{ "type": "genome", "identifier": "GCF_000619845.1", "organism": "Alkanindiges illinoisensis DSM 15370", "title": "Alkanindiges illinoisensis DSM 15370", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000619845.1", "bioproject": "PRJNA224116", "biosample": "SAMN02769641", "wgs_master": "JHUX00000000.1", "refseq_category": "reference genome", "taxid": "1120977", "species_taxid": "197183", "organism_name": "Alkanindiges illinoisensis DSM 15370", "infraspecific_name": "strain=DSM 15370", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/04/08", "asm_name": "ASM61984v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000619845.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/619/845/GCF_000619845.1_ASM61984v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3299408", "genome_size_ungapped": "3298436", "gc_percent": "46.500000", "replicon_count": "0", "scaffold_count": "11", "contig_count": "12", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000619845.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3111", "protein_coding_gene_count": "3005", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-04-08", "dateModified": "2014-04-08", "datePublished": "2014-04-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Alkanindiges illinoisensis DSM 15370" ], "sample_taxid": [ "1120977" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "0.934 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)": "3299408", "Number of Sequences": "11", "Longest Sequences (bp)": "1780621", "N50 (bp)": "1780621", "Gap Ratio (%)": "0.029460", "GCcontent (%)": "46.3", "Number of CDSs": "3048", "Average Protein Length": "311.1", "Coding Ratio (%)": "86.2", "Number of rRNAs": "5", "Number of tRNAs": "43", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Alkanindiges illinoisensis", "strain": "strain=DSM 15370", "accession": "GCA_000619845.1", "taxid": 197183, "species_taxid": 197183, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1095, "total_fragments": 1095, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Alkanindiges hydrocarboniclasticus", "strain": "strain=H1", "accession": "GCA_001982605.1", "taxid": 1907941, "species_taxid": 1907941, "relation_to_type": "type", "validated": true, "ani": 86.4664, "matched_fragments": 840, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter haemolyticus", "strain": "strain=NCTC10305", "accession": "GCA_900444835.1", "taxid": 29430, "species_taxid": 29430, "relation_to_type": "type", "validated": true, "ani": 77.9219, "matched_fragments": 77, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter radioresistens", "strain": "strain=CIP 103788", "accession": "GCA_000368905.1", "taxid": 40216, "species_taxid": 40216, "relation_to_type": "type", "validated": true, "ani": 77.804, "matched_fragments": 120, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter radioresistens", "strain": "strain=NBRC 102413", "accession": "GCA_006757745.1", "taxid": 40216, "species_taxid": 40216, "relation_to_type": "type", "validated": true, "ani": 77.7586, "matched_fragments": 122, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter indicus", "strain": "strain=CIP 110367", "accession": "GCA_000488255.1", "taxid": 756892, "species_taxid": 756892, "relation_to_type": "type", "validated": true, "ani": 77.7437, "matched_fragments": 143, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter indicus", "strain": "strain=DSM 25388", "accession": "GCA_000830155.1", "taxid": 756892, "species_taxid": 756892, "relation_to_type": "type", "validated": true, "ani": 77.4596, "matched_fragments": 139, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter ursingii", "strain": "strain=FDAARGOS_1095", "accession": "GCA_016726205.1", "taxid": 108980, "species_taxid": 108980, "relation_to_type": "type", "validated": true, "ani": 77.2714, "matched_fragments": 103, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter ihumii", "strain": "strain=Marseille-P8049", "accession": "GCA_900625095.1", "taxid": 2483802, "species_taxid": 2483802, "relation_to_type": "type", "validated": true, "ani": 77.2532, "matched_fragments": 112, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter baylyi", "strain": "strain=CIP 107474", "accession": "GCA_000368685.1", "taxid": 202950, "species_taxid": 202950, "relation_to_type": "type", "validated": true, "ani": 77.131, "matched_fragments": 93, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter populi", "strain": "strain=PBJ7", "accession": "GCA_002174125.1", "taxid": 1582270, "species_taxid": 1582270, "relation_to_type": "type", "validated": true, "ani": 77.0445, "matched_fragments": 109, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter silvestris", "strain": "strain=ANC 4999", "accession": "GCA_002135235.1", "taxid": 1977882, "species_taxid": 1977882, "relation_to_type": "type", "validated": true, "ani": 76.9884, "matched_fragments": 73, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter