{ "type": "genome", "identifier": "GCF_017874895.1", "organism": "Enterococcus rivorum", "title": "Enterococcus rivorum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_017874895.1", "bioproject": "PRJNA224116", "biosample": "SAMN18245307", "wgs_master": "JAGGMA000000000.1", "refseq_category": "na", "taxid": "762845", "species_taxid": "762845", "organism_name": "Enterococcus rivorum", "infraspecific_name": "strain=DSM 104544", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/04/08", "asm_name": "ASM1787489v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_017874895.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/874/895/GCF_017874895.1_ASM1787489v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3796672", "genome_size_ungapped": "3796672", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "75", "contig_count": "75", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_017874895.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "3587", "protein_coding_gene_count": "3478", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-04-08", "dateModified": "2021-04-08", "datePublished": "2021-04-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus rivorum" ], "sample_taxid": [ "762845" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.068 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)": "3796672", "Number of Sequences": "75", "Longest Sequences (bp)": "291781", "N50 (bp)": "80358", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.9", "Number of CDSs": "3564", "Average Protein Length": "299.2", "Coding Ratio (%)": "84.3", "Number of rRNAs": "1", "Number of tRNAs": "50", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus rivorum", "strain": "strain=LMG 25899", "accession": "GCA_001742285.1", "taxid": 762845, "species_taxid": 762845, "relation_to_type": "type", "validated": true, "ani": 99.9913, "matched_fragments": 1212, "total_fragments": 1223, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus quebecensis", "strain": "strain=LMG 26306", "accession": "GCA_001730365.1", "taxid": 903983, "species_taxid": 903983, "relation_to_type": "type", "validated": true, "ani": 78.7608, "matched_fragments": 301, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus quebecensis", "strain": "strain=DSM 23327", "accession": "GCA_001886145.1", "taxid": 903983, "species_taxid": 903983, "relation_to_type": "type", "validated": true, "ani": 78.6731, "matched_fragments": 301, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus haemoperoxidus", "strain": "strain=ATCC BAA-382", "accession": "GCA_000407165.1", "taxid": 155618, "species_taxid": 155618, "relation_to_type": "type", "validated": true, "ani": 78.5261, "matched_fragments": 313, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus haemoperoxidus", "strain": "strain=ATCC BAA-382", "accession": "GCA_000393995.1", "taxid": 155618, "species_taxid": 155618, "relation_to_type": "type", "validated": true, "ani": 78.5042, "matched_fragments": 303, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus haemoperoxidus", "strain": "strain=DSM 15920", "accession": "GCA_001885985.1", "taxid": 155618, "species_taxid": 155618, "relation_to_type": "type", "validated": true, "ani": 78.4816, "matched_fragments": 301, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus termitis", "strain": "strain=LMG 8895", "accession": "GCA_001730305.1", "taxid": 332950, "species_taxid": 332950, "relation_to_type": "type", "validated": true, "ani": 78.4449, "matched_fragments": 287, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus termitis", "strain": "strain=DSM 22803", "accession": "GCA_001886275.1", "taxid": 332950, "species_taxid": 332950, "relation_to_type": "type", "validated": true, "ani": 78.4363, "matched_fragments": 284, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus moraviensis", "strain": "strain=ATCC BAA-383", "accession": "GCA_000394015.1", "taxid": 155617, "species_taxid": 155617, "relation_to_type": "type", "validated": true, "ani": 78.4051, "matched_fragments": 307, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus moraviensis", "strain": "strain=ATCC BAA-383", "accession": "GCA_000407445.1", "taxid": 155617, "species_taxid": 155617, "relation_to_type": "type", "validated": true, "ani": 78.3839, "matched_fragments": 306, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus ureilyticus", "strain": "strain=CCUG 48799", "accession": "GCA_002806915.1", "taxid": 1131292, "species_taxid": 1131292, "relation_to_type": "type", "validated": true, "ani": 78.3647, "matched_fragments": 293, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus moraviensis", "strain": "strain=DSM 15919", "accession": "GCA_001886065.1", "taxid": 155617, "species_taxid": 155617, "relation_to_type": "type", "validated": true, "ani": 78.3646, "matched_fragments": 299, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus caccae", "strain": "strain=DSM 19114", "accession": "GCA_001885825.1", "taxid": 317735, "species_taxid": 317735, "relation_to_type": "type", "validated": true, "ani": 78.3594, "matched_fragments": 300, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus caccae", "strain": "strain=ATCC BAA-1240", "accession": "GCA_000407145.1", "taxid": 317735, "species_taxid": 317735, "relation_to_type": "type", "validated": true, "ani": 78.3418, "matched_fragments": 301, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus caccae", "strain": "strain=ATCC BAA-1240", "accession": "GCA_000394055.1", "taxid": 317735, "species_taxid": 317735, "relation_to_type": "type", "validated": true, "ani": 78.3189, "matched_fragments": 300, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus larvae", "strain": "strain=BWM-S5", "accession": "GCA_017830045.1", "taxid": 2794352, "species_taxid": 2794352, "relation_to_type": "type", "validated": true, "ani": 78.2783, "matched_fragments": 133, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus rotai", "strain": "strain=LMG 26678", "accession": "GCA_001465345.1", "taxid": 118060, "species_taxid": 118060, "relation_to_type": "type", "validated": true, "ani": 78.1689, "matched_fragments": 305, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=ATCC 19433", "accession": "GCA_000392875.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 78.1043, "matched_fragments": 192, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=PartL-Efaecalis-RM8376", "accession": "GCA_022869705.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 78.0603, "matched_fragments": 194, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=NBRC 100480", "accession": "GCA_001544235.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 78.012, "matched_fragments": 193, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=NCTC 775", "accession": "GCA_015311765.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 78.0041, "matched_fragments": 192, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hulanensis", "strain": "strain=190-7", "accession": "GCA_005405485.1", "taxid": 2559929, "species_taxid": 2559929, "relation_to_type": "type", "validated": true, "ani": 77.5626, "matched_fragments": 80, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001742285.1", "gtdb_species": "s__Enterococcus rivorum", "ani": 99.9913, "matched_fragments": 1212, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus", "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": "conclusive" }, { "accession": "GCF_001730365.1", "gtdb_species": "s__Enterococcus quebecensis", "ani": 78.7608, "matched_fragments": 301, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus", "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_002140715.1", "gtdb_species": "s__Enterococcus sp002140715", "ani": 78.6332, "matched_fragments": 297, "total_fragments": 1223, "gtdb_taxonomy": 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.57", "min_intra_species_ani": "98.46", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002141365.1", "gtdb_species": "s__Enterococcus sp002141365", "ani": 78.5053, "matched_fragments": 309, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus", "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_001730305.1", "gtdb_species": "s__Enterococcus termitis", "ani": 78.4528, "matched_fragments": 286, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus", "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_002148425.1", "gtdb_species": "s__Enterococcus sp002148425", "ani": 78.3914, "matched_fragments": 321, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000407445.1", "gtdb_species": "s__Enterococcus moraviensis", "ani": 78.3713, "matched_fragments": 307, "total_fragments": 1223, "gtdb_taxonomy": 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0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Enterococcus", "rivorum" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }