{ "type": "genome", "identifier": "GCF_013403925.1", "organism": "Winogradskyella wichelsiae", "title": "Winogradskyella wichelsiae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Mediterranean Institute For Advanced Studies", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013403925.1", "bioproject": "PRJNA224116", "biosample": "SAMN14839534", "wgs_master": "JABFDJ000000000.1", "refseq_category": "reference genome", "taxid": "2697007", "species_taxid": "2697007", "organism_name": "Winogradskyella wichelsiae", "infraspecific_name": "strain=Z738", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/13", "asm_name": "ASM1340392v1", "asm_submitter": "Mediterranean Institute For Advanced Studies", "gbrs_paired_asm": "GCA_013403925.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/403/925/GCF_013403925.1_ASM1340392v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3902269", "genome_size_ungapped": "3902269", "gc_percent": "32.500000", "replicon_count": "0", "scaffold_count": "57", "contig_count": "57", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013403925.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3443", "protein_coding_gene_count": "3377", "non_coding_gene_count": "46", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-13", "dateModified": "2020-07-13", "datePublished": "2020-07-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Winogradskyella wichelsiae" ], "sample_taxid": [ "2697007" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany: Helgoland Roads" ], "sample_host_location_id": [], "data_size": "1.085 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)": "3902269", "Number of Sequences": "57", "Longest Sequences (bp)": "847039", "N50 (bp)": "449921", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "32.3", "Number of CDSs": "3393", "Average Protein Length": "338.1", "Coding Ratio (%)": "88.2", "Number of rRNAs": "3", "Number of tRNAs": "39", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Winogradskyella wichelsiae", "strain": "strain=Z738", "accession": "GCA_013403925.1", "taxid": 2697007, "species_taxid": 2697007, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1276, "total_fragments": 1278, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Winogradskyella undariae", "strain": "strain=CCUG 63832", "accession": "GCA_013285155.1", "taxid": 1285465, "species_taxid": 1285465, "relation_to_type": "type", "validated": true, "ani": 89.9994, "matched_fragments": 1043, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella costae", "strain": "strain=Z3138", "accession": "GCA_013403865.1", "taxid": 2697008, "species_taxid": 2697008, "relation_to_type": "type", "validated": true, "ani": 83.5211, "matched_fragments": 834, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella ludwigii", "strain": "strain=HL116", "accession": "GCA_013403985.1", "taxid": 2686076, "species_taxid": 2686076, "relation_to_type": "type", "validated": true, "ani": 82.6127, "matched_fragments": 834, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella helgolandensis", "strain": "strain=Z963", "accession": "GCA_013404085.1", "taxid": 2697010, "species_taxid": 2697010, "relation_to_type": "type", "validated": true, "ani": 82.2578, "matched_fragments": 837, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella psychrotolerans", "strain": "strain=RS-3", "accession": "GCA_000427335.1", "taxid": 1344585, "species_taxid": 1344585, "relation_to_type": "type", "validated": true, "ani": 82.0212, "matched_fragments": 833, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella vidalii", "strain": "strain=HL634", "accession": "GCA_013403955.1", "taxid": 2615024, "species_taxid": 2615024, "relation_to_type": "type", "validated": true, "ani": 81.4721, "matched_fragments": 817, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella thalassocola", "strain": "strain=DSM 15363", "accession": "GCA_900099995.1", "taxid": 262004, "species_taxid": 262004, "relation_to_type": "type", "validated": true, "ani": 81.3639, "matched_fragments": 788, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella sediminis", "strain": "strain=DSM 28134", "accession": "GCA_003387355.1", "taxid": 1382466, "species_taxid": 1382466, "relation_to_type": "type", "validated": true, "ani": 80.6527, "matched_fragments": 679, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella endarachnes", "strain": "strain=HL2-2", "accession": "GCA_009741275.1", "taxid": 2681965, "species_taxid": 2681965, "relation_to_type": "type", "validated": true, "ani": 79.9879, "matched_fragments": 635, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Algibacter pacificus", "strain": "strain=H164", "accession": "GCA_008033385.1", "taxid": 2599389, "species_taxid": 2599389, "relation_to_type": "type", "validated": true, "ani": 78.0351, "matched_fragments": 263, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychroserpens luteolus", "strain": "strain=XSD401", "accession": "GCA_021032705.1", "taxid": 2855840, "species_taxid": 2855840, "relation_to_type": "type", "validated": true, "ani": 77.689, "matched_fragments": 254, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavivirga algicola", "strain": "strain=Y03", "accession": "GCA_012910715.1", "taxid": 2729136, "species_taxid": 2729136, "relation_to_type": "type", "validated": true, "ani": 77.2384, "matched_fragments": 214, "total_fragments": 1278, "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": 77.0067, "matched_fragments": 183, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella flava", "strain": "strain=T58", "accession": "GCA_004310325.1", "taxid": 2527939, "species_taxid": 2527939, "relation_to_type": "type", "validated": true, "ani": 76.9548, "matched_fragments": 160, "total_fragments": 1278, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013403925.1", "gtdb_species": "s__Winogradskyella wichelsiae", "ani": 100.0, "matched_fragments": 1276, "total_fragments": 1278, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_013285155.1", "gtdb_species": "s__Winogradskyella undariae", "ani": 89.9844, "matched_fragments": 1044, "total_fragments": 1278, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.00", "min_intra_species_ani": "96.07", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_013403865.1", "gtdb_species": "s__Winogradskyella costae", "ani": 83.5155, "matched_fragments": 834, "total_fragments": 1278, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", 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