larvae", "strain": "strain=BRTC-1", "accession": "GCA_001704115.1", "taxid": 1789224, "species_taxid": 1789224, "relation_to_type": "type", "validated": true, "ani": 76.9687, "matched_fragments": 70, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter pecorum", "strain": "strain=Sa1BUA6", "accession": "GCA_014837015.1", "taxid": 2762215, "species_taxid": 2762215, "relation_to_type": "type", "validated": true, "ani": 76.9396, "matched_fragments": 104, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter baylyi", "strain": "strain=DSM 14961", "accession": "GCA_000621045.1", "taxid": 202950, "species_taxid": 202950, "relation_to_type": "type", "validated": true, "ani": 76.8964, "matched_fragments": 93, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter parvus", "strain": "strain=CIP 108168", "accession": "GCA_000368025.1", "taxid": 134533, "species_taxid": 134533, "relation_to_type": "type", "validated": true, "ani": 76.8935, "matched_fragments": 108, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter cumulans", "strain": "strain=WCHAc060092", "accession": "GCA_003024525.3", "taxid": 2136182, "species_taxid": 2136182, "relation_to_type": "type", "validated": true, "ani": 76.7966, "matched_fragments": 82, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter bouvetii", "strain": "strain=CIP 107468", "accession": "GCA_000368865.1", "taxid": 202951, "species_taxid": 202951, "relation_to_type": "type", "validated": true, "ani": 76.6769, "matched_fragments": 110, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acinetobacter brisouii", "strain": "strain=DSM 18516", "accession": "GCA_000931655.1", "taxid": 396323, "species_taxid": 396323, "relation_to_type": "type", "validated": true, "ani": 76.6065, "matched_fragments": 92, "total_fragments": 1095, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000619845.1", "gtdb_species": "s__Alkanindiges illinoisensis", "ani": 100.0, "matched_fragments": 1095, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Alkanindiges", "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_004377485.1", "gtdb_species": "s__Alkanindiges illinoisensis_A", "ani": 92.6686, "matched_fragments": 850, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Alkanindiges", "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_001982605.1", "gtdb_species": "s__Alkanindiges hydrocarboniclasticus", "ani": 86.4664, "matched_fragments": 840, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Alkanindiges", "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": "GCA_004173455.1", "gtdb_species": "s__Alkanindiges sp004173455", "ani": 83.3856, "matched_fragments": 727, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Alkanindiges", "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_006757745.1", "gtdb_species": "s__Acinetobacter radioresistens", "ani": 77.7865, "matched_fragments": 121, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Acinetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.57", "min_intra_species_ani": "97.95", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 74, "status": "-" }, { "accession": "GCF_000488255.1", "gtdb_species": "s__Acinetobacter indicus", "ani": 77.7213, "matched_fragments": 142, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Acinetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.50", "min_intra_species_ani": "96.50", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.82", "num_clustered_genomes": 131, "status": "-" }, { "accession": "GCF_000368685.1", "gtdb_species": "s__Acinetobacter baylyi", "ani": 77.1611, "matched_fragments": 92, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Acinetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.85", "min_intra_species_ani": "98.65", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.93", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_001647535.1", "gtdb_species": "s__Acinetobacter sp001647535", "ani": 76.8684, "matched_fragments": 103, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Acinetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.56", "min_intra_species_ani": "98.54", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_013343215.1", "gtdb_species": "s__Acinetobacter lwoffii_C", "ani": 76.8208, "matched_fragments": 124, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Acinetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001696615.3", "gtdb_species": "s__Acinetobacter sp001696615", "ani": 76.4919, "matched_fragments": 122, "total_fragments": 1095, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Moraxellaceae;g__Acinetobacter", "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": -0.046, "cell_length": 0.176, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": null, "optimum_ph": null, "genome_size": 3305253.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Alkanindiges", "illinoisensis", "DSM", "15370" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }