{ "type": "genome", "identifier": "GCA_934201655.1", "organism": "uncultured Streptococcus sp.", "title": "uncultured Streptococcus sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "stanford university school of medicine", "publication": [ {} ], "properties": { "assembly_accession": "GCA_934201655.1", "bioproject": "PRJEB49206", "biosample": "SAMEA13522926", "wgs_master": "CAKPXD000000000.1", "refseq_category": "na", "taxid": "83427", "species_taxid": "83427", "organism_name": "uncultured Streptococcus sp.", "infraspecific_name": "", "isolate": "REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_K_24_1920.467", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/15", "asm_name": "ERR7746688_bin.467", "submitter": "stanford university school of medicine", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/934/201/655/GCA_934201655.1_ERR7746688_bin.467", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-15", "dateModified": "2022-04-15", "datePublished": "2022-04-15", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Streptococcus sp." ], "sample_taxid": [ "83427" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Tanzania" ], "sample_host_location_id": [], "data_size": "0.477 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 47.11, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1645080", "Number of Sequences": "256", "Longest Sequences (bp)": "42159", "N50 (bp)": "9467", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "39.7", "Number of CDSs": "1402", "Average Protein Length": "287.3", "Coding Ratio (%)": "73.5", "Number of rRNAs": "0", "Number of tRNAs": "9", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 95.1742, "matched_fragments": 327, "total_fragments": 411, "ani_threshold": 95, "status": "conclusive" }, { "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": 95.1317, "matched_fragments": 319, "total_fragments": 411, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptococcus timonensis", "strain": "strain=Marseille-P2915", "accession": "GCA_900095845.1", "taxid": 1852387, "species_taxid": 1852387, "relation_to_type": "type", "validated": true, "ani": 89.7015, "matched_fragments": 296, "total_fragments": 411, "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": 88.0137, "matched_fragments": 297, "total_fragments": 411, "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": 81.843, "matched_fragments": 247, "total_fragments": 411, "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": 81.8202, "matched_fragments": 253, "total_fragments": 411, "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": 81.6548, "matched_fragments": 261, "total_fragments": 411, "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": 81.639, "matched_fragments": 244, "total_fragments": 411, "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": 81.5742, "matched_fragments": 254, "total_fragments": 411, "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": 81.3062, "matched_fragments": 260, "total_fragments": 411, "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": 76.9413, "matched_fragments": 59, "total_fragments": 411, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 47.11, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000187465.1", "gtdb_species": "s__Streptococcus infantis", "ani": 95.1742, "matched_fragments": 327, "total_fragments": 411, "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": "inconclusive" }, { "accession": "GCF_000223335.1", "gtdb_species": "s__Streptococcus infantis_H", "ani": 95.04, "matched_fragments": 341, "total_fragments": 411, "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": "inconclusive" }, { "accession": "GCF_015546995.1", "gtdb_species": "s__Streptococcus infantis_J", "ani": 94.267, "matched_fragments": 321, "total_fragments": 411, "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_001074155.1", "gtdb_species": "s__Streptococcus pseudopneumoniae_A", "ani": 94.2452, "matched_fragments": 329, "total_fragments": 411, "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_000279535.1", "gtdb_species": "s__Streptococcus infantis_I", "ani": 94.2077, "matched_fragments": 326, "total_fragments": 411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.10", "min_intra_species_ani": "95.79", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_905370255.1", "gtdb_species": "s__Streptococcus oralis_BL", "ani": 93.0446, "matched_fragments": 215, "total_fragments": 411, "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_000223255.2", "gtdb_species": "s__Streptococcus infantis_G", "ani": 92.2428, "matched_fragments": 324, "total_fragments": 411, "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_000411475.1", "gtdb_species": "s__Streptococcus sp000411475", "ani": 91.0361, "matched_fragments": 332, "total_fragments": 411, "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_900095845.1", "gtdb_species": "s__Streptococcus timonensis", "ani": 89.7015, "matched_fragments": 296, "total_fragments": 411, "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": "-" }, { "accession": "GCF_902159415.1", "gtdb_species": "s__Streptococcus mitis_BG", "ani": 89.5732, "matched_fragments": 306, "total_fragments": 411, "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_001579645.1", "gtdb_species": "s__Streptococcus infantis_E", "ani": 88.7372, "matched_fragments": 318, "total_fragments": 411, "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_001814775.1", "gtdb_species": "s__Streptococcus sp001814775", "ani": 88.4347, "matched_fragments": 323, "total_fragments": 411, "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_000187585.1", "gtdb_species": "s__Streptococcus peroris", "ani": 88.0137, "matched_fragments": 297, "total_fragments": 411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.68", "min_intra_species_ani": "96.68", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009496285.1", "gtdb_species": "s__Streptococcus mitis_BP", "ani": 87.8046, "matched_fragments": 315, "total_fragments": 411, "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": 36.667, "optimum_tmp": 36.284, "optimum_ph": 6.89, "genome_size": 2093253.959, "gc_content": 39.262, "coding_genes": 1944.968, "rRNA16S_genes": 4.791, "tRNA_genes": 62.087, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.285, "facultative_respiration": 0.337, "anaerobic_respiration": 0.146, "aerobic_respiration": 0.516, "mesophilic_range_tmp": 0.969, "thermophilic_range_tmp": 0.03, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.943, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.056, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Streptococcaceae", "g__Streptococcus", "s__Streptococcus sp934201655" ], "_genome_taxon": [ "uncultured", "Streptococcus", "sp.", "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Streptococcaceae", "g__Streptococcus", "s__Streptococcus sp934201655", "Bacteria", "Bacillota", "Bacilli", "Lactobacillales", "Streptococcaceae", "Streptococcus", "Streptococcus", "sp934201655" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }