{ "type": "genome", "identifier": "GCF_000317535.1", "organism": "Cylindrospermum stagnale PCC 7417", "title": "Cylindrospermum stagnale PCC 7417", "description": "na", "data type": "Genome sequencing and assembly", "organization": "JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000317535.1", "bioproject": "PRJNA224116", "biosample": "SAMN02261342", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "56107", "species_taxid": "142864", "organism_name": "Cylindrospermum stagnale PCC 7417", "infraspecific_name": "strain=PCC 7417", "isolate": "na", "version_status": "latest", "assembly_level": "Chromosome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2012/12/06", "asm_name": "ASM31753v1", "asm_submitter": "JGI", "gbrs_paired_asm": "GCA_000317535.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/317/535/GCF_000317535.1_ASM31753v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7610589", "genome_size_ungapped": "7610389", "gc_percent": "42.000000", "replicon_count": "4", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000317535.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "6574", "protein_coding_gene_count": "6321", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2012-12-06", "dateModified": "2012-12-06", "datePublished": "2012-12-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Cylindrospermum stagnale PCC 7417" ], "sample_taxid": [ "56107" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [ "None" ], "sample_host_disease_id": [], "sample_host_location": [ "Sweden" ], "sample_host_location_id": [], "data_size": "2.149 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7610589", "Number of Sequences": "4", "Longest Sequences (bp)": "7003560", "N50 (bp)": "7003560", "Gap Ratio (%)": "0.002628", "GCcontent (%)": "42.2", "Number of CDSs": "6318", "Average Protein Length": "323.2", "Coding Ratio (%)": "80.5", "Number of rRNAs": "8", "Number of tRNAs": "70", "Number of CRISPRs": "13" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nostoc favosum", "strain": "strain=CHAB 5714", "accession": "GCA_020829495.1", "taxid": 2907819, "species_taxid": 2907819, "relation_to_type": "type", "validated": true, "ani": 80.1073, "matched_fragments": 1170, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nostoc punctiforme", "strain": "strain=ATCC 29133; PCC 73102", "accession": "GCA_000020025.1", "taxid": 272131, "species_taxid": 272131, "relation_to_type": "type", "validated": true, "ani": 79.9012, "matched_fragments": 1190, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anabaena cylindrica", "strain": "strain=PCC 7122", "accession": "GCA_000317695.1", "taxid": 1165, "species_taxid": 1165, "relation_to_type": "type", "validated": true, "ani": 79.6832, "matched_fragments": 1050, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anabaena cylindrica", "strain": "strain=NIES-19", "accession": "GCA_002367955.1", "taxid": 1165, "species_taxid": 1165, "relation_to_type": "type", "validated": true, "ani": 79.6094, "matched_fragments": 1071, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brasilonema bromeliae", "strain": "strain=SPC951", "accession": "GCA_012912135.1", "taxid": 383615, "species_taxid": 383615, "relation_to_type": "type", "validated": true, "ani": 77.4227, "matched_fragments": 527, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brasilonema sennae", "strain": "strain=CENA114", "accession": "GCA_006968745.1", "taxid": 1397703, "species_taxid": 1397703, "relation_to_type": "type", "validated": true, "ani": 77.3683, "matched_fragments": 597, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fischerella thermalis", "strain": "strain=PCC 7521", "accession": "GCA_000317225.1", "taxid": 372787, "species_taxid": 372787, "relation_to_type": "type", "validated": true, "ani": 77.2874, "matched_fragments": 516, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chlorogloeopsis fritschii", "strain": "strain=PCC 6912", "accession": "GCA_000317285.1", "taxid": 1124, "species_taxid": 1124, "relation_to_type": "type", "validated": true, "ani": 77.197, "matched_fragments": 584, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chlorogloeopsis fritschii", "strain": "strain=PCC 6912", "accession": "GCA_003990575.1", "taxid": 1124, "species_taxid": 1124, "relation_to_type": "type", "validated": true, "ani": 77.1962, "matched_fragments": 591, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Moorena producens", "strain": "strain=3L", "accession": "GCA_000211815.1", "taxid": 1155739, "species_taxid": 1155739, "relation_to_type": "type", "validated": true, "ani": 75.6255, "matched_fragments": 100, "total_fragments": 2534, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_000317535.1", "gtdb_species": "s__Cylindrospermum stagnale", "ani": 100.0, "matched_fragments": 2530, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Cylindrospermum", "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_014697195.1", "gtdb_species": "s__Cylindrospermum sp014697195", "ani": 89.5276, "matched_fragments": 1619, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Cylindrospermum", "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_003994795.1", "gtdb_species": "s__Cylindrospermum sp003994795", "ani": 84.47, "matched_fragments": 1706, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Cylindrospermum", "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_010091925.1", "gtdb_species": "s__Nostoc sp010091925", "ani": 80.3712, "matched_fragments": 1200, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_017115025.1", "gtdb_species": "s__Nostoc sp017115025", "ani": 80.2838, "matched_fragments": 1128, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_014904695.1", "gtdb_species": "s__Nostoc sp014904695", "ani": 80.2342, "matched_fragments": 1166, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_014698735.1", "gtdb_species": "s__Anabaena variabilis_A", "ani": 80.1684, "matched_fragments": 1113, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Anabaena", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.36", "min_intra_species_ani": "95.36", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_017114985.1", "gtdb_species": "s__Nostoc sp017114985", "ani": 80.1581, "matched_fragments": 1134, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_002949735.1", "gtdb_species": "s__Nostoc sp002949735", "ani": 80.1226, "matched_fragments": 1141, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.73", "min_intra_species_ani": "95.05", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.76", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_015206995.1", "gtdb_species": "s__Nostoc sp015206995", "ani": 80.0932, "matched_fragments": 1035, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_017115085.1", "gtdb_species": "s__Nostoc sp017115085", "ani": 80.0207, "matched_fragments": 1117, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_014831675.1", "gtdb_species": "s__Nostoc sp014831675", "ani": 79.9687, "matched_fragments": 1195, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_014698305.1", "gtdb_species": "s__Anabaena lutea", "ani": 79.899, "matched_fragments": 1074, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Anabaena", "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_014696655.1", "gtdb_species": "s__Nostoc sp014696655", "ani": 79.8836, "matched_fragments": 1091, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_002949795.1", "gtdb_species": "s__Nostoc sp002949795", "ani": 79.8702, "matched_fragments": 1095, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Nostoc", "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_016056275.1", "gtdb_species": "s__Dendronalium phyllosphericum", "ani": 79.1006, "matched_fragments": 978, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Dendronalium", "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_002368195.1", "gtdb_species": "s__Aulosira sp002368195", "ani": 78.7684, "matched_fragments": 1013, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Aulosira", "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_000317245.1", "gtdb_species": "s__Fischerella muscicola_A", "ani": 77.4575, "matched_fragments": 514, "total_fragments": 2534, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Nostocaceae;g__Fischerella", "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": 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": [ "Cylindrospermum", "stagnale", "PCC", "7417" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }