{ "type": "genome", "identifier": "GCA_004173315.1", "organism": "Cytophagaceae bacterium", "title": "Cytophagaceae bacterium", "description": "derived from metagenome; fragmented assembly; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of East Anglia", "publication": [ {} ], "properties": { "assembly_accession": "GCA_004173315.1", "bioproject": "PRJNA272922", "biosample": "SAMN10678573", "wgs_master": "SEBE00000000.1", "refseq_category": "na", "taxid": "2026729", "species_taxid": "2026729", "organism_name": "Cytophagaceae bacterium", "infraspecific_name": "", "isolate": "PMG_021", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/02/12", "asm_name": "ASM417331v1", "submitter": "University of East Anglia", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/173/315/GCA_004173315.1_ASM417331v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-02-12", "dateModified": "2019-02-12", "datePublished": "2019-02-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Cytophagaceae bacterium" ], "sample_taxid": [ "2026729" ], "sample_host_organism": [ "Populus alba" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: Norwich" ], "sample_host_location_id": [], "data_size": "1.389 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 16.67, "contamination": 20.83, "strain_heterogeneity": 57.14, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4900465", "Number of Sequences": "2045", "Longest Sequences (bp)": "26484", "N50 (bp)": "2702", "Gap Ratio (%)": "0.001102", "GCcontent (%)": "63.2", "Number of CDSs": "2508", "Average Protein Length": "275.2", "Coding Ratio (%)": "42.3", "Number of rRNAs": "0", "Number of tRNAs": "18", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Hymenobacter setariae", "strain": "strain=Fur1", "accession": "GCA_007713685.1", "taxid": 2594794, "species_taxid": 2594794, "relation_to_type": "type", "validated": true, "ani": 81.5175, "matched_fragments": 386, "total_fragments": 585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter polaris", "strain": "strain=RP-2-7", "accession": "GCA_012927305.1", "taxid": 2682546, "species_taxid": 2682546, "relation_to_type": "type", "validated": true, "ani": 80.9804, "matched_fragments": 369, "total_fragments": 585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter ginkgonis", "strain": "strain=HMF4947", "accession": "GCA_009755225.1", "taxid": 2682976, "species_taxid": 2682976, "relation_to_type": "type", "validated": true, "ani": 80.8682, "matched_fragments": 359, "total_fragments": 585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter baengnokdamensis", "strain": "strain=BRD72", "accession": "GCA_008728635.1", "taxid": 2615203, "species_taxid": 2615203, "relation_to_type": "type", "validated": true, "ani": 80.4123, "matched_fragments": 295, "total_fragments": 585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter frigidus", "strain": "strain=CGMCC 1.14966", "accession": "GCA_014640435.1", "taxid": 1524095, "species_taxid": 1524095, "relation_to_type": "type", "validated": true, "ani": 78.2773, "matched_fragments": 223, "total_fragments": 585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter aerophilus", "strain": "strain=DSM 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"matched_fragments": 368, "total_fragments": 585, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Hymenobacter", "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_017571525.1", "gtdb_species": "s__Hymenobacter sp017571525", "ani": 80.883, "matched_fragments": 353, "total_fragments": 585, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Hymenobacter", "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_008728635.1", "gtdb_species": "s__Hymenobacter baengnokdamensis", "ani": 80.4032, "matched_fragments": 295, "total_fragments": 585, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Hymenobacter", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.232, "cell_length": 0.526, "doubling_h": null, "growth_tmp": 26.902, "optimum_tmp": 26.908, "optimum_ph": 7.178, "genome_size": 6461989.452, "gc_content": 45.029, "coding_genes": 5174.515, "rRNA16S_genes": 2.888, "tRNA_genes": 41.35, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.162, "range_salinity": 1.0, "facultative_respiration": 0.06, "anaerobic_respiration": 0.02, "aerobic_respiration": 0.92, "mesophilic_range_tmp": 0.875, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.125, "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 }, "_gtdb_taxon": [ "Unclassified Bacteria" ], "_genome_taxon": [ "Cytophagaceae", "bacterium", "Unclassified Bacteria", "Unclassified", "Bacteria" ], "_meo": [ { "id": "MEO_0000207", "label": "woodland" } ], "quality": 1, "quality_label": "\u2b50\ufe0f" }