{ "type": "genome", "identifier": "GCF_024346585.1", "organism": "Streptococcus toyakuensis", "title": "Streptococcus toyakuensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Tokyo University of Pharmacy and Life Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024346585.1", "bioproject": "PRJNA224116", "biosample": "SAMD00286438", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2819619", "species_taxid": "2819619", "organism_name": "Streptococcus toyakuensis", "infraspecific_name": "strain=TP1632", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/27", "asm_name": "ASM2434658v1", "asm_submitter": "Tokyo University of Pharmacy and Life Sciences", "gbrs_paired_asm": "GCA_024346585.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/346/585/GCF_024346585.1_ASM2434658v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2055023", "genome_size_ungapped": "2055023", "gc_percent": "40.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024346585.1-RS_2024_11_20", "annotation_date": "2024-11-20", "total_gene_count": "2046", "protein_coding_gene_count": "1911", "non_coding_gene_count": "76", "pubmed_id": "35500839" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-27", "dateModified": "2022-04-27", "datePublished": "2022-04-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus toyakuensis" ], "sample_taxid": [ "2819619" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "0.579 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)": "2055023", "Number of Sequences": "1", "Longest Sequences (bp)": "2055023", "N50 (bp)": "2055023", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.1", "Number of CDSs": "1964", "Average Protein Length": "308.6", "Coding Ratio (%)": "88.5", "Number of rRNAs": "12", "Number of tRNAs": "60", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus toyakuensis", "strain": "strain=TP1632", "accession": "GCA_024346585.1", "taxid": 2819619, 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93.2097, "matched_fragments": 521, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus symci", "strain": "strain=C17", "accession": "GCA_006385165.1", "taxid": 2588991, "species_taxid": 2588991, "relation_to_type": "type", "validated": true, "ani": 93.0016, "matched_fragments": 508, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus chosunense", "strain": "strain=ChDC B353", "accession": "GCA_003626515.1", "taxid": 2707003, "species_taxid": 2707003, "relation_to_type": "type", "validated": true, "ani": 92.9853, "matched_fragments": 505, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus shenyangsis", "strain": "strain=D19", "accession": "GCA_006385785.1", "taxid": 2589786, "species_taxid": 2589786, "relation_to_type": "type", "validated": true, "ani": 92.6515, "matched_fragments": 529, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus pseudopneumoniae", "strain": "strain=ATCC BAA-960", "accession": "GCA_000257825.1", "taxid": 257758, "species_taxid": 257758, "relation_to_type": "type", "validated": true, "ani": 92.582, "matched_fragments": 455, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus pseudopneumoniae", "strain": "strain=CCUG 49455", "accession": "GCA_002087075.1", "taxid": 257758, "species_taxid": 257758, "relation_to_type": "type", "validated": true, "ani": 92.4976, "matched_fragments": 529, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus pneumoniae", "strain": "strain=NCTC7465", "accession": "GCA_001457635.1", "taxid": 1313, "species_taxid": 1313, "relation_to_type": "type", "validated": true, "ani": 92.0957, "matched_fragments": 520, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus pneumoniae", "strain": "strain=CCUG 28588", "accession": "GCA_001679535.1", "taxid": 1313, "species_taxid": 1313, "relation_to_type": "type", "validated": true, "ani": 92.0435, "matched_fragments": 495, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus downii", "strain": "strain=CECT 9732", "accession": "GCA_004353325.1", "taxid": 1968889, "species_taxid": 1968889, "relation_to_type": "type", "validated": true, "ani": 87.2924, "matched_fragments": 467, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus constellatus subsp. constellatus", "strain": "strain=CCUG 24889", "accession": "GCA_023167545.1", "taxid": 184246, "species_taxid": 76860, "relation_to_type": "type", "validated": true, "ani": 80.7006, "matched_fragments": 137, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus parasuis", "strain": "strain=SUT-286", "accession": "GCA_021654455.1", "taxid": 1501662, "species_taxid": 1501662, "relation_to_type": "suspected-type", "validated": true, "ani": 79.8669, "matched_fragments": 131, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001281025.1", "gtdb_species": "s__Streptococcus mitis_AK", "ani": 94.4028, "matched_fragments": 554, "total_fragments": 685, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.14", "min_intra_species_ani": "95.01", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000148585.2", "gtdb_species": "s__Streptococcus mitis", "ani": 94.2526, 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