{ "type": "genome", "identifier": "GCF_024814375.1", "organism": "Streptococcus sciuri", "title": "Streptococcus sciuri", "description": "na", "data type": "Genome sequencing and assembly", "organization": "US FDA", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024814375.1", "bioproject": "PRJNA224116", "biosample": "SAMN30428200", "wgs_master": "JANUXX000000000.1", "refseq_category": "reference genome", "taxid": "2973939", "species_taxid": "2973939", "organism_name": "Streptococcus sciuri", "infraspecific_name": "strain=SQ9-PEA", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/31", "asm_name": "ASM2481437v1", "asm_submitter": "US FDA", "gbrs_paired_asm": "GCA_024814375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/814/375/GCF_024814375.1_ASM2481437v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1692266", "genome_size_ungapped": "1692266", "gc_percent": "38.500000", "replicon_count": "0", "scaffold_count": "21", "contig_count": "21", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024814375.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "1711", "protein_coding_gene_count": "1598", "non_coding_gene_count": "51", "pubmed_id": "37578899" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-08-31", "dateModified": "2022-08-31", "datePublished": "2022-08-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus sciuri" ], "sample_taxid": [ "2973939" ], "sample_host_organism": [ "Sciurus carolinensis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Maryland" ], "sample_host_location_id": [], "data_size": "0.480 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)": "1692266", "Number of Sequences": "21", "Longest Sequences (bp)": "521110", "N50 (bp)": "144519", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "38.3", "Number of CDSs": "1640", "Average Protein Length": "299.8", "Coding Ratio (%)": "87.1", "Number of rRNAs": "4", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus hyointestinalis", "strain": "strain=NCTC12224", "accession": "GCA_900459405.1", "taxid": 1337, "species_taxid": 1337, "relation_to_type": "type", "validated": true, "ani": 81.4512, "matched_fragments": 355, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gallolyticus", "strain": "strain=NCTC13773", "accession": "GCA_900475715.1", "taxid": 315405, "species_taxid": 315405, "relation_to_type": "suspected-type", "validated": true, "ani": 81.0783, "matched_fragments": 139, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gallolyticus subsp. gallolyticus", "strain": "strain=DSM 16831", "accession": "GCA_002000985.1", "taxid": 53354, "species_taxid": 315405, "relation_to_type": "type", "validated": true, "ani": 80.9893, "matched_fragments": 140, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus infantarius", "strain": "strain=NCTC13760", "accession": "GCA_900459445.1", "taxid": 102684, "species_taxid": 102684, "relation_to_type": "type", "validated": true, "ani": 79.7719, "matched_fragments": 118, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus infantarius", "strain": "strain=FDAARGOS_1019", "accession": "GCA_016127275.1", "taxid": 102684, "species_taxid": 102684, "relation_to_type": "type", "validated": true, "ani": 79.7312, "matched_fragments": 126, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus infantarius subsp. infantarius", "strain": "strain=ATCC BAA-102", "accession": "GCA_000154985.1", "taxid": 150054, "species_taxid": 102684, "relation_to_type": "type", "validated": true, "ani": 79.7017, "matched_fragments": 120, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=FDAARGOS_1018", "accession": "GCA_016403165.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 79.4815, "matched_fragments": 116, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=FDAARGOS_1158", "accession": "GCA_016725165.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 79.4568, "matched_fragments": 119, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=NCTC13774", "accession": "GCA_900475675.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 79.4476, "matched_fragments": 118, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus caballi", "strain": "strain=DSM 19004", "accession": "GCA_000379985.1", "taxid": 439220, "species_taxid": 439220, "relation_to_type": "type", "validated": true, "ani": 79.027, "matched_fragments": 123, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus equinus", "strain": "strain=ATCC 9812", "accession": "GCA_000187265.1", "taxid": 1335, "species_taxid": 1335, "relation_to_type": "type", "validated": true, "ani": 78.9799, "matched_fragments": 116, "total_fragments": 554, "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": 78.8825, "matched_fragments": 52, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus pyogenes", "strain": "strain=CCUG 4207", "accession": "GCA_004028355.1", "taxid": 1314, "species_taxid": 1314, "relation_to_type": "type", "validated": true, "ani": 78.8199, "matched_fragments": 78, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus orisratti", "strain": "strain=DSM 15617", "accession": "GCA_000380105.1", "taxid": 114652, "species_taxid": 114652, "relation_to_type": "type", "validated": true, "ani": 78.7475, "matched_fragments": 111, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus loxodontisalivarius", "strain": "strain=DSM 27382", "accession": "GCA_016908645.1", "taxid": 1349415, "species_taxid": 1349415, "relation_to_type": "type", "validated": true, "ani": 78.626, "matched_fragments": 84, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus halotolerans", "strain": "strain=HTS9", "accession": "GCA_001598035.1", "taxid": 1814128, "species_taxid": 1814128, "relation_to_type": "type", "validated": true, "ani": 78.6174, "matched_fragments": 78, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus pyogenes", "strain": "strain=DSM 20565", "accession": "GCA_000421785.1", "taxid": 1314, "species_taxid": 1314, "relation_to_type": "type", "validated": true, "ani": 78.5948, "matched_fragments": 75, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus agalactiae", "strain": "strain=ATCC 13813", "accession": "GCA_000186445.1", "taxid": 1311, "species_taxid": 1311, "relation_to_type": "type", "validated": true, "ani": 78.4026, "matched_fragments": 94, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus agalactiae", "strain": "strain=NCTC8181", "accession": "GCA_900458965.1", "taxid": 1311, "species_taxid": 1311, "relation_to_type": "suspected-type", "validated": true, "ani": 78.3866, "matched_fragments": 98, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus equi subsp. ruminatorum", "strain": "strain=CECT 5772", "accession": "GCA_000706805.1", "taxid": 254358, "species_taxid": 1336, "relation_to_type": "type", "validated": true, "ani": 78.2719, "matched_fragments": 69, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus henryi", "strain": "strain=DSM 19005", "accession": "GCA_000376985.1", "taxid": 439219, "species_taxid": 439219, "relation_to_type": "type", "validated": true, "ani": 78.2543, "matched_fragments": 97, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus urinalis", "strain": "strain=NCTC13766", "accession": "GCA_900636885.1", "taxid": 149016, "species_taxid": 149016, "relation_to_type": "type", "validated": true, "ani": 78.2267, "matched_fragments": 87, "total_fragments": 554, "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": 77.999, "matched_fragments": 79, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus urinalis", "strain": "strain=2285-97", "accession": "GCA_000188055.3", "taxid": 149016, "species_taxid": 149016, "relation_to_type": "type", "validated": true, "ani": 77.9654, "matched_fragments": 91, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus ovis", "strain": "strain=DSM 16829", "accession": "GCA_000380125.1", "taxid": 82806, "species_taxid": 82806, "relation_to_type": "type", "validated": true, "ani": 77.9406, "matched_fragments": 70, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus marimammalium", "strain": "strain=DSM 18627", "accession": "GCA_000380045.1", "taxid": 269666, "species_taxid": 269666, "relation_to_type": "type", "validated": true, "ani": 77.69, "matched_fragments": 58, "total_fragments": 554, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900459405.1", "gtdb_species": "s__Streptococcus hyointestinalis", "ani": 81.4617, "matched_fragments": 356, "total_fragments": 554, "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_011039275.1", "gtdb_species": "s__Streptococcus hyointestinalis_A", "ani": 81.3614, "matched_fragments": 342, "total_fragments": 554, "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": "GCA_900478025.1", "gtdb_species": "s__Streptococcus pasteurianus", "ani": 81.2899, "matched_fragments": 129, "total_fragments": 554, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 96.1304, "mean_intra_species_ani": "99.06", "min_intra_species_ani": "98.58", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_003337175.1", "gtdb_species": "s__Streptococcus gallolyticus_B", "ani": 81.007, "matched_fragments": 140, "total_fragments": 554, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.6693, "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_002000985.1", "gtdb_species": "s__Streptococcus gallolyticus", "ani": 80.9893, "matched_fragments": 140, "total_fragments": 554, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 96.3165, "mean_intra_species_ani": "98.04", "min_intra_species_ani": "96.86", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.79", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCA_000283635.1", "gtdb_species": "s__Streptococcus macedonicus", "ani": 80.989, "matched_fragments": 133, "total_fragments": 554, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 96.3165, "mean_intra_species_ani": "99.04", "min_intra_species_ani": "98.50", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_000154985.1", "gtdb_species": "s__Streptococcus infantarius", "ani": 79.7017, "matched_fragments": 120, "total_fragments": 554, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.67", "min_intra_species_ani": "95.30", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.82", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCF_001708305.1", "gtdb_species": "s__Streptococcus himalayensis", "ani": 79.397, "matched_fragments": 63, "total_fragments": 554, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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_004570575.1", "gtdb_species": "s__Streptococcus cuniculi_A", "ani": 79.1337, "matched_fragments": 79, "total_fragments": 554, "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": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000379985.1", "gtdb_species": "s__Streptococcus caballi", "ani": 79.027, "matched_fragments": 123, "total_fragments": 554, "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_002055535.1", "gtdb_species": 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"matched_fragments": 62, "total_fragments": 554, "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_001598035.1", "gtdb_species": "s__Streptococcus halotolerans", "ani": 78.6479, "matched_fragments": 79, "total_fragments": 554, "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_016908645.1", "gtdb_species": "s__Streptococcus loxodontisalivarius", "ani": 78.626, "matched_fragments": 84, "total_fragments": 554, "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_010120595.1", "gtdb_species": "s__Streptococcus thermophilus", "ani": 78.4806, "matched_fragments": 90, "total_fragments": 554, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.46", "min_intra_species_ani": "97.47", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.81", "num_clustered_genomes": 130, "status": "-" }, { "accession": "GCF_000186445.1", "gtdb_species": "s__Streptococcus agalactiae", "ani": 78.4026, "matched_fragments": 94, "total_fragments": 554, "gtdb_taxonomy": 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