{ "type": "genome", "identifier": "GCF_000060285.1", "organism": "Listeria welshimeri serovar 6b str. SLCC5334", "title": "Listeria welshimeri serovar 6b str. SLCC5334", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Universitat Giessen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000060285.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3138260", "wgs_master": "na", "refseq_category": "na", "taxid": "386043", "species_taxid": "1643", "organism_name": "Listeria welshimeri serovar 6b str. SLCC5334", "infraspecific_name": "strain=SLCC5334", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2006/10/27", "asm_name": "ASM6028v1", "asm_submitter": "Universitat Giessen", "gbrs_paired_asm": "GCA_000060285.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/060/285/GCF_000060285.1_ASM6028v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2814130", "genome_size_ungapped": "2814130", "gc_percent": "36.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-11", "total_gene_count": "2853", "protein_coding_gene_count": "2735", "non_coding_gene_count": "88", "pubmed_id": "16936040" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2006-10-27", "dateModified": "2006-10-27", "datePublished": "2006-10-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Listeria welshimeri serovar 6b str. SLCC5334" ], "sample_taxid": [ "386043" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.789 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)": "2814130", "Number of Sequences": "1", "Longest Sequences (bp)": "2814130", "N50 (bp)": "2814130", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "36.4", "Number of CDSs": "2801", "Average Protein Length": "297.6", "Coding Ratio (%)": "88.9", "Number of rRNAs": "18", "Number of tRNAs": "66", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Listeria welshimeri", "strain": "strain=SLCC5334", "accession": "GCA_000060285.1", "taxid": 1643, "species_taxid": 1643, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 937, "total_fragments": 938, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Listeria welshimeri", "strain": "strain=NCTC11857", "accession": "GCA_900187315.1", "taxid": 1643, "species_taxid": 1643, "relation_to_type": "type", "validated": true, "ani": 99.9991, "matched_fragments": 937, "total_fragments": 938, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Listeria innocua", "strain": "strain=H0996", "accession": "GCA_017363655.2", "taxid": 1642, "species_taxid": 1642, "relation_to_type": "claderef", "validated": true, "ani": 87.7654, "matched_fragments": 787, "total_fragments": 938, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Listeria innocua", "strain": "strain=2010L-2059", "accession": "GCA_017363615.2", "taxid": 1642, "species_taxid": 1642, "relation_to_type": "claderef", 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Listeria monocytogenes", "strain": "strain=FSL F6-684", "accession": "GCA_000743465.1", "taxid": 1639, "species_taxid": 1639, "relation_to_type": "type", "validated": true, "ani": 87.2676, "matched_fragments": 776, "total_fragments": 938, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Listeria monocytogenes", "strain": "strain=G4599", "accession": "GCA_001466295.1", "taxid": 1639, "species_taxid": 1639, "relation_to_type": "claderef", "validated": true, "ani": 87.1192, "matched_fragments": 779, "total_fragments": 938, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Listeria monocytogenes", "strain": "strain=J0099", "accession": "GCA_013625995.1", "taxid": 1639, "species_taxid": 1639, "relation_to_type": "claderef", "validated": true, "ani": 87.0989, "matched_fragments": 778, "total_fragments": 938, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Listeria swaminathanii", "strain": "strain=FSL L7-0020", "accession": "GCA_014229645.1", "taxid": 2713501, "species_taxid": 2713501, "relation_to_type": "type", "validated": true, "ani": 87.0543, "matched_fragments": 748, "total_fragments": 938, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Listeria monocytogenes", "strain": "strain=2014L-6393", "accession": "GCA_013626145.1", "taxid": 1639, "species_taxid": 1639, "relation_to_type": "claderef", "validated": true, "ani": 86.934, "matched_fragments": 753, "total_fragments": 938, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Listeria monocytogenes", "strain": "strain=2014L-6256", "accession": "GCA_013625895.1", "taxid": 1639, "species_taxid": 1639, "relation_to_type": "claderef", "validated": true, "ani": 86.8385, "matched_fragments": 775, "total_fragments": 938, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Listeriaceae;g__Listeria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.08", "min_intra_species_ani": "96.23", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 167, "status": "-" }, { "accession": "GCF_014322765.1", "gtdb_species": "s__Listeria immobilis", "ani": 83.6641, "matched_fragments": 653, "total_fragments": 938, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Listeriaceae;g__Listeria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.35", "min_intra_species_ani": "97.95", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.87", "num_clustered_genomes": 9, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.373, "cell_length": 0.255, "doubling_h": -0.172, "growth_tmp": 36.0, "optimum_tmp": 37.0, "optimum_ph": 7.125, "genome_size": 2814133.333, "gc_content": 36.4, "coding_genes": 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