{ "type": "genome", "identifier": "GCF_001456385.1", "organism": "Lactococcus lactis subsp. lactis", "title": "Lactococcus lactis subsp. lactis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Radboudumc", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001456385.1", "bioproject": "PRJNA224116", "biosample": "SAMN04018792", "wgs_master": "LKLC00000000.1", "refseq_category": "na", "taxid": "1360", "species_taxid": "1358", "organism_name": "Lactococcus lactis subsp. lactis", "infraspecific_name": "strain=ATCC 19435", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/12/04", "asm_name": "ASM145638v1", "asm_submitter": "Radboudumc", "gbrs_paired_asm": "GCA_001456385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/456/385/GCF_001456385.1_ASM145638v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2547291", "genome_size_ungapped": "2547291", "gc_percent": "35.500000", "replicon_count": "0", "scaffold_count": "171", "contig_count": "171", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001456385.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "2655", "protein_coding_gene_count": "2475", "non_coding_gene_count": "79", "pubmed_id": "28360177" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-12-04", "dateModified": "2015-12-04", "datePublished": "2015-12-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Lactococcus lactis subsp. lactis" ], "sample_taxid": [ "1360" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Netherlands" ], "sample_host_location_id": [], "data_size": "0.717 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)": "2547291", "Number of Sequences": "171", "Longest Sequences (bp)": "283292", "N50 (bp)": "105989", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.3", "Number of CDSs": "2478", "Average Protein Length": "287.9", "Coding Ratio (%)": "84.0", "Number of rRNAs": "4", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lactococcus lactis subsp. lactis", "strain": "strain=ATCC 19435", "accession": "GCA_001456385.1", "taxid": 1360, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 788, "total_fragments": 790, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus lactis", "strain": "strain=FDAARGOS_865", "accession": "GCA_016028835.1", "taxid": 1358, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 99.9987, "matched_fragments": 787, "total_fragments": 790, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus lactis subsp. lactis", "strain": "strain=ATCC 19435", "accession": "GCA_004354485.1", "taxid": 1360, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 99.9908, "matched_fragments": 788, "total_fragments": 790, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus lactis subsp. lactis", "strain": "strain=NBRC 100933", "accession": "GCA_001514475.1", "taxid": 1360, "species_taxid": 1358, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9886, "matched_fragments": 784, "total_fragments": 790, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus lactis", "strain": "strain=ATCC 19435", "accession": "GCA_900099625.1", "taxid": 1358, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 99.9741, "matched_fragments": 788, "total_fragments": 790, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus lactis subsp. hordniae", "strain": "strain=CCUG 32210T", "accession": "GCA_008692945.1", "taxid": 203404, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 97.2299, "matched_fragments": 629, "total_fragments": 790, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus lactis subsp. hordniae", "strain": "strain=DSM 20450", "accession": "GCA_002441785.1", "taxid": 203404, "species_taxid": 1358, "relation_to_type": "type", "validated": true, "ani": 97.1898, "matched_fragments": 626, "total_fragments": 790, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus lactis subsp. hordniae", 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hircilactis", "ani": 79.94, "matched_fragments": 192, "total_fragments": 790, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus", "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_018403765.1", "gtdb_species": "s__Lactococcus nasutitermitis", "ani": 79.5142, "matched_fragments": 193, "total_fragments": 790, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus", "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_003627095.1", "gtdb_species": "s__Lactococcus allomyrinae", "ani": 79.2742, "matched_fragments": 287, 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