{ "type": "genome", "identifier": "GCF_000007705.1", "organism": "Chromobacterium violaceum ATCC 12472", "title": "Chromobacterium violaceum ATCC 12472", "description": "na", "data type": "Genome sequencing and assembly", "organization": "LNCC, Brazil", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000007705.1", "bioproject": "PRJNA224116", "biosample": "SAMN02603528", "wgs_master": "na", "refseq_category": "na", "taxid": "243365", "species_taxid": "536", "organism_name": "Chromobacterium violaceum ATCC 12472", "infraspecific_name": "strain=ATCC 12472", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2003/08/22", "asm_name": "ASM770v1", "asm_submitter": "LNCC, Brazil", "gbrs_paired_asm": "GCA_000007705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/007/705/GCF_000007705.1_ASM770v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4751080", "genome_size_ungapped": "4751080", "gc_percent": "65.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000007705.1-RS_2024_12_02", "annotation_date": "2024-12-02", "total_gene_count": "4493", "protein_coding_gene_count": "4340", "non_coding_gene_count": "128", "pubmed_id": "14500782" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2003-08-22", "dateModified": "2003-08-22", "datePublished": "2003-08-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Chromobacterium violaceum ATCC 12472" ], "sample_taxid": [ "243365" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.296 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4751080", "Number of Sequences": "1", "Longest Sequences (bp)": "4751080", "N50 (bp)": "4751080", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.8", "Number of CDSs": "4369", "Average Protein Length": "321.8", "Coding Ratio (%)": "88.8", "Number of rRNAs": "25", "Number of tRNAs": "106", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Chromobacterium violaceum", "strain": "strain=ATCC 12472", "accession": "GCA_000007705.1", "taxid": 536, "species_taxid": 536, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1581, "total_fragments": 1583, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chromobacterium violaceum", "strain": "strain=NCTC9757", "accession": "GCA_900446805.1", "taxid": 536, "species_taxid": 536, "relation_to_type": "type", "validated": true, "ani": 99.9931, "matched_fragments": 1575, "total_fragments": 1583, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chromobacterium vaccinii", "strain": "strain=MWU205", "accession": "GCA_000971335.1", "taxid": 1108595, "species_taxid": 1108595, "relation_to_type": "type", "validated": true, "ani": 91.1858, "matched_fragments": 1279, "total_fragments": 1583, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium piscinae", "strain": "strain=DSM 23278", "accession": "GCA_021129175.1", "taxid": 686831, "species_taxid": 686831, "relation_to_type": "type", "validated": true, "ani": 91.1475, "matched_fragments": 1252, "total_fragments": 1583, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": 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"accession": "GCA_021129195.1", "taxid": 467180, "species_taxid": 467180, "relation_to_type": "type", "validated": true, "ani": 83.6348, "matched_fragments": 923, "total_fragments": 1583, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia perseverans", "strain": "strain=INN12", "accession": "GCA_022870505.1", "taxid": 2615214, "species_taxid": 2615214, "relation_to_type": "type", "validated": true, "ani": 76.7558, "matched_fragments": 438, "total_fragments": 1583, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000007705.1", "gtdb_species": "s__Chromobacterium violaceum", "ani": 100.0, "matched_fragments": 1581, "total_fragments": 1583, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, 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95.0, "mean_intra_species_ani": "95.84", "min_intra_species_ani": "95.77", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003325475.1", "gtdb_species": "s__Chromobacterium phragmitis", "ani": 89.3574, "matched_fragments": 1282, "total_fragments": 1583, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.00", "min_intra_species_ani": "99.00", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002848345.1", "gtdb_species": "s__Chromobacterium sp002848345", "ani": 88.1108, "matched_fragments": 1222, "total_fragments": 1583, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "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_001676875.1", "gtdb_species": "s__Chromobacterium subtsugae", "ani": 87.9502, "matched_fragments": 1181, "total_fragments": 1583, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.12", "min_intra_species_ani": "98.52", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_001855565.1", "gtdb_species": "s__Chromobacterium amazonense", "ani": 87.3499, "matched_fragments": 1068, "total_fragments": 1583, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, 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"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_016428945.1", "gtdb_species": "s__Chromobacterium sp016428945", "ani": 86.8148, "matched_fragments": 1054, "total_fragments": 1583, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", "min_intra_species_ani": "97.99", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001855555.1", "gtdb_species": "s__Chromobacterium sphagni", "ani": 86.663, "matched_fragments": 1104, "total_fragments": 1583, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "99.33", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.219, "cell_length": 0.336, "doubling_h": -0.081, "growth_tmp": 30.5, "optimum_tmp": 24.0, "optimum_ph": 6.416, "genome_size": 4744451.4, "gc_content": 64.917, "coding_genes": 4188.75, "rRNA16S_genes": 8.0, "tRNA_genes": 95.667, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "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": 0.0, "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": [ "Chromobacterium", "violaceum", "ATCC", "12472" ], "quality": 5, "quality_label": 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