{ "type": "genome", "identifier": "GCF_900095845.1", "organism": "Streptococcus timonensis", "title": "Streptococcus timonensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900095845.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4415361", "wgs_master": "FMIX00000000.1", "refseq_category": "reference genome", "taxid": "1852387", "species_taxid": "1852387", "organism_name": "Streptococcus timonensis", "infraspecific_name": "strain=Marseille-P2915", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/09/08", "asm_name": "PRJEB15309", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900095845.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/095/845/GCF_900095845.1_PRJEB15309", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1925331", "genome_size_ungapped": "1925331", "gc_percent": "38.500000", "replicon_count": "0", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900095845.1-RS_2024_04_24", "annotation_date": "2024-04-24", "total_gene_count": "2081", "protein_coding_gene_count": "1963", "non_coding_gene_count": "84", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-09-08", "dateModified": "2016-09-08", "datePublished": "2016-09-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus timonensis" ], "sample_taxid": [ "1852387" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.543 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)": "1925331", "Number of Sequences": "4", "Longest Sequences (bp)": "1305823", "N50 (bp)": "1305823", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "38.6", "Number of CDSs": "1990", "Average Protein Length": "284.1", "Coding Ratio (%)": "88.1", "Number of rRNAs": "14", "Number of tRNAs": "64", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus timonensis", "strain": "strain=Marseille-P2915", "accession": "GCA_900095845.1", "taxid": 1852387, "species_taxid": 1852387, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 633, "total_fragments": 640, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptococcus infantis", "strain": "strain=ATCC 700779", "accession": "GCA_000187465.1", "taxid": 68892, "species_taxid": 68892, "relation_to_type": "suspected-type", "validated": true, "ani": 91.0316, "matched_fragments": 492, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus infantis", "strain": "strain=ATCC 700779", "accession": "GCA_000260755.1", "taxid": 68892, "species_taxid": 68892, "relation_to_type": "suspected-type", "validated": true, "ani": 90.9752, "matched_fragments": 478, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus peroris", "strain": "strain=ATCC 700780", "accession": "GCA_000187585.1", "taxid": 68891, "species_taxid": 68891, "relation_to_type": "type", "validated": true, "ani": 85.932, "matched_fragments": 415, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus oralis", "strain": "strain=ATCC 35037", "accession": "GCA_000148565.2", "taxid": 1303, "species_taxid": 1303, "relation_to_type": "type", "validated": true, "ani": 83.2383, "matched_fragments": 342, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus oralis", "strain": "strain=CCUG 24891", "accession": "GCA_001639375.1", "taxid": 1303, "species_taxid": 1303, "relation_to_type": "type", "validated": true, "ani": 83.1752, "matched_fragments": 349, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus mitis", "strain": "strain=NCTC 12261", "accession": "GCA_000148585.3", "taxid": 28037, "species_taxid": 28037, "relation_to_type": "suspected-type", "validated": true, "ani": 83.0818, "matched_fragments": 355, "total_fragments": 640, "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": 82.89, "matched_fragments": 350, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus toyakuensis", "strain": "strain=TP1632", "accession": "GCA_024346585.1", "taxid": 2819619, "species_taxid": 2819619, "relation_to_type": "type", "validated": true, "ani": 82.835, "matched_fragments": 347, "total_fragments": 640, "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": 82.8202, "matched_fragments": 358, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gwangjuense", "strain": "strain=ChDC B345", "accession": "GCA_003627155.1", "taxid": 1433513, "species_taxid": 1433513, "relation_to_type": "type", "validated": true, "ani": 82.6876, "matched_fragments": 356, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus vulneris", "strain": "strain=DM3B3", "accession": "GCA_019218685.1", "taxid": 2853160, "species_taxid": 2853160, "relation_to_type": "type", "validated": true, "ani": 82.6618, "matched_fragments": 346, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus oriscaviae", "strain": "strain=HKU75", "accession": "GCA_018137985.1", "taxid": 2781599, "species_taxid": 2781599, "relation_to_type": "type", "validated": true, "ani": 79.4735, "matched_fragments": 93, "total_fragments": 640, "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": 79.0793, "matched_fragments": 111, "total_fragments": 640, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900095845.1", "gtdb_species": "s__Streptococcus timonensis", "ani": 100.0, "matched_fragments": 631, "total_fragments": 640, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_902159415.1", "gtdb_species": "s__Streptococcus mitis_BG", "ani": 94.9678, "matched_fragments": 506, "total_fragments": 640, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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_000187465.1", "gtdb_species": "s__Streptococcus infantis", "ani": 91.0316, "matched_fragments": 492, "total_fragments": 640, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000279535.1", "gtdb_species": "s__Streptococcus infantis_I", "ani": 90.5645, "matched_fragments": 463, "total_fragments": 640, "gtdb_taxonomy": 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