{ "type": "genome", "identifier": "GCF_900109375.1", "organism": "Aquimarina amphilecti", "title": "Aquimarina amphilecti", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900109375.1", "bioproject": "PRJNA224116", "biosample": "SAMN04487910", "wgs_master": "FOAB00000000.1", "refseq_category": "reference genome", "taxid": "1038014", "species_taxid": "1038014", "organism_name": "Aquimarina amphilecti", "infraspecific_name": "strain=DSM 25232", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/31", "asm_name": "IMG-taxon 2622736580 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900109375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/109/375/GCF_900109375.1_IMG-taxon_2622736580_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": "5309872", "genome_size_ungapped": "5307707", "gc_percent": "32.000000", "replicon_count": "0", "scaffold_count": "16", "contig_count": "16", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900109375.1-RS_2024_04_24", "annotation_date": "2024-04-24", "total_gene_count": "4684", "protein_coding_gene_count": "4605", "non_coding_gene_count": "63", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-31", "dateModified": "2016-10-31", "datePublished": "2016-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Aquimarina amphilecti" ], "sample_taxid": [ "1038014" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.475 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)": "5309872", "Number of Sequences": "16", "Longest Sequences (bp)": "994276", "N50 (bp)": "646564", "Gap Ratio (%)": "0.040773", "GCcontent (%)": "32.0", "Number of CDSs": "4615", "Average Protein Length": "340.0", "Coding Ratio (%)": "88.7", "Number of rRNAs": "5", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aquimarina amphilecti", "strain": "strain=DSM 25232", "accession": "GCA_900109375.1", "taxid": 1038014, "species_taxid": 1038014, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1759, "total_fragments": 1762, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aquimarina latercula", "strain": "strain=DSM 2041", "accession": "GCA_000430645.1", "taxid": 987, "species_taxid": 987, "relation_to_type": "type", "validated": true, "ani": 88.3262, "matched_fragments": 1516, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina megaterium", "strain": "strain=XH134", "accession": "GCA_000520975.1", "taxid": 1443666, "species_taxid": 1443666, "relation_to_type": "type", "validated": true, "ani": 78.3946, "matched_fragments": 501, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina atlantica", "strain": "strain=22II-S11-z7", "accession": "GCA_000626715.1", "taxid": 1317122, "species_taxid": 1317122, "relation_to_type": "type", "validated": true, "ani": 78.1142, "matched_fragments": 475, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina mytili", "strain": "strain=KCTC 23302", "accession": "GCA_016735115.1", "taxid": 874423, "species_taxid": 874423, "relation_to_type": "type", "validated": true, "ani": 78.0969, "matched_fragments": 469, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina sediminis", "strain": "strain=w01", "accession": "GCA_002895435.1", "taxid": 2070536, "species_taxid": 2070536, "relation_to_type": "type", "validated": true, "ani": 78.0826, "matched_fragments": 445, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina muelleri", "strain": "strain=DSM 19832", "accession": "GCA_000430665.1", "taxid": 279356, "species_taxid": 279356, "relation_to_type": "type", "validated": true, "ani": 78.0666, "matched_fragments": 433, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina muelleri", "strain": "strain=KCTC 12285", "accession": "GCA_014651355.1", "taxid": 279356, "species_taxid": 279356, "relation_to_type": "type", "validated": true, "ani": 78.0565, "matched_fragments": 434, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina longa", "strain": "strain=SW024", "accession": "GCA_001401755.1", "taxid": 1080221, "species_taxid": 1080221, "relation_to_type": "type", "validated": true, "ani": 78.0415, "matched_fragments": 444, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina aggregata", "strain": "strain=RZW4-3-2", "accession": "GCA_001632745.1", "taxid": 1642818, "species_taxid": 1642818, "relation_to_type": "type", "validated": true, "ani": 77.9917, "matched_fragments": 536, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter septentrionalilitoris", "strain": "strain=ANORD1", "accession": "GCA_009832745.1", "taxid": 2494657, "species_taxid": 2494657, "relation_to_type": "type", "validated": true, "ani": 76.5474, "matched_fragments": 124, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesonia algae", "strain": "strain=DSM 15361", "accession": "GCA_003253545.1", "taxid": 213248, "species_taxid": 213248, "relation_to_type": "type", "validated": true, "ani": 76.4699, "matched_fragments": 131, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum haliotis", "strain": "strain=KCTC 52419", "accession": "GCA_025215075.1", "taxid": 1888914, "species_taxid": 1888914, "relation_to_type": "type", "validated": true, "ani": 76.281, "matched_fragments": 115, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella ulvae", "strain": "strain=HU1-3", "accession": "GCA_016827605.1", "taxid": 2799948, "species_taxid": 2799948, "relation_to_type": "type", "validated": true, "ani": 76.2761, "matched_fragments": 92, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter cellanae", "strain": "strain=SM13", "accession": "GCA_017569185.1", "taxid": 2818493, "species_taxid": 2818493, "relation_to_type": "type", "validated": true, "ani": 76.1818, "matched_fragments": 107, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Seonamhaeicola algicola", "strain": "strain=Gy8", "accession": "GCA_007997385.1", "taxid": 1719036, "species_taxid": 1719036, "relation_to_type": "type", "validated": true, "ani": 76.0353, "matched_fragments": 115, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum todarodis", "strain": "strain=LPB0136", "accession": "GCA_001889045.1", "taxid": 1850252, "species_taxid": 1850252, "relation_to_type": "type", "validated": true, "ani": 75.937, "matched_fragments": 124, "total_fragments": 1762, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900109375.1", "gtdb_species": "s__Aquimarina amphilecti", "ani": 100.0, "matched_fragments": 1759, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_000430645.1", "gtdb_species": "s__Aquimarina latercula", "ani": 88.3326, "matched_fragments": 1515, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "98.41", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900299505.1", "gtdb_species": "s__Aquimarina sp900299505", "ani": 87.2468, "matched_fragments": 1438, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_003443675.1", "gtdb_species": "s__Aquimarina sp003443675", "ani": 81.7219, "matched_fragments": 1200, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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": 2, "status": "-" }, { "accession": "GCF_008370685.1", "gtdb_species": "s__Aquimarina sp008370685", "ani": 78.6959, "matched_fragments": 662, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_000520975.1", "gtdb_species": "s__Aquimarina megaterium", "ani": 78.3787, "matched_fragments": 503, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.77", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_018100805.1", "gtdb_species": "s__Aquimarina sp018100805", "ani": 78.3752, "matched_fragments": 577, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_001401755.1", "gtdb_species": "s__Aquimarina longa", "ani": 78.0243, "matched_fragments": 448, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_900299535.1", "gtdb_species": "s__Aquimarina sp900299535", "ani": 77.9877, "matched_fragments": 424, "total_fragments": 1762, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.11", "min_intra_species_ani": "95.11", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.503, "cell_length": 0.521, "doubling_h": null, "growth_tmp": 20.0, "optimum_tmp": 28.416, "optimum_ph": 7.25, "genome_size": 5309872.0, "gc_content": 31.955, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.857, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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": [ "Aquimarina", "amphilecti" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }