{ "type": "genome", "identifier": "GCF_900604485.1", "organism": "Enterococcus mediterraneensis", "title": "Enterococcus mediterraneensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900604485.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4983427", "wgs_master": "UWOP00000000.1", "refseq_category": "reference genome", "taxid": "2364791", "species_taxid": "2364791", "organism_name": "Enterococcus mediterraneensis", "infraspecific_name": "strain=Marseille-P4358", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/10/31", "asm_name": "PRJEB28790", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900604485.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/604/485/GCF_900604485.1_PRJEB28790", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2699190", "genome_size_ungapped": "2699190", "gc_percent": "41.000000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900604485.1-RS_2024_03_31", "annotation_date": "2024-03-31", "total_gene_count": "2678", "protein_coding_gene_count": "2557", "non_coding_gene_count": "84", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-10-31", "dateModified": "2018-10-31", "datePublished": "2018-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus mediterraneensis" ], "sample_taxid": [ "2364791" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.763 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)": "2699190", "Number of Sequences": "3", "Longest Sequences (bp)": "2402824", "N50 (bp)": "2402824", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.9", "Number of CDSs": "2626", "Average Protein Length": "296.8", "Coding Ratio (%)": "86.6", "Number of rRNAs": "14", "Number of tRNAs": "65", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus mediterraneensis", "strain": "strain=Marseille-P4358", "accession": "GCA_900604485.1", "taxid": 2364791, "species_taxid": 2364791, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 898, "total_fragments": 898, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus dispar", "strain": "strain=ATCC 51266", "accession": "GCA_000407585.1", "taxid": 44009, "species_taxid": 44009, "relation_to_type": "type", "validated": true, "ani": 80.312, "matched_fragments": 144, "total_fragments": 898, "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": 79.9447, "matched_fragments": 164, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dispar", "strain": "strain=ATCC 51266", "accession": "GCA_000406945.1", "taxid": 44009, "species_taxid": 44009, "relation_to_type": "type", "validated": true, "ani": 79.8645, "matched_fragments": 135, "total_fragments": 898, "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": 79.4666, "matched_fragments": 157, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=NCTC12361", "accession": "GCA_900447665.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 79.3622, "matched_fragments": 177, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=FDAARGOS_1120", "accession": "GCA_016727345.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 79.2207, "matched_fragments": 183, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dispar", "strain": "strain=DSM 6630", "accession": "GCA_001886105.1", "taxid": 44009, "species_taxid": 44009, "relation_to_type": "type", "validated": true, "ani": 79.1715, "matched_fragments": 131, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus mundtii", "strain": "strain=DSM 4838", "accession": "GCA_002813755.1", "taxid": 53346, "species_taxid": 53346, "relation_to_type": "type", "validated": true, "ani": 78.756, "matched_fragments": 158, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus gallinarum", "strain": "strain=DSM 24841", "accession": "GCA_001886155.1", "taxid": 1353, "species_taxid": 1353, "relation_to_type": "suspected-type", "validated": true, "ani": 78.6918, "matched_fragments": 182, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=NBRC 100478", "accession": "GCA_001544095.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 78.6685, "matched_fragments": 176, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=DSM 20680", "accession": "GCA_001885845.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 78.6034, "matched_fragments": 171, "total_fragments": 898, "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": 78.5927, "matched_fragments": 102, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus mundtii", "strain": "strain=NBRC 100490", "accession": "GCA_007990125.1", "taxid": 53346, "species_taxid": 53346, "relation_to_type": "type", "validated": true, "ani": 78.2021, "matched_fragments": 154, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus mundtii", "strain": "strain=DSM 4838", "accession": "GCA_001886035.1", "taxid": 53346, "species_taxid": 53346, "relation_to_type": "type", "validated": true, "ani": 78.1252, "matched_fragments": 154, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus villorum", "strain": "strain=NBRC 100699", "accession": "GCA_007990225.1", "taxid": 112904, "species_taxid": 112904, "relation_to_type": "type", "validated": true, "ani": 78.0999, "matched_fragments": 123, "total_fragments": 898, "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": 77.7384, "matched_fragments": 93, "total_fragments": 898, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900604485.1", "gtdb_species": "s__Enterococcus_C mediterraneensis", "ani": 100.0, "matched_fragments": 898, "total_fragments": 898, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "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_000406945.1", "gtdb_species": "s__Enterococcus_C dispar", "ani": 79.8245, "matched_fragments": 135, "total_fragments": 898, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.61", "min_intra_species_ani": "99.21", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001544215.1", "gtdb_species": "s__Enterococcus_B durans", "ani": 79.3939, "matched_fragments": 155, "total_fragments": 898, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.77", "min_intra_species_ani": "96.42", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.77", "num_clustered_genomes": 135, "status": "-" }, { "accession": "GCF_003957375.1", "gtdb_species": "s__Enterococcus_B mundtii_C", "ani": 79.3849, "matched_fragments": 152, "total_fragments": 898, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 96.247, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "99.65", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005405265.1", "gtdb_species": "s__Enterococcus_C songbeiensis", "ani": 79.3661, "matched_fragments": 349, "total_fragments": 898, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.82", "min_intra_species_ani": "98.68", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_011038845.1", "gtdb_species": "s__Enterococcus_B sp011038845", "ani": 79.0224, "matched_fragments": 163, "total_fragments": 898, "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_002813755.1", "gtdb_species": "s__Enterococcus_B mundtii", "ani": 78.8699, "matched_fragments": 159, "total_fragments": 898, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 96.3614, "mean_intra_species_ani": "99.56", "min_intra_species_ani": "98.27", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.86", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCF_002141365.1", "gtdb_species": "s__Enterococcus sp002141365", "ani": 78.8689, "matched_fragments": 100, "total_fragments": 898, "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": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Enterococcus", "mediterraneensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }