{ "type": "genome", "identifier": "GCF_900459295.1", "organism": "Streptococcus equinus", "title": "Streptococcus equinus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900459295.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3614278", "wgs_master": "UHFK00000000.1", "refseq_category": "na", "taxid": "1335", "species_taxid": "1335", "organism_name": "Streptococcus equinus", "infraspecific_name": "strain=NCTC12969", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/07/31", "asm_name": "42197_F02", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900459295.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/459/295/GCF_900459295.1_42197_F02", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1806069", "genome_size_ungapped": "1806069", "gc_percent": "37.500000", "replicon_count": "0", "scaffold_count": "5", "contig_count": "5", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900459295.1-RS_2024_07_31", "annotation_date": "2024-07-31", "total_gene_count": "1829", "protein_coding_gene_count": "1629", "non_coding_gene_count": "101", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-07-31", "dateModified": "2018-07-31", "datePublished": "2018-07-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus equinus" ], "sample_taxid": [ "1335" ], "sample_host_organism": [ "not available" ], "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": "0.503 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)": "1806069", "Number of Sequences": "5", "Longest Sequences (bp)": "1403687", "N50 (bp)": "1403687", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.5", "Number of CDSs": "1779", "Average Protein Length": "290.3", "Coding Ratio (%)": "85.8", "Number of rRNAs": "20", "Number of tRNAs": "75", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus equinus", "strain": "strain=NCTC12969", "accession": "GCA_900459295.1", "taxid": 1335, "species_taxid": 1335, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 597, "total_fragments": 600, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptococcus equinus", "strain": "strain=ATCC 9812", "accession": "GCA_000187265.1", "taxid": 1335, "species_taxid": 1335, "relation_to_type": "type", "validated": true, "ani": 99.8861, "matched_fragments": 574, "total_fragments": 600, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=NCTC13774", "accession": "GCA_900475675.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 88.5547, "matched_fragments": 462, "total_fragments": 600, "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": 88.4914, "matched_fragments": 467, "total_fragments": 600, "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": 88.4854, "matched_fragments": 472, "total_fragments": 600, "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": 87.4981, "matched_fragments": 466, "total_fragments": 600, "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": 87.4248, "matched_fragments": 469, "total_fragments": 600, "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": 87.3226, "matched_fragments": 456, "total_fragments": 600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus vicugnae", "strain": "strain=SL1232", "accession": "GCA_016461705.1", "taxid": 2740579, "species_taxid": 2740579, "relation_to_type": "type", "validated": true, "ani": 86.7838, "matched_fragments": 485, "total_fragments": 600, "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": 79.8347, "matched_fragments": 93, "total_fragments": 600, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000187265.1", "gtdb_species": "s__Streptococcus equinus", "ani": 99.8861, "matched_fragments": 574, "total_fragments": 600, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.03", "min_intra_species_ani": "95.86", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 42, "status": "conclusive" }, { "accession": "GCF_900475675.1", "gtdb_species": "s__Streptococcus lutetiensis", "ani": 88.5422, "matched_fragments": 462, "total_fragments": 600, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.21", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 50, "status": "-" }, { "accession": "GCF_000154985.1", "gtdb_species": "s__Streptococcus infantarius", "ani": 87.3234, "matched_fragments": 456, "total_fragments": 600, "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_900101445.1", "gtdb_species": "s__Streptococcus equinus_B", "ani": 86.8416, "matched_fragments": 478, "total_fragments": 600, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.02", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_016461705.1", "gtdb_species": "s__Streptococcus vicugnae", "ani": 86.7838, "matched_fragments": 485, "total_fragments": 600, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.43", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900104225.1", "gtdb_species": "s__Streptococcus equinus_D", "ani": 86.556, "matched_fragments": 484, "total_fragments": 600, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.157, "cell_length": -0.167, "doubling_h": -0.216, "growth_tmp": 37.0, "optimum_tmp": 37.667, "optimum_ph": 6.89, "genome_size": 1912219.861, "gc_content": 37.626, "coding_genes": 2059.0, "rRNA16S_genes": 4.791, "tRNA_genes": 68.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 0.337, "anaerobic_respiration": 0.146, "aerobic_respiration": 0.516, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Streptococcus", "equinus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }