{ "type": "genome", "identifier": "GCF_007990225.1", "organism": "Enterococcus villorum", "title": "Enterococcus villorum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007990225.1", "bioproject": "PRJNA224116", "biosample": "SAMD00166261", "wgs_master": "BJWF00000000.1", "refseq_category": "na", "taxid": "112904", "species_taxid": "112904", "organism_name": "Enterococcus villorum", "infraspecific_name": "strain=NBRC 100699", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/08/01", "asm_name": "ASM799022v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_007990225.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/990/225/GCF_007990225.1_ASM799022v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2904915", "genome_size_ungapped": "2904915", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "106", "contig_count": "106", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007990225.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "2745", "protein_coding_gene_count": "2609", "non_coding_gene_count": "30", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-08-01", "dateModified": "2019-08-01", "datePublished": "2019-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus villorum" ], "sample_taxid": [ "112904" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada" ], "sample_host_location_id": [], "data_size": "0.819 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)": "2904915", "Number of Sequences": "106", "Longest Sequences (bp)": "271955", "N50 (bp)": "68027", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.9", "Number of CDSs": "2679", "Average Protein Length": "292.0", "Coding Ratio (%)": "80.8", "Number of rRNAs": "2", "Number of tRNAs": "24", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus villorum", "strain": "strain=NBRC 100699", "accession": "GCA_007990225.1", "taxid": 112904, "species_taxid": 112904, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 916, "total_fragments": 920, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus hirae", "strain": "strain=FDAARGOS_1123", "accession": "GCA_016766815.1", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 81.9592, "matched_fragments": 569, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hirae", "strain": "strain=ATCC 9790", "accession": "GCA_000271405.2", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 81.9566, "matched_fragments": 559, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hirae", "strain": "strain=DSM 20160", "accession": "GCA_001885955.1", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 81.9249, "matched_fragments": 561, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hirae", "strain": "strain=ATCC 9790", "accession": "GCA_000407425.1", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 81.9129, "matched_fragments": 560, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hirae", "strain": "strain=ATCC 9790", "accession": "GCA_000393835.1", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 81.9012, "matched_fragments": 567, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus ratti", "strain": "strain=DSM 15687", "accession": "GCA_001886195.1", "taxid": 150033, "species_taxid": 150033, "relation_to_type": "type", "validated": true, "ani": 81.4726, "matched_fragments": 476, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus durans", "strain": "strain=NBRC 100479", "accession": "GCA_001544215.1", "taxid": 53345, "species_taxid": 53345, "relation_to_type": "type", "validated": true, "ani": 80.8959, "matched_fragments": 445, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus durans", "strain": "strain=FDAARGOS 1437", "accession": "GCA_019048325.1", "taxid": 53345, "species_taxid": 53345, "relation_to_type": "type", "validated": true, "ani": 80.7549, "matched_fragments": 457, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus lactis", "strain": "strain=CCM 8412", "accession": "GCA_015751045.1", "taxid": 357441, "species_taxid": 357441, "relation_to_type": "type", "validated": true, "ani": 79.4319, "matched_fragments": 359, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus thailandicus", "strain": "strain=NBRC 101867", "accession": "GCA_007989705.1", "taxid": 417368, "species_taxid": 417368, "relation_to_type": "type", "validated": true, "ani": 79.0787, "matched_fragments": 331, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus thailandicus", "strain": "strain=DSM 21767", "accession": "GCA_001886265.1", "taxid": 417368, "species_taxid": 417368, "relation_to_type": "type", "validated": true, "ani": 79.041, "matched_fragments": 336, "total_fragments": 920, "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": 77.7571, "matched_fragments": 145, "total_fragments": 920, "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": 77.6675, "matched_fragments": 145, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vagococcus xieshaowenii", "strain": "strain=personal::cf-49", "accession": "GCA_004792515.1", "taxid": 2562451, "species_taxid": 2562451, "relation_to_type": "type", "validated": true, "ani": 77.4289, "matched_fragments": 73, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007990225.1", "gtdb_species": "s__Enterococcus_B villorum", "ani": 100.0, "matched_fragments": 916, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.96", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCA_015680865.1", "gtdb_species": "s__Enterococcus_B lacertideformus", "ani": 82.2255, "matched_fragments": 563, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "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_000271405.2", "gtdb_species": "s__Enterococcus_B hirae", "ani": 81.9566, "matched_fragments": 559, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.97", "min_intra_species_ani": "97.87", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 203, "status": "-" 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"s__Enterococcus_B sp011038845", "ani": 79.7165, "matched_fragments": 333, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.61", "min_intra_species_ani": "99.61", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_015751045.1", "gtdb_species": "s__Enterococcus_B lactis", "ani": 79.4319, "matched_fragments": 359, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.26", "min_intra_species_ani": "97.66", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.81", "num_clustered_genomes": 335, "status": "-" }, { "accession": "GCF_001886265.1", "gtdb_species": "s__Enterococcus_B thailandicus", "ani": 79.0548, "matched_fragments": 335, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.46", "min_intra_species_ani": "99.20", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_017426705.1", "gtdb_species": "s__Enterococcus_F sp017426705", "ani": 77.6258, "matched_fragments": 149, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_F", "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": -0.04, "cell_length": -0.019, "doubling_h": -0.346, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 8.805, "genome_size": 3058438.0, "gc_content": 38.565, "coding_genes": 2937.768, "rRNA16S_genes": 5.5, "tRNA_genes": 60.871, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.031, "coccus_cell_shape": 0.812, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.156, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Enterococcus", "villorum" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }