{ "type": "genome", "identifier": "GCF_003148525.1", "organism": "Flavobacterium araucananum", "title": "Flavobacterium araucananum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003148525.1", "bioproject": "PRJNA224116", "biosample": "SAMN05444378", "wgs_master": "QGGJ00000000.1", "refseq_category": "reference genome", "taxid": "946678", "species_taxid": "946678", "organism_name": "Flavobacterium araucananum", "infraspecific_name": "strain=DSM 24704", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/05/22", "asm_name": "ASM314852v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003148525.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/148/525/GCF_003148525.1_ASM314852v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6014126", "genome_size_ungapped": "6013648", "gc_percent": "34.500000", "replicon_count": "0", "scaffold_count": "43", "contig_count": "43", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003148525.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "5042", "protein_coding_gene_count": "4942", "non_coding_gene_count": "62", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-05-22", "dateModified": "2018-05-22", "datePublished": "2018-05-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium araucananum" ], "sample_taxid": [ "946678" ], "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": "1.672 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)": "6014126", "Number of Sequences": "43", "Longest Sequences (bp)": "1683970", "N50 (bp)": "515210", "Gap Ratio (%)": "0.007948", "GCcontent (%)": "34.4", "Number of CDSs": "4922", "Average Protein Length": "348.3", "Coding Ratio (%)": "85.5", "Number of rRNAs": "4", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium araucananum", "strain": "strain=DSM 24704", "accession": "GCA_003148525.1", "taxid": 946678, "species_taxid": 946678, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1976, "total_fragments": 1982, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium araucananum", "strain": "strain=DSM 24704", "accession": "GCA_002222055.1", "taxid": 946678, "species_taxid": 946678, "relation_to_type": "type", "validated": true, "ani": 99.9243, "matched_fragments": 1880, "total_fragments": 1982, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium bizetiae", "strain": "strain=CIP 105534", "accession": "GCA_902804475.1", "taxid": 2704140, "species_taxid": 2704140, "relation_to_type": "type", "validated": true, "ani": 86.0574, "matched_fragments": 1214, "total_fragments": 1982, "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": 85.9668, "matched_fragments": 1267, "total_fragments": 1982, "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": 85.3271, "matched_fragments": 1208, "total_fragments": 1982, "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": 85.316, "matched_fragments": 1235, "total_fragments": 1982, "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": 85.1937, "matched_fragments": 1203, "total_fragments": 1982, "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": 85.1933, "matched_fragments": 1306, "total_fragments": 1982, "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": 84.2291, "matched_fragments": 1145, "total_fragments": 1982, "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": 84.2085, "matched_fragments": 1142, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium frigidimaris", "strain": "strain=DSM 15937", "accession": "GCA_002217275.1", "taxid": 262320, "species_taxid": 262320, "relation_to_type": "type", "validated": true, "ani": 83.2958, "matched_fragments": 1068, "total_fragments": 1982, "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": 82.4713, "matched_fragments": 1070, "total_fragments": 1982, "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": 81.4663, "matched_fragments": 980, "total_fragments": 1982, "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": 81.3147, "matched_fragments": 1021, "total_fragments": 1982, "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": 81.0971, "matched_fragments": 970, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium proteolyticum", "strain": "strain=1Y8A", "accession": "GCA_015223105.1", "taxid": 2911683, "species_taxid": 2911683, "relation_to_type": "type", "validated": true, "ani": 77.4077, "matched_fragments": 209, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myroides albus", "strain": "strain=BIT-d1", "accession": "GCA_009711045.1", "taxid": 2562892, "species_taxid": 2562892, "relation_to_type": "type", "validated": true, "ani": 77.3661, "matched_fragments": 75, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium branchiophilum", "strain": "strain=ATCC 35035", "accession": "GCA_002217205.1", "taxid": 55197, "species_taxid": 55197, "relation_to_type": "type", "validated": true, "ani": 77.2326, "matched_fragments": 188, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium branchiophilum", "strain": "strain=DSM 24789", "accession": "GCA_006716585.1", "taxid": 55197, "species_taxid": 55197, "relation_to_type": "type", "validated": true, "ani": 77.1503, "matched_fragments": 200, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium branchiophilum", "strain": "strain=NBRC 15030", "accession": "GCA_007990815.1", "taxid": 55197, "species_taxid": 55197, 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"num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001686925.1", "gtdb_species": "s__Flavobacterium piscis", "ani": 85.3224, "matched_fragments": 1235, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.33", "min_intra_species_ani": "97.30", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_018380615.1", "gtdb_species": "s__Flavobacterium psychroterrae", "ani": 85.2424, "matched_fragments": 1299, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_900129595.1", "gtdb_species": "s__Flavobacterium frigidimaris", "ani": 85.1973, "matched_fragments": 1213, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002754195.1", "gtdb_species": "s__Flavobacterium sp002754195", "ani": 84.8043, "matched_fragments": 1263, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { 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"doubling_h": 1.271, "growth_tmp": 28.0, "optimum_tmp": 27.5, "optimum_ph": 7.5, "genome_size": 6014126.0, "gc_content": 34.893, "coding_genes": 3154.048, "rRNA16S_genes": 5.145, "tRNA_genes": 58.611, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.333, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.789, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.21, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Flavobacterium", "araucananum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }