{ "type": "genome", "identifier": "GCA_018371015.1", "organism": "Streptococcus parasanguinis", "title": "Streptococcus parasanguinis", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of California, Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018371015.1", "bioproject": "PRJNA698986", "biosample": "SAMN17800628", "wgs_master": "JAGYZH000000000.1", "refseq_category": "na", "taxid": "1318", "species_taxid": "1318", "organism_name": "Streptococcus parasanguinis", "infraspecific_name": "", "isolate": "L3_102_091G1_dasL3_102_091G1_concoct_1", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/16", "asm_name": "ASM1837101v1", "submitter": "University of California, Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/371/015/GCA_018371015.1_ASM1837101v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-16", "dateModified": "2021-05-16", "datePublished": "2021-05-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus parasanguinis" ], "sample_taxid": [ "1318" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Pittsburgh, Magee-Womens Hospital of UPMC" ], "sample_host_location_id": [], "data_size": "0.589 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": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2057466", "Number of Sequences": "131", "Longest Sequences (bp)": "89781", "N50 (bp)": "27225", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "41.5", "Number of CDSs": "1913", "Average Protein Length": "299.9", "Coding Ratio (%)": "83.7", "Number of rRNAs": "1", "Number of tRNAs": "25", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus parasanguinis", "strain": "strain=ATCC 15912", "accession": "GCA_000164675.2", "taxid": 1318, "species_taxid": 1318, "relation_to_type": "suspected-type", "validated": true, "ani": 88.5734, "matched_fragments": 494, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus parasanguinis", "strain": "strain=NCTC12854", "accession": "GCA_900459355.1", "taxid": 1318, "species_taxid": 1318, "relation_to_type": "suspected-type", "validated": true, "ani": 88.5723, "matched_fragments": 491, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus australis", "strain": "strain=NCTC13166", "accession": "GCA_900476055.1", "taxid": 113107, "species_taxid": 113107, "relation_to_type": "type", "validated": true, "ani": 84.5796, "matched_fragments": 367, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus rubneri", "strain": "strain=DSM 26920", "accession": "GCA_004785935.1", "taxid": 1234680, "species_taxid": 1234680, "relation_to_type": "type", "validated": true, "ani": 84.3785, "matched_fragments": 359, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus koreensis", "strain": "strain=JS71", "accession": "GCA_003627135.1", "taxid": 2382163, "species_taxid": 2382163, "relation_to_type": "type", "validated": true, "ani": 84.3514, "matched_fragments": 356, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus xiaochunlingii", "strain": "strain=E24", "accession": "GCA_006385805.1", "taxid": 2589788, "species_taxid": 2589788, "relation_to_type": "type", "validated": true, "ani": 84.1914, "matched_fragments": 338, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus ilei", "strain": "strain=I-G2", "accession": "GCA_000479335.1", "taxid": 1156431, "species_taxid": 1156431, "relation_to_type": "type", "validated": true, "ani": 84.089, "matched_fragments": 351, "total_fragments": 622, "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": 80.4968, "matched_fragments": 178, "total_fragments": 622, "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": 80.3647, "matched_fragments": 180, "total_fragments": 622, "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": 80.0807, "matched_fragments": 186, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus symci", "strain": "strain=C17", "accession": "GCA_006385165.1", "taxid": 2588991, "species_taxid": 2588991, "relation_to_type": "type", "validated": true, "ani": 80.0107, "matched_fragments": 206, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus pneumoniae", "strain": "strain=CCUG 28588", "accession": "GCA_001679535.1", "taxid": 1313, "species_taxid": 1313, "relation_to_type": "type", "validated": true, "ani": 79.9364, "matched_fragments": 178, "total_fragments": 622, "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": 77.8733, "matched_fragments": 104, "total_fragments": 622, "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": 77.6836, "matched_fragments": 78, "total_fragments": 622, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016642265.1", "gtdb_species": "s__Streptococcus lactarius", "ani": 95.7539, "matched_fragments": 546, "total_fragments": 622, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.47", "min_intra_species_ani": "95.23", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 8, "status": "conclusive" }, { "accession": "GCF_901875555.1", "gtdb_species": "s__Streptococcus parasanguinis_H", "ani": 92.5555, "matched_fragments": 520, "total_fragments": 622, "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_900755085.1", "gtdb_species": "s__Streptococcus sp900755085", "ani": 92.3829, "matched_fragments": 396, "total_fragments": 622, "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_902373455.1", "gtdb_species": "s__Streptococcus sp902373455", "ani": 89.444, "matched_fragments": 281, "total_fragments": 622, "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_018365265.1", "gtdb_species": "s__Streptococcus parasanguinis_G", "ani": 89.409, "matched_fragments": 490, "total_fragments": 622, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0331, "mean_intra_species_ani": "95.56", "min_intra_species_ani": "95.56", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000963275.1", "gtdb_species": "s__Streptococcus parasanguinis_B", "ani": 89.2626, "matched_fragments": 505, "total_fragments": 622, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.2991, "mean_intra_species_ani": "95.64", "min_intra_species_ani": "95.37", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_016648925.1", "gtdb_species": "s__Streptococcus sp900766505", "ani": 89.2184, "matched_fragments": 499, "total_fragments": 622, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.2991, "mean_intra_species_ani": "95.66", "min_intra_species_ani": "95.35", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 30, "status": "-" }, { "accession": "GCA_000180035.1", "gtdb_species": "s__Streptococcus parasanguinis_C", "ani": 88.9907, "matched_fragments": 491, "total_fragments": 622, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.27", "min_intra_species_ani": "96.01", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_009717815.1", "gtdb_species": "s__Streptococcus parasanguinis_F", "ani": 88.899, "matched_fragments": 504, 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