{ "type": "genome", "identifier": "GCF_004345565.1", "organism": "Flavobacterium circumlabens", "title": "Flavobacterium circumlabens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004345565.1", "bioproject": "PRJNA224116", "biosample": "SAMN10864715", "wgs_master": "SLWA00000000.1", "refseq_category": "reference genome", "taxid": "2133765", "species_taxid": "2133765", "organism_name": "Flavobacterium circumlabens", "infraspecific_name": "strain=P5626", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/11", "asm_name": "ASM434556v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_004345565.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/345/565/GCF_004345565.1_ASM434556v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5756466", "genome_size_ungapped": "5755978", "gc_percent": "36.000000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004345565.1-RS_2024_11_06", "annotation_date": "2024-11-06", "total_gene_count": "4845", "protein_coding_gene_count": "4752", "non_coding_gene_count": "53", "pubmed_id": "26203337" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-11", "dateModified": "2019-03-11", "datePublished": "2019-03-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium circumlabens" ], "sample_taxid": [ "2133765" ], "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": "1.610 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)": "5756466", "Number of Sequences": "33", "Longest Sequences (bp)": "1086700", "N50 (bp)": "424161", "Gap Ratio (%)": "0.008477", "GCcontent (%)": "35.8", "Number of CDSs": "4761", "Average Protein Length": "347.8", "Coding Ratio (%)": "86.3", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium circumlabens", "strain": "strain=P5626", "accession": "GCA_004345565.1", "taxid": 2133765, "species_taxid": 2133765, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1900, "total_fragments": 1900, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium circumlabens", "strain": "strain=CCM 8828", "accession": "GCA_004369705.1", "taxid": 2133765, "species_taxid": 2133765, "relation_to_type": "type", "validated": true, "ani": 99.9988, "matched_fragments": 1897, "total_fragments": 1900, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium cupreum", "strain": "strain=CCM 8825", "accession": "GCA_003996965.1", "taxid": 2133766, "species_taxid": 2133766, "relation_to_type": "type", "validated": true, "ani": 89.8877, "matched_fragments": 1482, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium pectinovorum", "strain": "strain=ATCC 19366", "accession": "GCA_002217365.1", "taxid": 29533, "species_taxid": 29533, "relation_to_type": "type", "validated": true, "ani": 82.9665, "matched_fragments": 1126, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium pectinovorum", "strain": "strain=DSM 6368", "accession": "GCA_900142715.1", "taxid": 29533, "species_taxid": 29533, "relation_to_type": "type", "validated": true, "ani": 82.9035, "matched_fragments": 1136, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium psychroterrae", "strain": "strain=CCM 8827", "accession": "GCA_018380615.1", "taxid": 2133767, "species_taxid": 2133767, "relation_to_type": "type", "validated": true, "ani": 82.7417, "matched_fragments": 1047, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium bizetiae", "strain": "strain=CIP 105534", "accession": "GCA_904425415.1", "taxid": 2704140, "species_taxid": 2704140, "relation_to_type": "type", "validated": true, "ani": 82.7286, "matched_fragments": 1051, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium piscis", "strain": "strain=CCUG 60099", "accession": "GCA_001686925.1", "taxid": 1114874, "species_taxid": 1114874, "relation_to_type": "type", "validated": true, "ani": 82.7114, "matched_fragments": 1056, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium piscis", "strain": "strain=CCUG 60099", "accession": "GCA_002222045.1", "taxid": 1114874, "species_taxid": 1114874, "relation_to_type": "type", "validated": true, "ani": 82.709, "matched_fragments": 1028, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium aquidurense", "strain": "strain=DSM 18293", "accession": "GCA_002217195.1", "taxid": 362413, "species_taxid": 362413, "relation_to_type": "type", "validated": true, "ani": 82.6256, "matched_fragments": 1019, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium hibernum", "strain": "strain=ATCC 51468", "accession": "GCA_002217315.1", "taxid": 37752, "species_taxid": 37752, "relation_to_type": "type", "validated": true, "ani": 82.2751, "matched_fragments": 938, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium hibernum", "strain": "strain=NCTC13514", "accession": "GCA_900450525.1", "taxid": 37752, "species_taxid": 37752, "relation_to_type": "type", "validated": true, "ani": 82.2164, "matched_fragments": 935, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium soyae", "strain": "strain=SCIV07", "accession": "GCA_021245985.1", "taxid": 2903098, "species_taxid": 2903098, "relation_to_type": "type", "validated": true, "ani": 81.8393, "matched_fragments": 992, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium hydrocarbonoxydans", "strain": "strain=GA093", "accession": "GCA_009789235.1", "taxid": 2683249, "species_taxid": 2683249, "relation_to_type": "type", "validated": true, "ani": 81.8091, "matched_fragments": 939, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium reichenbachii", "strain": "strain=DSM 21791", "accession": "GCA_002217435.1", "taxid": 362418, "species_taxid": 362418, "relation_to_type": "type", "validated": true, "ani": 81.7971, "matched_fragments": 1045, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium cheongpyeongense", "strain": "strain=IMCC34759", "accession": "GCA_003202435.1", "taxid": 2212651, "species_taxid": 2212651, "relation_to_type": "type", "validated": true, "ani": 81.2009, "matched_fragments": 831, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium endoglycinae", "strain": "strain=BB8", "accession": "GCA_017352115.1", "taxid": 2816357, "species_taxid": 2816357, "relation_to_type": "type", "validated": true, "ani": 80.8484, "matched_fragments": 944, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tyrosinilyticum", "strain": "strain=KCTC 42726", "accession": "GCA_023656565.1", "taxid": 1658740, "species_taxid": 1658740, "relation_to_type": "type", "validated": true, "ani": 80.7969, "matched_fragments": 901, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium panacis", "strain": "strain=DCY106", "accession": "GCA_024649945.1", "taxid": 2962567, "species_taxid": 2962567, "relation_to_type": "type", "validated": true, "ani": 80.6827, "matched_fragments": 931, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium davisii", "strain": "strain=90-106", "accession": "GCA_019565505.1", "taxid": 2906077, "species_taxid": 2906077, "relation_to_type": "type", "validated": true, "ani": 76.6752, "matched_fragments": 129, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004345565.1", "gtdb_species": "s__Flavobacterium circumlabens", "ani": 100.0, "matched_fragments": 1900, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.60", "min_intra_species_ani": "96.60", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_009674775.1", "gtdb_species": "s__Flavobacterium sp009674775", "ani": 89.9183, "matched_fragments": 1449, "total_fragments": 1900, "gtdb_taxonomy": 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