to_type": "type", "validated": true, "ani": 76.859, "matched_fragments": 120, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium saccharophilum", "strain": "strain=K-1", "accession": "GCA_008017435.1", "taxid": 1213358, "species_taxid": 1213358, "relation_to_type": "type", "validated": true, "ani": 76.8575, "matched_fragments": 91, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces fucosus", "strain": "strain=CCUG 35506", "accession": "GCA_004134865.1", "taxid": 41985, "species_taxid": 41985, "relation_to_type": "type", "validated": true, "ani": 76.8139, "matched_fragments": 130, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium commune", "strain": "strain=Re1", "accession": "GCA_014836945.1", "taxid": 2762219, "species_taxid": 2762219, "relation_to_type": "type", "validated": true, "ani": 76.7685, "matched_fragments": 108, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gulosibacter hominis", "strain": "strain=401352-2018", "accession": "GCA_904842695.1", "taxid": 2770504, "species_taxid": 2770504, "relation_to_type": "type", "validated": true, "ani": 76.3284, "matched_fragments": 52, "total_fragments": 1248, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lomondensis", "strain": "strain=DSM 41428", "accession": "GCA_021440105.1", "taxid": 68229, "species_taxid": 68229, "relation_to_type": "type", "validated": true, "ani": 75.4564, "matched_fragments": 59, "total_fragments": 1248, 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