{ "type": "genome", "identifier": "GCF_002902455.1", "organism": "Staphylococcus auricularis", "title": "Staphylococcus auricularis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Modernising Medical Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002902455.1", "bioproject": "PRJNA224116", "biosample": "SAMN05978007", "wgs_master": "PPQW00000000.1", "refseq_category": "na", "taxid": "29379", "species_taxid": "29379", "organism_name": "Staphylococcus auricularis", "infraspecific_name": "strain=NCTC 12101", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/01/27", "asm_name": "ASM290245v1", "asm_submitter": "Modernising Medical Microbiology", "gbrs_paired_asm": "GCA_002902455.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/902/455/GCF_002902455.1_ASM290245v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2201622", "genome_size_ungapped": "2201268", "gc_percent": "37.000000", "replicon_count": "0", "scaffold_count": "103", "contig_count": "103", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002902455.1-RS_2024_09_03", "annotation_date": "2024-09-03", "total_gene_count": "2151", "protein_coding_gene_count": "2005", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-01-27", "dateModified": "2018-01-27", "datePublished": "2018-01-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Staphylococcus auricularis" ], "sample_taxid": [ "29379" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: London" ], "sample_host_location_id": [], "data_size": "0.628 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)": "2201622", "Number of Sequences": "103", "Longest Sequences (bp)": "164189", "N50 (bp)": "43625", "Gap Ratio (%)": "0.016079", "GCcontent (%)": "37.2", "Number of CDSs": "2101", "Average Protein Length": "295.0", "Coding Ratio (%)": "84.5", "Number of rRNAs": "1", "Number of tRNAs": "60", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Staphylococcus auricularis", "strain": "strain=NCTC 12101", "accession": "GCA_002902455.1", "taxid": 29379, "species_taxid": 29379, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 687, "total_fragments": 688, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus auricularis", "strain": "strain=FDAARGOS_882", "accession": "GCA_016028295.1", "taxid": 29379, "species_taxid": 29379, "relation_to_type": "type", "validated": true, "ani": 99.9976, "matched_fragments": 688, "total_fragments": 688, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus auricularis", "strain": "strain=NCTC12101", "accession": "GCA_900478415.1", "taxid": 29379, "species_taxid": 29379, "relation_to_type": "type", "validated": true, "ani": 99.9958, "matched_fragments": 687, "total_fragments": 688, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus auricularis", "strain": "strain=DSM 20609", "accession": "GCA_001500315.1", "taxid": 29379, "species_taxid": 29379, "relation_to_type": "type", "validated": true, "ani": 99.9815, "matched_fragments": 680, "total_fragments": 688, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus saprophyticus", "strain": "strain=NCTC7292", "accession": "GCA_900458885.1", "taxid": 29385, "species_taxid": 29385, "relation_to_type": "type", "validated": true, "ani": 78.4159, "matched_fragments": 208, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus croceilyticus", "strain": "strain=CCUG 62728", "accession": "GCA_002902575.1", "taxid": 319942, "species_taxid": 319942, "relation_to_type": "type", "validated": true, "ani": 78.385, "matched_fragments": 207, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus pasteuri", "strain": "strain=DSM 10656", "accession": "GCA_003970495.1", "taxid": 45972, "species_taxid": 45972, "relation_to_type": "type", "validated": true, "ani": 78.3617, "matched_fragments": 187, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus taiwanensis", "strain": "strain=NTUH-S172", "accession": "GCA_020544305.1", "taxid": 2750012, "species_taxid": 2750012, "relation_to_type": "type", "validated": true, "ani": 78.3393, "matched_fragments": 174, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus haemolyticus", "strain": "strain=NCTC 11042", "accession": "GCA_002901805.1", "taxid": 1283, "species_taxid": 1283, "relation_to_type": "type", "validated": true, "ani": 78.313, "matched_fragments": 179, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus warneri", "strain": "strain=NCTC 11044", "accession": "GCA_002901765.1", "taxid": 1292, "species_taxid": 1292, "relation_to_type": "type", "validated": true, "ani": 78.2965, "matched_fragments": 194, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus pettenkoferi", "strain": "strain=FDAARGOS_1071", "accession": "GCA_016127935.1", "taxid": 170573, "species_taxid": 170573, "relation_to_type": "type", "validated": true, "ani": 78.274, "matched_fragments": 198, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus capitis subsp. capitis", "strain": "strain=DSM 20326", "accession": "GCA_025272975.1", "taxid": 72758, "species_taxid": 29388, "relation_to_type": "type", "validated": true, "ani": 78.2134, "matched_fragments": 183, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus pettenkoferi", "strain": "strain=CCUG 51270", "accession": "GCA_002902685.1", "taxid": 170573, "species_taxid": 170573, "relation_to_type": "type", "validated": true, "ani": 78.1924, "matched_fragments": 198, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus aureus", "strain": "strain=NCTC 08532", "accession": "GCA_002902205.1", "taxid": 1280, "species_taxid": 1280, "relation_to_type": "type", "validated": true, "ani": 78.1001, "matched_fragments": 177, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus aureus", "strain": "strain=PartF-Saureus-RM8376", "accession": "GCA_022869625.1", "taxid": 1280, "species_taxid": 1280, "relation_to_type": "type", "validated": true, "ani": 78.095, "matched_fragments": 179, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus schleiferi", "strain": "strain=NCTC12218", "accession": "GCA_900458895.2", "taxid": 1295, "species_taxid": 1295, "relation_to_type": "type", "validated": true, "ani": 77.7559, "matched_fragments": 123, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001500315.1", "gtdb_species": "s__Staphylococcus auricularis", "ani": 99.9815, "matched_fragments": 680, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.97", "min_intra_species_ani": "95.76", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.93", "num_clustered_genomes": 10, "status": "conclusive" }, { "accession": "GCF_900097965.1", "gtdb_species": "s__Staphylococcus caeli", "ani": 78.5259, "matched_fragments": 195, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "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_001224225.1", "gtdb_species": "s__Staphylococcus borealis", "ani": 78.5102, "matched_fragments": 183, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "97.44", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_002902235.1", "gtdb_species": "s__Staphylococcus ureilyticus", "ani": 78.4823, "matched_fragments": 186, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.76", "min_intra_species_ani": "98.26", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 107, "status": "-" }, { "accession": "GCF_002902725.1", "gtdb_species": "s__Staphylococcus caprae", "ani": 78.4138, "matched_fragments": 178, 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"gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.41", "min_intra_species_ani": "98.75", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 167, "status": "-" }, { "accession": "GCF_006094395.1", "gtdb_species": "s__Staphylococcus haemolyticus", "ani": 78.3694, "matched_fragments": 181, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.59", "min_intra_species_ani": "96.62", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 385, "status": "-" }, { "accession": "GCF_003970495.1", "gtdb_species": "s__Staphylococcus pasteuri", "ani": 78.3588, "matched_fragments": 187, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.98", "min_intra_species_ani": "98.67", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.89", "num_clustered_genomes": 34, "status": "-" }, { "accession": "GCF_900636385.1", "gtdb_species": "s__Staphylococcus warneri", "ani": 78.3145, "matched_fragments": 196, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.98", "min_intra_species_ani": "95.90", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 73, "status": "-" }, { "accession": "GCF_003035445.1", "gtdb_species": "s__Staphylococcus devriesei_A", "ani": 78.3036, "matched_fragments": 200, "total_fragments": 688, "gtdb_taxonomy": 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