{ "type": "genome", "identifier": "GCF_900457375.1", "organism": "Staphylococcus arlettae", "title": "Staphylococcus arlettae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900457375.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3529262", "wgs_master": "UGZE00000000.1", "refseq_category": "na", "taxid": "29378", "species_taxid": "29378", "organism_name": "Staphylococcus arlettae", "infraspecific_name": "strain=NCTC12413", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/01", "asm_name": "41556_H01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900457375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/457/375/GCF_900457375.1_41556_H01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2722698", "genome_size_ungapped": "2722698", "gc_percent": "33.500000", "replicon_count": "0", "scaffold_count": "5", "contig_count": "5", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900457375.1-RS_2024_12_22", "annotation_date": "2024-12-22", "total_gene_count": "2688", "protein_coding_gene_count": "2572", "non_coding_gene_count": "86", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-01", "dateModified": "2018-08-01", "datePublished": "2018-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Staphylococcus arlettae" ], "sample_taxid": [ "29378" ], "sample_host_organism": [ "Poultry" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.756 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)": "2722698", "Number of Sequences": "5", "Longest Sequences (bp)": "2688014", "N50 (bp)": "2688014", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "33.7", "Number of CDSs": "2641", "Average Protein Length": "290.2", "Coding Ratio (%)": "84.4", "Number of rRNAs": "22", "Number of tRNAs": "60", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Staphylococcus arlettae", "strain": "strain=NCTC12413", "accession": "GCA_900457375.1", "taxid": 29378, "species_taxid": 29378, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 903, "total_fragments": 905, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus arlettae", "strain": "strain=NCTC 12413", "accession": "GCA_002902345.1", "taxid": 29378, "species_taxid": 29378, "relation_to_type": "type", "validated": true, "ani": 99.9582, "matched_fragments": 874, "total_fragments": 905, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus lloydii", "strain": "strain=23_2_7_LY", "accession": "GCA_015775975.1", "taxid": 2781774, "species_taxid": 2781774, "relation_to_type": "type", "validated": true, "ani": 80.3172, "matched_fragments": 415, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus durrellii", "strain": "strain=27_4_6_LY", "accession": "GCA_015594545.1", "taxid": 2781773, "species_taxid": 2781773, "relation_to_type": "type", "validated": true, "ani": 80.08, "matched_fragments": 399, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus kloosii", "strain": "strain=ATCC 43959", "accession": "GCA_003019255.1", "taxid": 29384, "species_taxid": 29384, "relation_to_type": "type", "validated": true, "ani": 80.0032, "matched_fragments": 434, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus xylosus", "strain": "strain=NCTC11043", "accession": "GCA_900458755.1", "taxid": 1288, "species_taxid": 1288, "relation_to_type": "type", "validated": true, "ani": 79.5101, "matched_fragments": 401, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus kloosii", "strain": "strain=NCTC 12415", "accession": "GCA_002902055.1", "taxid": 29384, "species_taxid": 29384, "relation_to_type": "type", "validated": true, "ani": 79.5027, "matched_fragments": 395, "total_fragments": 905, "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": 79.4848, "matched_fragments": 248, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus caprae", "strain": "strain=NCTC12196", "accession": "GCA_900458385.1", "taxid": 29380, "species_taxid": 29380, "relation_to_type": "type", "validated": true, "ani": 79.43, "matched_fragments": 253, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus xylosus", "strain": "strain=NCTC 11043", "accession": "GCA_002901985.1", "taxid": 1288, "species_taxid": 1288, "relation_to_type": "type", "validated": true, "ani": 79.1593, "matched_fragments": 353, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus xylosus", "strain": "strain=CCM 2738", "accession": "GCA_002732165.1", "taxid": 1288, "species_taxid": 1288, "relation_to_type": "type", "validated": true, "ani": 79.1001, "matched_fragments": 387, "total_fragments": 905, "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": 78.9892, "matched_fragments": 251, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus caprae", "strain": "strain=NCTC 12196", "accession": "GCA_002902725.1", "taxid": 29380, "species_taxid": 29380, "relation_to_type": "type", "validated": true, "ani": 78.9011, "matched_fragments": 239, "total_fragments": 905, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002902345.1", "gtdb_species": "s__Staphylococcus arlettae", "ani": 99.9582, "matched_fragments": 874, "total_fragments": 905, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.12", "min_intra_species_ani": "98.73", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 41, "status": "conclusive" }, { "accession": "GCF_015775975.1", "gtdb_species": "s__Staphylococcus lloydii", "ani": 80.2629, "matched_fragments": 416, "total_fragments": 905, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.39", "min_intra_species_ani": "98.19", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.95", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_015594545.1", "gtdb_species": "s__Staphylococcus durrellii", "ani": 80.08, "matched_fragments": 399, "total_fragments": 905, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "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_003019255.1", "gtdb_species": "s__Staphylococcus kloosii", "ani": 79.9757, "matched_fragments": 435, "total_fragments": 905, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.99", "min_intra_species_ani": "96.08", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.89", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_000010125.1", "gtdb_species": "s__Staphylococcus saprophyticus", "ani": 79.8908, "matched_fragments": 394, "total_fragments": 905, "gtdb_taxonomy": 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