{ "type": "genome", "identifier": "GCF_001375655.1", "organism": "Streptococcus varani", "title": "Streptococcus varani", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001375655.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3312815", "wgs_master": "CTEN00000000.1", "refseq_category": "reference genome", "taxid": "1608583", "species_taxid": "1608583", "organism_name": "Streptococcus varani", "infraspecific_name": "strain=FF10", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/04/22", "asm_name": "PRJEB8936_assembly_1", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_001375655.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/375/655/GCF_001375655.1_PRJEB8936_assembly_1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2460376", "genome_size_ungapped": "2460376", "gc_percent": "40.500000", "replicon_count": "0", "scaffold_count": "16", "contig_count": "16", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001375655.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "2483", "protein_coding_gene_count": "2318", "non_coding_gene_count": "48", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-04-22", "dateModified": "2015-04-22", "datePublished": "2015-04-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus varani" ], "sample_taxid": [ "1608583" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.694 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)": "2460376", "Number of Sequences": "16", "Longest Sequences (bp)": "690419", "N50 (bp)": "512440", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.4", "Number of CDSs": "2465", "Average Protein Length": "292.3", "Coding Ratio (%)": "87.9", "Number of rRNAs": "3", "Number of tRNAs": "42", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus varani", "strain": "strain=FF10", "accession": "GCA_001375655.1", "taxid": 1608583, "species_taxid": 1608583, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 812, "total_fragments": 813, "ani_threshold": 95, "status": "conclusive" }, { "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": 79.1017, "matched_fragments": 144, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus suis", "strain": "strain=S735", "accession": "GCA_000294495.1", "taxid": 1307, "species_taxid": 1307, "relation_to_type": "type", "validated": true, "ani": 79.0792, "matched_fragments": 149, "total_fragments": 813, "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": 79.0549, "matched_fragments": 218, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus suis", "strain": "strain=NCTC10234", "accession": "GCA_900475585.1", "taxid": 1307, "species_taxid": 1307, "relation_to_type": "type", "validated": true, "ani": 78.9726, "matched_fragments": 149, "total_fragments": 813, "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": 78.9618, "matched_fragments": 153, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus constellatus subsp. pharyngis", "strain": "strain=CCUG 46377", "accession": "GCA_000474135.1", "taxid": 184250, "species_taxid": 76860, "relation_to_type": "type", "validated": true, "ani": 78.9378, "matched_fragments": 76, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus salivarius", "strain": "strain=NCTC 8618", "accession": "GCA_000785515.1", "taxid": 1304, "species_taxid": 1304, "relation_to_type": "suspected-type", "validated": true, "ani": 78.9219, "matched_fragments": 86, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus respiraculi", "strain": "strain=HTS25", "accession": "GCA_003595525.1", "taxid": 2021971, "species_taxid": 2021971, "relation_to_type": "type", "validated": true, "ani": 78.7711, "matched_fragments": 136, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus minor", "strain": "strain=DSM 17118", "accession": "GCA_000377005.1", "taxid": 229549, "species_taxid": 229549, "relation_to_type": "type", "validated": true, "ani": 78.7658, "matched_fragments": 279, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus salivarius", "strain": "strain=JCM 5707", "accession": "GCA_019972895.1", "taxid": 1304, "species_taxid": 1304, "relation_to_type": "suspected-type", "validated": true, "ani": 78.6423, "matched_fragments": 85, "total_fragments": 813, "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": 78.586, "matched_fragments": 158, "total_fragments": 813, "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": 78.5025, "matched_fragments": 91, "total_fragments": 813, "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": 78.4751, "matched_fragments": 104, "total_fragments": 813, "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": 78.4671, "matched_fragments": 105, "total_fragments": 813, "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": 78.4075, "matched_fragments": 81, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus halitosis", "strain": "strain=VT-4", "accession": "GCA_003143695.2", "taxid": 2172545, "species_taxid": 2172545, "relation_to_type": "type", "validated": true, "ani": 78.4011, "matched_fragments": 100, "total_fragments": 813, "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": 78.3608, "matched_fragments": 92, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus ruminantium", "strain": "strain=GUT187T", "accession": "GCA_003609975.1", "taxid": 1917441, "species_taxid": 1917441, "relation_to_type": "type", "validated": true, "ani": 78.3233, "matched_fragments": 129, "total_fragments": 813, "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": 78.3007, "matched_fragments": 91, "total_fragments": 813, "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": 78.2986, "matched_fragments": 89, "total_fragments": 813, "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": 78.2734, "matched_fragments": 92, "total_fragments": 813, "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": 78.1736, "matched_fragments": 106, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus sobrinus", "strain": "strain=SL1", "accession": "GCA_003172995.1", "taxid": 1310, "species_taxid": 1310, "relation_to_type": "type", "validated": true, "ani": 77.7292, "matched_fragments": 70, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus sobrinus", "strain": "strain=DSM 20742", "accession": "GCA_000686605.1", "taxid": 1310, "species_taxid": 1310, "relation_to_type": "type", "validated": true, "ani": 77.161, "matched_fragments": 66, "total_fragments": 813, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001375655.1", "gtdb_species": "s__Streptococcus varani", "ani": 100.0, "matched_fragments": 812, "total_fragments": 813, "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": "conclusive" }, { "accession": "GCF_004283785.1", "gtdb_species": "s__Streptococcus parasuis", "ani": 79.1722, "matched_fragments": 116, "total_fragments": 813, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.19", "min_intra_species_ani": "96.80", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.77", "num_clustered_genomes": 20, "status": "-" }, { "accession": "GCF_000294495.1", "gtdb_species": "s__Streptococcus suis", "ani": 79.1095, "matched_fragments": 148, "total_fragments": 813, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.2533, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "95.80", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.80", "num_clustered_genomes": 1267, "status": "-" }, { "accession": "GCF_000380125.1", "gtdb_species": "s__Streptococcus ovis", "ani": 79.0443, "matched_fragments": 219, "total_fragments": 813, "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_003627135.1", "gtdb_species": "s__Streptococcus koreensis", "ani": 78.9973, "matched_fragments": 91, "total_fragments": 813, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.43", "min_intra_species_ani": "95.11", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_018137985.1", "gtdb_species": "s__Streptococcus sp018137985", "ani": 78.9618, "matched_fragments": 153, "total_fragments": 813, "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_000785515.1", "gtdb_species": "s__Streptococcus salivarius", "ani": 78.9219, "matched_fragments": 86, "total_fragments": 813, "gtdb_taxonomy": 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.13", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_017639855.1", "gtdb_species": "s__Streptococcus sp013623465", "ani": 78.6927, "matched_fragments": 116, "total_fragments": 813, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.93", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_001579525.1", "gtdb_species": "s__Streptococcus oralis_M", "ani": 78.6389, "matched_fragments": 86, "total_fragments": 813, "gtdb_taxonomy": 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