{ "type": "genome", "identifier": "GCF_002943715.1", "organism": "Polaribacter filamentus", "title": "Polaribacter filamentus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Atmosphere and Ocean Research Institute, The University of Tokyo", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002943715.1", "bioproject": "PRJNA224116", "biosample": "SAMN06074323", "wgs_master": "MQUA00000000.1", "refseq_category": "reference genome", "taxid": "53483", "species_taxid": "53483", "organism_name": "Polaribacter filamentus", "infraspecific_name": "strain=ATCC 700397", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/02/26", "asm_name": "ASM294371v1", "asm_submitter": "Atmosphere and Ocean Research Institute, The University of Tokyo", "gbrs_paired_asm": "GCA_002943715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/943/715/GCF_002943715.1_ASM294371v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4281931", "genome_size_ungapped": "4281931", "gc_percent": "31.500000", "replicon_count": "0", "scaffold_count": "15", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002943715.1-RS_2024_07_25", "annotation_date": "2024-07-25", "total_gene_count": "3989", "protein_coding_gene_count": "3770", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-02-26", "dateModified": "2018-02-26", "datePublished": "2018-02-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Polaribacter filamentus" ], "sample_taxid": [ "53483" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.165 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4281931", "Number of Sequences": "15", "Longest Sequences (bp)": "3188343", "N50 (bp)": "3188343", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "31.4", "Number of CDSs": "3976", "Average Protein Length": "306.7", "Coding Ratio (%)": "85.4", "Number of rRNAs": "9", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Polaribacter filamentus", "strain": "strain=ATCC 700397", "accession": "GCA_002943715.1", "taxid": 53483, "species_taxid": 53483, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter reichenbachii", "strain": "strain=KCTC 23969", "accession": "GCA_001680875.1", "taxid": 996801, "species_taxid": 996801, "relation_to_type": "type", "validated": true, "ani": 80.3986, "matched_fragments": 623, "total_fragments": 1421, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter butkevichii", "strain": "strain=KCTC 12100", "accession": "GCA_002954605.1", "taxid": 218490, "species_taxid": 218490, "relation_to_type": "type", "validated": true, "ani": 80.3816, "matched_fragments": 605, "total_fragments": 1421, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter reichenbachii", "strain": "strain=KCTC 23969", "accession": "GCA_002814055.1", "taxid": 996801, "species_taxid": 996801, "relation_to_type": "type", "validated": true, "ani": 80.3477, "matched_fragments": 623, "total_fragments": 1421, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter atrinae", "strain": "strain=KACC 17473", "accession": "GCA_001640115.1", "taxid": 1333662, "species_taxid": 1333662, "relation_to_type": "type", "validated": true, "ani": 80.2455, "matched_fragments": 606, "total_fragments": 1421, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter litorisediminis", "strain": "strain=OITF-11", "accession": "GCA_019968605.1", "taxid": 1908341, "species_taxid": 1908341, "relation_to_type": "type", "validated": true, "ani": 80.1036, "matched_fragments": 669, "total_fragments": 1421, "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": 79.5904, "matched_fragments": 569, "total_fragments": 1421, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter aquimarinus", "strain": "strain=ZY113", "accession": "GCA_003129485.1", "taxid": 2100726, "species_taxid": 2100726, "relation_to_type": "type", "validated": true, "ani": 79.37, "matched_fragments": 534, "total_fragments": 1421, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum aquimarinum", "strain": "strain=K20-16", "accession": "GCA_022478115.1", "taxid": 2910675, "species_taxid": 2910675, "relation_to_type": "type", "validated": true, "ani": 79.1279, "matched_fragments": 440, "total_fragments": 1421, "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": 79.1127, "matched_fragments": 448, "total_fragments": 1421, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_002943715.1", "gtdb_species": "s__Polaribacter filamentus", "ani": 100.0, "matched_fragments": 1413, "total_fragments": 1421, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "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_002954665.1", "gtdb_species": "s__Polaribacter glomeratus", "ani": 87.7374, "matched_fragments": 842, "total_fragments": 1421, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Polaribacter", "filamentus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }