{ "type": "genome", "identifier": "GCF_003971195.1", "organism": "Flaviflexus ciconiae", "title": "Flaviflexus ciconiae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kyung Hee University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003971195.1", "bioproject": "PRJNA224116", "biosample": "SAMN10591669", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2496867", "species_taxid": "2496867", "organism_name": "Flaviflexus ciconiae", "infraspecific_name": "strain=H23T48", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/26", "asm_name": "ASM397119v1", "asm_submitter": "Kyung Hee University", "gbrs_paired_asm": "GCA_003971195.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/971/195/GCF_003971195.1_ASM397119v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2830639", "genome_size_ungapped": "2830639", "gc_percent": "59.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003971195.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "2643", "protein_coding_gene_count": "2473", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-26", "dateModified": "2018-12-26", "datePublished": "2018-12-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Flaviflexus ciconiae" ], "sample_taxid": [ "2496867" ], "sample_host_organism": [ "Ciconia boyciana" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "0.800 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)": "2830639", "Number of Sequences": "1", "Longest Sequences (bp)": "2830639", "N50 (bp)": "2830639", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.5", "Number of CDSs": "2734", "Average Protein Length": "296.6", "Coding Ratio (%)": "85.9", "Number of rRNAs": "9", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flaviflexus ciconiae", "strain": "strain=H23T48", "accession": "GCA_003971195.1", "taxid": 2496867, "species_taxid": 2496867, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 942, "total_fragments": 943, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flaviflexus massiliensis", "strain": "strain=SIT4", "accession": "GCA_001375495.1", "taxid": 1522309, "species_taxid": 1522309, "relation_to_type": "type", "validated": true, "ani": 80.269, "matched_fragments": 394, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flaviflexus equikiangi", "strain": "strain=dk850", "accession": "GCA_014069875.1", "taxid": 2758573, "species_taxid": 2758573, "relation_to_type": "type", "validated": true, "ani": 79.4203, "matched_fragments": 304, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flaviflexus salsibiostraticola", "strain": "strain=KCTC 33148", "accession": "GCA_003952265.1", "taxid": 1282737, "species_taxid": 1282737, "relation_to_type": "type", "validated": true, "ani": 79.0961, "matched_fragments": 344, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flaviflexus huanghaiensis", "strain": "strain=CICC 10486", "accession": "GCA_014118685.1", "taxid": 1111473, "species_taxid": 1111473, "relation_to_type": "type", "validated": true, "ani": 78.5872, "matched_fragments": 238, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sanguibacter keddieii", "strain": "strain=DSM 10542", "accession": "GCA_000024925.1", "taxid": 60920, "species_taxid": 60920, "relation_to_type": "type", "validated": true, "ani": 78.0244, "matched_fragments": 67, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides jishulii", "strain": "strain=dk3136", "accession": "GCA_006007965.1", "taxid": 2575440, "species_taxid": 2575440, "relation_to_type": "type", "validated": true, "ani": 77.875, "matched_fragments": 52, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas shaoxiangyii", "strain": "strain=Z28", "accession": "GCA_004798685.1", "taxid": 2566013, "species_taxid": 2566013, "relation_to_type": "type", "validated": true, "ani": 77.7435, "matched_fragments": 67, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia soli", "strain": "strain=DSM 21838", "accession": "GCA_002563695.1", "taxid": 638953, "species_taxid": 638953, "relation_to_type": "type", "validated": true, "ani": 77.7144, "matched_fragments": 101, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter stackebrandtii", "strain": "strain=DSM 16005", "accession": "GCA_017876675.1", "taxid": 272161, "species_taxid": 272161, "relation_to_type": "type", "validated": true, "ani": 77.181, "matched_fragments": 62, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruania zhangjianzhongii", "strain": "strain=HY168", "accession": "GCA_008000995.1", "taxid": 2603206, "species_taxid": 2603206, "relation_to_type": "type", "validated": true, "ani": 76.9317, "matched_fragments": 67, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces urogenitalis", "strain": "strain=DSM 15434", "accession": "GCA_000159035.1", "taxid": 103621, "species_taxid": 103621, "relation_to_type": "type", "validated": true, "ani": 76.6932, "matched_fragments": 61, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces ruminicola", "strain": "strain=DSM 27982", "accession": "GCA_900103885.1", "taxid": 332524, "species_taxid": 332524, "relation_to_type": "type", "validated": true, "ani": 76.3717, "matched_fragments": 75, "total_fragments": 943, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003971195.1", "gtdb_species": "s__Flaviflexus sp003971195", "ani": 100.0, "matched_fragments": 942, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Flaviflexus", "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_001375495.1", "gtdb_species": "s__Flaviflexus massiliensis", "ani": 80.2232, "matched_fragments": 393, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Flaviflexus", "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_014069875.1", "gtdb_species": "s__Flaviflexus sp014069875", "ani": 79.4505, "matched_fragments": 303, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Flaviflexus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.13", "min_intra_species_ani": "99.13", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003952265.1", "gtdb_species": "s__Flaviflexus salsibiostraticola", "ani": 79.1475, "matched_fragments": 347, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Flaviflexus", "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_014118685.1", "gtdb_species": "s__Flaviflexus huanghaiensis", "ani": 78.5872, "matched_fragments": 238, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Flaviflexus", "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_004798685.1", "gtdb_species": "s__Cellulomonas shaoxiangyii", "ani": 77.7435, "matched_fragments": 67, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Cellulomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002563695.1", "gtdb_species": "s__Georgenia soli", "ani": 77.7383, "matched_fragments": 102, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Georgenia", "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_009930875.1", "gtdb_species": "s__Actinomyces sp009930875", "ani": 77.2535, "matched_fragments": 66, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "98.69", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001553565.1", "gtdb_species": "s__Actinomyces radicidentis", "ani": 77.0759, "matched_fragments": 101, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "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_000159035.1", "gtdb_species": "s__Actinomyces urogenitalis", "ani": 76.6932, "matched_fragments": 61, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.08", "min_intra_species_ani": "98.90", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900103885.1", "gtdb_species": "s__Actinomyces ruminicola", "ani": 76.3717, "matched_fragments": 75, "total_fragments": 943, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.80", "min_intra_species_ani": "96.66", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.347, "cell_length": 0.301, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 29.0, "optimum_ph": 7.75, "genome_size": 2633480.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Flaviflexus", "ciconiae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }