{ "type": "genome", "identifier": "GCF_000422705.1", "organism": "Flavobacterium soli DSM 19725", "title": "Flavobacterium soli DSM 19725", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000422705.1", "bioproject": "PRJNA224116", "biosample": "SAMN02441178", "wgs_master": "AUGO00000000.1", "refseq_category": "reference genome", "taxid": "1121897", "species_taxid": "344881", "organism_name": "Flavobacterium soli DSM 19725", "infraspecific_name": "strain=DSM 19725", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/11", "asm_name": "ASM42270v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000422705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/422/705/GCF_000422705.1_ASM42270v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4002854", "genome_size_ungapped": "3998751", "gc_percent": "36.000000", "replicon_count": "0", "scaffold_count": "21", "contig_count": "24", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000422705.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "3500", "protein_coding_gene_count": "3425", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-11", "dateModified": "2013-07-11", "datePublished": "2013-07-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium soli DSM 19725" ], "sample_taxid": [ "1121897" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.119 MB", "sample_ph_range": { "min": 6580.0, "max": 6580.0 }, "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)": "4002854", "Number of Sequences": "21", "Longest Sequences (bp)": "680451", "N50 (bp)": "408619", "Gap Ratio (%)": "0.102502", "GCcontent (%)": "36.1", "Number of CDSs": "3397", "Average Protein Length": "344.7", "Coding Ratio (%)": "87.8", "Number of rRNAs": "4", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium soli", "strain": "strain=DSM 19725", "accession": "GCA_000422705.1", "taxid": 344881, "species_taxid": 344881, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1321, "total_fragments": 1324, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium macacae", "strain": "strain=YIM 102600", "accession": "GCA_003865365.1", "taxid": 2488993, "species_taxid": 2488993, "relation_to_type": "type", "validated": true, "ani": 79.1697, "matched_fragments": 350, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium gossypii", "strain": "strain=DSM 100397", "accession": "GCA_014138495.1", "taxid": 1646119, "species_taxid": 1646119, "relation_to_type": "type", "validated": true, "ani": 78.8025, "matched_fragments": 281, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium antarcticum", "strain": "strain=DSM 19726", "accession": "GCA_000419685.1", "taxid": 271155, "species_taxid": 271155, "relation_to_type": "type", "validated": true, "ani": 78.7935, "matched_fragments": 316, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tegetincola", "strain": "strain=DSM 22377", "accession": "GCA_000425485.1", "taxid": 150172, "species_taxid": 150172, "relation_to_type": "type", "validated": true, "ani": 78.6917, "matched_fragments": 294, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium endophyticum", "strain": "strain=DSM 29537", "accession": "GCA_003634455.1", "taxid": 1540163, "species_taxid": 1540163, "relation_to_type": "type", "validated": true, "ani": 78.6256, "matched_fragments": 276, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium psychrotolerans", "strain": "strain=RB1R5", "accession": "GCA_003097635.1", "taxid": 2169410, "species_taxid": 2169410, "relation_to_type": "type", "validated": true, "ani": 78.3442, "matched_fragments": 246, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium saccharophilum", "strain": "strain=DSM 1811", "accession": "GCA_900142735.1", "taxid": 29534, "species_taxid": 29534, "relation_to_type": "type", "validated": true, "ani": 78.3063, "matched_fragments": 296, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium rhamnosiphilum", "strain": "strain=LB3P52", "accession": "GCA_004349195.1", "taxid": 2541724, "species_taxid": 2541724, "relation_to_type": "type", "validated": true, "ani": 78.2493, "matched_fragments": 286, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium circumlabens", "strain": "strain=P5626", "accession": "GCA_004345565.1", "taxid": 2133765, "species_taxid": 2133765, "relation_to_type": "type", "validated": true, "ani": 78.237, "matched_fragments": 253, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium aquatile", "strain": "strain=LMG 4008", "accession": "GCA_000757385.1", "taxid": 245, "species_taxid": 245, "relation_to_type": "type", "validated": true, "ani": 78.2352, "matched_fragments": 305, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium aquatile", "strain": "strain=NBRC 15052", "accession": "GCA_006539785.1", "taxid": 245, "species_taxid": 245, "relation_to_type": "type", "validated": true, "ani": 78.2351, "matched_fragments": 299, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium gawalongense", "strain": "strain=GSP16", "accession": "GCA_007097265.1", "taxid": 2594432, "species_taxid": 2594432, "relation_to_type": "type", "validated": true, "ani": 78.2238, "matched_fragments": 288, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium hiemivividum", "strain": "strain=TSA-D2", "accession": "GCA_004349145.1", "taxid": 2541734, "species_taxid": 2541734, "relation_to_type": "type", "validated": true, "ani": 78.2028, "matched_fragments": 227, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium circumlabens", "strain": "strain=CCM 8828", "accession": "GCA_004369705.1", "taxid": 2133765, "species_taxid": 2133765, "relation_to_type": "type", "validated": true, "ani": 78.1973, "matched_fragments": 258, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium aquatile", "strain": "strain=ATCC 11947", "accession": "GCA_002217235.1", "taxid": 245, "species_taxid": 245, "relation_to_type": "type", "validated": true, "ani": 78.1788, "matched_fragments": 312, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium psychrolimnae", "strain": "strain=LMG 22018", "accession": "GCA_003312425.1", "taxid": 249351, "species_taxid": 249351, "relation_to_type": "type", "validated": true, "ani": 78.1666, "matched_fragments": 284, "total_fragments": 1324, "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": 78.1284, "matched_fragments": 264, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sandaracinum", "strain": "strain=LB-D12", "accession": "GCA_004349135.1", "taxid": 2541733, "species_taxid": 2541733, "relation_to_type": "type", "validated": true, "ani": 78.0864, "matched_fragments": 281, "total_fragments": 1324, "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": 77.9533, "matched_fragments": 262, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium urumqiense", "strain": "strain=CGMCC 1.9230", "accession": "GCA_900108015.1", "taxid": 935224, "species_taxid": 935224, "relation_to_type": "type", "validated": true, "ani": 77.8854, "matched_fragments": 263, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium microcysteis", "strain": "strain=MaA-Y11", "accession": "GCA_006385255.1", "taxid": 2596891, "species_taxid": 2596891, "relation_to_type": "type", "validated": true, "ani": 77.8576, "matched_fragments": 322, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium celericrescens", "strain": "strain=TWA-26", "accession": "GCA_011392075.1", "taxid": 2709780, "species_taxid": 2709780, "relation_to_type": "type", "validated": true, "ani": 77.6395, "matched_fragments": 214, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium filum", "strain": "strain=DSM 17961", "accession": "GCA_000425465.1", "taxid": 370974, "species_taxid": 370974, "relation_to_type": "type", "validated": true, "ani": 77.6338, "matched_fragments": 216, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium lacus", "strain": "strain=CGMCC 1.12504", "accession": "GCA_003268815.1", "taxid": 1353778, "species_taxid": 1353778, "relation_to_type": "type", "validated": true, "ani": 77.617, "matched_fragments": 215, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium cyclinae", "strain": "strain=KSM-R2A25", "accession": "GCA_021172145.1", "taxid": 2895947, "species_taxid": 2895947, "relation_to_type": "type", "validated": true, "ani": 77.565, "matched_fragments": 217, "total_fragments": 1324, "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": 77.5515, "matched_fragments": 167, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium oreochromis", "strain": "strain=Costa Rica 04-02-TN", "accession": "GCA_019565455.1", "taxid": 2906078, "species_taxid": 2906078, "relation_to_type": "type", "validated": true, "ani": 76.6748, "matched_fragments": 121, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium jumunjinense", "strain": "strain=HME7102", "accession": "GCA_021650975.2", "taxid": 998845, "species_taxid": 998845, "relation_to_type": "type", "validated": true, "ani": 76.6082, "matched_fragments": 178, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000422705.1", "gtdb_species": "s__Flavobacterium soli", "ani": 100.0, "matched_fragments": 1321, "total_fragments": 1324, "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": "conclusive" }, { "accession": "GCF_003865365.1", "gtdb_species": "s__Flavobacterium macacae", "ani": 79.1759, "matched_fragments": 349, "total_fragments": 1324, "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": "GCF_000419685.1", "gtdb_species": "s__Flavobacterium antarcticum", "ani": 78.8082, "matched_fragments": 314, "total_fragments": 1324, "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": "GCF_000425485.1", "gtdb_species": "s__Flavobacterium tegetincola", "ani": 78.6858, "matched_fragments": 295, "total_fragments": 1324, "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": "GCF_003634455.1", "gtdb_species": "s__Flavobacterium endophyticum", "ani": 78.6256, "matched_fragments": 276, "total_fragments": 1324, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.19", "min_intra_species_ani": "97.19", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000426145.1", "gtdb_species": "s__Flavobacterium sp000426145", "ani": 78.4651, "matched_fragments": 287, "total_fragments": 1324, "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": "GCF_007109225.1", "gtdb_species": "s__Flavobacterium sp007109225", "ani": 78.3555, "matched_fragments": 237, "total_fragments": 1324, "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": "GCF_900142735.1", "gtdb_species": "s__Flavobacterium saccharophilum", "ani": 78.3126, "matched_fragments": 293, "total_fragments": 1324, "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": "GCF_003097635.1", "gtdb_species": "s__Flavobacterium psychrotolerans", "ani": 78.2959, "matched_fragments": 248, "total_fragments": 1324, "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": "GCF_000812945.1", "gtdb_species": "s__Flavobacterium sp000812945", "ani": 78.2379, "matched_fragments": 276, "total_fragments": 1324, "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": "GCF_000757385.1", "gtdb_species": "s__Flavobacterium aquatile", "ani": 78.2329, "matched_fragments": 304, "total_fragments": 1324, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_004349145.1", "gtdb_species": "s__Flavobacterium hiemivividum", "ani": 78.2189, "matched_fragments": 226, "total_fragments": 1324, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.37", "min_intra_species_ani": "95.37", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001427905.1", "gtdb_species": "s__Flavobacterium sp001427905", "ani": 78.1689, "matched_fragments": 293, "total_fragments": 1324, "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": "GCF_000744835.1", "gtdb_species": "s__Flavobacterium sp000744835", "ani": 78.164, "matched_fragments": 270, "total_fragments": 1324, "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": "GCF_002217435.1", "gtdb_species": "s__Flavobacterium 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