{ "type": "genome", "identifier": "GCF_000425445.1", "organism": "Flavobacterium denitrificans DSM 15936", "title": "Flavobacterium denitrificans DSM 15936", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000425445.1", "bioproject": "PRJNA224116", "biosample": "SAMN02441540", "wgs_master": "AUDL00000000.1", "refseq_category": "reference genome", "taxid": "1121888", "species_taxid": "281361", "organism_name": "Flavobacterium denitrificans DSM 15936", "infraspecific_name": "strain=DSM 15936", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/11", "asm_name": "ASM42544v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000425445.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/425/445/GCF_000425445.1_ASM42544v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4823485", "genome_size_ungapped": "4820298", "gc_percent": "34.000000", "replicon_count": "0", "scaffold_count": "24", "contig_count": "30", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000425445.1-RS_2024_04_29", "annotation_date": "2024-04-29", "total_gene_count": "4132", "protein_coding_gene_count": "4052", "non_coding_gene_count": "62", "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 denitrificans DSM 15936" ], "sample_taxid": [ "1121888" ], "sample_host_organism": [ "Aporrectodea caliginosa" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "1.341 MB", "sample_ph_range": { "min": 7.0, "max": 7.0 }, "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)": "4823485", "Number of Sequences": "24", "Longest Sequences (bp)": "1091419", "N50 (bp)": "689398", "Gap Ratio (%)": "0.066073", "GCcontent (%)": "34.0", "Number of CDSs": "4068", "Average Protein Length": "345.1", "Coding Ratio (%)": "87.3", "Number of rRNAs": "6", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium denitrificans", "strain": "strain=DSM 15936", "accession": "GCA_000425445.1", "taxid": 281361, 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"total_fragments": 1594, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium panici", "strain": "", "accession": "GCA_903819335.1", "taxid": 2654843, "species_taxid": 2654843, "relation_to_type": "type", "validated": true, "ani": 83.6865, "matched_fragments": 1071, "total_fragments": 1594, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sharifuzzamanii", "strain": "strain=A7.6", "accession": "GCA_003254585.1", "taxid": 2211133, "species_taxid": 2211133, "relation_to_type": "type", "validated": true, "ani": 83.6731, "matched_fragments": 1044, "total_fragments": 1594, "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": 83.6392, "matched_fragments": 1061, "total_fragments": 1594, "ani_threshold": 95, "status": 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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_007341385.1", "gtdb_species": "s__Flavobacterium daemonense", "ani": 85.9699, "matched_fragments": 1175, "total_fragments": 1594, "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_003385895.1", "gtdb_species": "s__Flavobacterium cutihirudinis", "ani": 85.5211, "matched_fragments": 1125, "total_fragments": 1594, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": 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