{ "type": "genome", "identifier": "GCF_900108015.1", "organism": "Flavobacterium urumqiense", "title": "Flavobacterium urumqiense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900108015.1", "bioproject": "PRJNA224116", "biosample": "SAMN04488130", "wgs_master": "FNVP00000000.1", "refseq_category": "reference genome", "taxid": "935224", "species_taxid": "935224", "organism_name": "Flavobacterium urumqiense", "infraspecific_name": "strain=CGMCC 1.9230", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/24", "asm_name": "IMG-taxon 2617270781 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900108015.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/108/015/GCF_900108015.1_IMG-taxon_2617270781_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3439151", "genome_size_ungapped": "3435601", "gc_percent": "33.500000", "replicon_count": "0", "scaffold_count": "31", "contig_count": "31", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900108015.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "3091", "protein_coding_gene_count": "3001", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-24", "dateModified": "2016-10-24", "datePublished": "2016-10-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium urumqiense" ], "sample_taxid": [ "935224" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.960 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)": "3439151", "Number of Sequences": "31", "Longest Sequences (bp)": "705976", "N50 (bp)": "228498", "Gap Ratio (%)": "0.103223", "GCcontent (%)": "33.5", "Number of CDSs": "2987", "Average Protein Length": "326.4", "Coding Ratio (%)": "85.1", "Number of rRNAs": "3", "Number of tRNAs": "42", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium urumqiense", "strain": "strain=CGMCC 1.9230", "accession": "GCA_900108015.1", "taxid": 935224, 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"type", "validated": true, "ani": 83.0092, "matched_fragments": 721, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium ranwuense", "strain": "strain=LB2P22", "accession": "GCA_004349315.1", "taxid": 2541725, "species_taxid": 2541725, "relation_to_type": "type", "validated": true, "ani": 82.841, "matched_fragments": 745, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sinopsychrotolerans", "strain": "strain=CGMCC 1.8704", "accession": "GCA_900110375.1", "taxid": 604089, "species_taxid": 604089, "relation_to_type": "type", "validated": true, "ani": 82.7378, "matched_fragments": 706, "total_fragments": 1129, "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": 82.6263, "matched_fragments": 713, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium caseinilyticum", "strain": "strain=AT-3-2", "accession": "GCA_004349085.1", "taxid": 2541732, "species_taxid": 2541732, "relation_to_type": "type", "validated": true, "ani": 82.5936, "matched_fragments": 692, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium limicola", "strain": "strain=DSM 15094", "accession": "GCA_003634755.1", "taxid": 180441, "species_taxid": 180441, "relation_to_type": "type", "validated": true, "ani": 82.4547, "matched_fragments": 690, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium petrolei", "strain": "strain=Kopri-42", "accession": "GCA_003314435.2", "taxid": 2259594, "species_taxid": 2259594, "relation_to_type": "type", "validated": true, "ani": 82.3387, "matched_fragments": 717, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium flabelliforme", "strain": "strain=P4023", "accession": "GCA_017948675.1", "taxid": 2816119, "species_taxid": 2816119, "relation_to_type": "type", "validated": true, "ani": 80.0391, "matched_fragments": 543, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium frigoris", "strain": "strain=DSM 15719", "accession": "GCA_900111075.1", "taxid": 229204, "species_taxid": 229204, "relation_to_type": "type", "validated": true, "ani": 79.4825, "matched_fragments": 565, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium taihuense", "strain": "strain=NAS39", "accession": "GCA_019351435.1", "taxid": 2857508, "species_taxid": 2857508, "relation_to_type": "type", "validated": true, "ani": 78.9372, "matched_fragments": 500, "total_fragments": 1129, "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": 78.5531, "matched_fragments": 358, "total_fragments": 1129, "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": 78.2506, "matched_fragments": 372, "total_fragments": 1129, "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": 78.1343, "matched_fragments": 377, "total_fragments": 1129, "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": 76.6211, "matched_fragments": 136, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900108015.1", "gtdb_species": "s__Flavobacterium urumqiense", "ani": 100.0, "matched_fragments": 1123, "total_fragments": 1129, "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_900142885.1", "gtdb_species": "s__Flavobacterium 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