{ "type": "genome", "identifier": "GCF_000169335.1", "organism": "Crocosphaera chwakensis CCY0110", "title": "Crocosphaera chwakensis CCY0110", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Gordon and Betty Moore Foundation Marine Microbiology Initiative", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000169335.1", "bioproject": "PRJNA224116", "biosample": "SAMN02436157", "wgs_master": "AAXW00000000.1", "refseq_category": "reference genome", "taxid": "391612", "species_taxid": "2546361", "organism_name": "Crocosphaera chwakensis CCY0110", "infraspecific_name": "strain=CCY0110", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2007/03/06", "asm_name": "ASM16933v1", "asm_submitter": "The Gordon and Betty Moore Foundation Marine Microbiology Initiative", "gbrs_paired_asm": "GCA_000169335.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/169/335/GCF_000169335.1_ASM16933v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5880532", "genome_size_ungapped": "5880532", "gc_percent": "36.500000", "replicon_count": "0", "scaffold_count": "163", "contig_count": "163", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000169335.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "5700", "protein_coding_gene_count": "5479", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2007-03-06", "dateModified": "2007-03-06", "datePublished": "2007-03-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Crocosphaera chwakensis CCY0110" ], "sample_taxid": [ "391612" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.660 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.46, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5880532", "Number of Sequences": "163", "Longest Sequences (bp)": "246579", "N50 (bp)": "81955", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "36.7", "Number of CDSs": "5397", "Average Protein Length": "297.6", "Coding Ratio (%)": "81.9", "Number of rRNAs": "4", "Number of tRNAs": "46", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Crocosphaera chwakensis", "strain": "strain=CCY0110", "accession": "GCA_000169335.1", "taxid": 2546361, "species_taxid": 2546361, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1864, "total_fragments": 1875, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Crocosphaera subtropica", "strain": "strain=ATCC 51142", "accession": "GCA_000017845.1", "taxid": 2546360, "species_taxid": 2546360, "relation_to_type": "type", "validated": true, "ani": 86.6498, "matched_fragments": 1309, "total_fragments": 1875, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Crocosphaera watsonii", "strain": "strain=WH 8501", "accession": "GCA_000167195.1", "taxid": 263511, "species_taxid": 263511, "relation_to_type": "suspected-type", "validated": true, "ani": 81.1442, "matched_fragments": 939, "total_fragments": 1875, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rippkaea orientalis", "strain": "strain=PCC 8801", "accession": "GCA_000021805.1", "taxid": 2546366, "species_taxid": 2546366, "relation_to_type": "type", "validated": true, "ani": 77.0127, "matched_fragments": 341, "total_fragments": 1875, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylococcopsis salina", "strain": "strain=PCC 8305", "accession": "GCA_000317615.1", "taxid": 292566, "species_taxid": 292566, "relation_to_type": "type", "validated": true, "ani": 76.2463, "matched_fragments": 65, "total_fragments": 1875, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cyanobacterium aponinum", "strain": "strain=PCC 10605", "accession": "GCA_000317675.1", "taxid": 379064, "species_taxid": 379064, "relation_to_type": "type", "validated": true, "ani": 76.0797, "matched_fragments": 98, "total_fragments": 1875, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planktothrix tepida", "strain": "strain=PCC9214", "accession": "GCA_904830955.1", "taxid": 1678309, "species_taxid": 1678309, "relation_to_type": "type", "validated": true, "ani": 75.7451, "matched_fragments": 123, "total_fragments": 1875, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Iningainema tapete", "strain": "strain=BLCC-T55", "accession": "GCA_014698965.1", "taxid": 2806730, "species_taxid": 2806730, "relation_to_type": "type", "validated": true, "ani": 75.5962, "matched_fragments": 60, "total_fragments": 1875, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.46, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000169335.1", "gtdb_species": "s__Crocosphaera chwakensis", "ani": 100.0, "matched_fragments": 1865, "total_fragments": 1875, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Microcystaceae_A;g__Crocosphaera", "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": "GCA_002172675.1", "gtdb_species": "s__Crocosphaera sp002172675", "ani": 88.8828, "matched_fragments": 1332, "total_fragments": 1875, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Microcystaceae_A;g__Crocosphaera", "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_003013815.1", "gtdb_species": "s__Crocosphaera sp003013815", "ani": 87.2355, "matched_fragments": 1276, "total_fragments": 1875, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Microcystaceae_A;g__Crocosphaera", "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_000017845.1", "gtdb_species": "s__Crocosphaera subtropica", "ani": 86.6486, "matched_fragments": 1308, "total_fragments": 1875, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Microcystaceae_A;g__Crocosphaera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000167195.1", "gtdb_species": "s__Crocosphaera watsonii", "ani": 81.1502, "matched_fragments": 938, "total_fragments": 1875, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Microcystaceae_A;g__Crocosphaera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "98.50", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000025125.1", "gtdb_species": "s__Atelocyanobacterium thalassa", "ani": 76.9177, "matched_fragments": 78, "total_fragments": 1875, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Microcystaceae_A;g__Atelocyanobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Crocosphaera", "chwakensis", "CCY0110" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }