{ "type": "genome", "identifier": "GCF_003122385.1", "organism": "Flavobacterium crocinum", "title": "Flavobacterium crocinum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003122385.1", "bioproject": "PRJNA224116", "biosample": "SAMN09062264", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2183896", "species_taxid": "2183896", "organism_name": "Flavobacterium crocinum", "infraspecific_name": "strain=HYN0056", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/05/14", "asm_name": "ASM312238v1", "asm_submitter": "Korea University", "gbrs_paired_asm": "GCA_003122385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/122/385/GCF_003122385.1_ASM312238v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5877431", "genome_size_ungapped": "5877431", "gc_percent": "34.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003122385.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "4958", "protein_coding_gene_count": "4859", "non_coding_gene_count": "86", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-05-14", "dateModified": "2018-05-14", "datePublished": "2018-05-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium crocinum" ], "sample_taxid": [ "2183896" ], "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": "1.629 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)": "5877431", "Number of Sequences": "1", "Longest Sequences (bp)": "5877431", "N50 (bp)": "5877431", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.0", "Number of CDSs": "4865", "Average Protein Length": "349.2", "Coding Ratio (%)": "86.7", "Number of rRNAs": "18", "Number of tRNAs": "65", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium crocinum", "strain": "strain=HYN0056", "accession": "GCA_003122385.1", "taxid": 2183896, "species_taxid": 2183896, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1956, "total_fragments": 1959, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium quisquiliarum", "strain": "strain=EA-12", "accession": "GCA_019308285.1", "taxid": 1834436, "species_taxid": 1834436, "relation_to_type": "type", "validated": true, "ani": 90.0782, "matched_fragments": 1571, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium phragmitis", "strain": "strain=CGMCC 1.10370", "accession": "GCA_900112575.1", "taxid": 739143, "species_taxid": 739143, "relation_to_type": "type", "validated": true, "ani": 89.6959, "matched_fragments": 1545, "total_fragments": 1959, "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": 85.6306, "matched_fragments": 1473, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tistrianum", "strain": "strain=GB 56.1", "accession": "GCA_003254545.1", "taxid": 1685414, "species_taxid": 1685414, "relation_to_type": "type", "validated": true, "ani": 85.4511, "matched_fragments": 1218, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium nitrogenifigens", "strain": "strain=NXU-44", "accession": "GCA_003254565.1", "taxid": 1617283, "species_taxid": 1617283, "relation_to_type": "type", "validated": true, "ani": 85.3772, "matched_fragments": 1257, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium nitrogenifigens", "strain": "strain=DSM 29982", "accession": "GCA_900182675.1", "taxid": 1617283, "species_taxid": 1617283, "relation_to_type": "type", "validated": true, "ani": 85.3312, "matched_fragments": 1261, "total_fragments": 1959, "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": 85.1918, "matched_fragments": 1281, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium foetidum", "strain": "strain=JCM 32085", "accession": "GCA_004634245.1", "taxid": 2026681, "species_taxid": 2026681, "relation_to_type": "type", "validated": true, "ani": 84.3852, "matched_fragments": 1193, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium johnsoniae", "strain": "strain=UW101; ATCC 17061", "accession": "GCA_000016645.1", "taxid": 986, "species_taxid": 986, "relation_to_type": "type", "validated": true, "ani": 84.2531, "matched_fragments": 1242, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium johnsoniae", "strain": "strain=DSM 2064", "accession": "GCA_900142355.1", "taxid": 986, "species_taxid": 986, "relation_to_type": "type", "validated": true, "ani": 84.2306, "matched_fragments": 1234, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium johnsoniae", "strain": "strain=ATCC 17061", "accession": "GCA_002221975.1", "taxid": 986, "species_taxid": 986, "relation_to_type": "type", "validated": true, "ani": 84.2133, "matched_fragments": 1224, "total_fragments": 1959, "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": 83.5815, "matched_fragments": 1080, "total_fragments": 1959, "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": 83.2772, "matched_fragments": 1174, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium denitrificans", "strain": "strain=DSM 15936", "accession": "GCA_000425445.1", "taxid": 281361, "species_taxid": 281361, "relation_to_type": "type", "validated": true, "ani": 83.2457, "matched_fragments": 1077, "total_fragments": 1959, "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": 77.6594, "matched_fragments": 228, "total_fragments": 1959, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003122385.1", "gtdb_species": "s__Flavobacterium crocinum", "ani": 100.0, "matched_fragments": 1957, "total_fragments": 1959, "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_013393195.1", "gtdb_species": "s__Flavobacterium collinsii_A", "ani": 90.093, "matched_fragments": 1562, "total_fragments": 1959, "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_900112575.1", "gtdb_species": "s__Flavobacterium phragmitis", "ani": 89.6959, "matched_fragments": 1545, "total_fragments": 1959, "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_014207905.1", "gtdb_species": "s__Flavobacterium notoginsengisoli", "ani": 86.244, "matched_fragments": 1366, "total_fragments": 1959, "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": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_902167265.1", "gtdb_species": "s__Flavobacterium anhuiense_B", "ani": 85.7723, "matched_fragments": 1498, "total_fragments": 1959, "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": 4, "status": "-" }, { "accession": "GCF_013388355.1", "gtdb_species": "s__Flavobacterium sp013388355", "ani": 85.7616, "matched_fragments": 951, "total_fragments": 1959, "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_003254625.1", "gtdb_species": "s__Flavobacterium ginsenosidimutans", "ani": 85.7463, "matched_fragments": 1356, "total_fragments": 1959, "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_016735615.1", "gtdb_species": "s__Flavobacterium sp016735615", "ani": 85.6695, "matched_fragments": 1291, "total_fragments": 1959, "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_003254545.1", "gtdb_species": "s__Flavobacterium tistrianum", "ani": 85.4737, "matched_fragments": 1215, 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Flavobacterium", "crocinum" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }