{ "type": "genome", "identifier": "GCF_002441745.1", "organism": "Lactococcus raffinolactis", "title": "Lactococcus raffinolactis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Inner Mongolia Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002441745.1", "bioproject": "PRJNA224116", "biosample": "SAMN03267154", "wgs_master": "JXJY00000000.1", "refseq_category": "na", "taxid": "1366", "species_taxid": "1366", "organism_name": "Lactococcus raffinolactis", "infraspecific_name": "strain=ATCC 43920", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/10/04", "asm_name": "ASM244174v1", "asm_submitter": "Inner Mongolia Agricultural University", "gbrs_paired_asm": "GCA_002441745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/441/745/GCF_002441745.1_ASM244174v1", 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"sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.633 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)": "2213917", "Number of Sequences": "121", "Longest Sequences (bp)": "220942", "N50 (bp)": "45720", "Gap Ratio (%)": "0.000452", "GCcontent (%)": "39.7", "Number of CDSs": "2146", "Average Protein Length": "295.0", "Coding Ratio (%)": "85.8", "Number of rRNAs": "2", "Number of tRNAs": "36", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lactococcus raffinolactis", "strain": "strain=ATCC 43920", "accession": "GCA_002441745.1", "taxid": 1366, "species_taxid": 1366, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 678, "total_fragments": 685, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus raffinolactis", "strain": "strain=NBRC 100932", "accession": "GCA_001591765.1", "taxid": 1366, "species_taxid": 1366, "relation_to_type": "type", "validated": true, "ani": 99.9839, "matched_fragments": 643, "total_fragments": 685, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactococcus laudensis", "strain": "strain=LMG 28353", "accession": "GCA_019586025.1", "taxid": 1494461, "species_taxid": 1494461, "relation_to_type": "type", "validated": true, "ani": 87.8811, "matched_fragments": 517, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus laudensis", "strain": "strain=DSM 28961", "accession": "GCA_013449735.1", "taxid": 1494461, "species_taxid": 1494461, "relation_to_type": "type", "validated": true, "ani": 87.8622, "matched_fragments": 525, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus chungangensis", "strain": "strain=DSM 22330", "accession": "GCA_900119835.1", "taxid": 451457, "species_taxid": 451457, "relation_to_type": "type", "validated": true, "ani": 85.5859, "matched_fragments": 511, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactococcus reticulitermitis", "strain": "strain=Rs-Y01", "accession": "GCA_002260845.1", "taxid": 2025039, "species_taxid": 2025039, "relation_to_type": "type", "validated": true, "ani": 84.9882, "matched_fragments": 490, "total_fragments": 685, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001591765.1", "gtdb_species": "s__Lactococcus_A raffinolactis", "ani": 99.9839, "matched_fragments": 643, "total_fragments": 685, "gtdb_taxonomy": 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.28", "min_intra_species_ani": "95.96", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_011170085.1", "gtdb_species": "s__Lactococcus_A hodotermopsidis", "ani": 78.1664, "matched_fragments": 208, "total_fragments": 685, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Lactococcus_A", "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": null, "cell_length": -0.302, "doubling_h": -0.114, "growth_tmp": 30.0, "optimum_tmp": 30.902, "optimum_ph": 5.9, "genome_size": 2229146.5, "gc_content": 39.747, "coding_genes": 2123.0, "rRNA16S_genes": 4.0, "tRNA_genes": 55.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Lactococcus", "raffinolactis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }