{ "type": "genome", "identifier": "GCA_902614455.1", "organism": "uncultured prokaryote", "title": "uncultured prokaryote", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "WOODS HOLE OCEANOGRAPHIC INSTITUTION", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902614455.1", "bioproject": "PRJEB33281", "biosample": "SAMEA6074691", "wgs_master": "CACMLC000000000.1", "refseq_category": "na", "taxid": "198431", "species_taxid": "198431", "organism_name": "uncultured prokaryote", "infraspecific_name": "", "isolate": "", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/11/07", "asm_name": "AG-919-A21", "submitter": "WOODS HOLE OCEANOGRAPHIC INSTITUTION", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/614/455/GCA_902614455.1_AG-919-A21", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-11-07", "dateModified": "2019-11-07", "datePublished": "2019-11-07", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured prokaryote" ], "sample_taxid": [ "198431" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.279 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 68.04, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1010001", "Number of Sequences": "23", "Longest Sequences (bp)": "192152", "N50 (bp)": "87831", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "29.2", "Number of CDSs": "1042", "Average Protein Length": "302.0", "Coding Ratio (%)": "93.5", "Number of rRNAs": "1", "Number of tRNAs": "20", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Candidatus Pelagibacter ubique", "strain": "strain=HTCC1062", "accession": "GCA_000012345.1", "taxid": 198252, "species_taxid": 198252, "relation_to_type": "suspected-type", "validated": true, "ani": 77.7108, "matched_fragments": 158, "total_fragments": 325, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 68.04, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_902580895.1", "gtdb_species": "s__Pelagibacter sp902580895", "ani": 91.6179, "matched_fragments": 242, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.12", "min_intra_species_ani": "99.12", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902541825.1", "gtdb_species": "s__Pelagibacter sp902541825", "ani": 91.5746, "matched_fragments": 194, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.36", "min_intra_species_ani": "95.25", "mean_intra_species_af": "0.66", "min_intra_species_af": "0.63", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_902554195.1", "gtdb_species": "s__Pelagibacter sp902554195", "ani": 91.4131, "matched_fragments": 190, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902539445.1", "gtdb_species": "s__Pelagibacter sp902539445", "ani": 91.3913, "matched_fragments": 259, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902582845.1", "gtdb_species": "s__Pelagibacter sp902582845", "ani": 91.2951, "matched_fragments": 229, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902576375.1", "gtdb_species": "s__Pelagibacter sp902576375", "ani": 91.2897, "matched_fragments": 269, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902571015.1", "gtdb_species": "s__Pelagibacter sp902571015", "ani": 91.1175, "matched_fragments": 250, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902596515.1", "gtdb_species": "s__Pelagibacter sp902596515", "ani": 91.0684, "matched_fragments": 259, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.03", "min_intra_species_ani": "95.14", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.80", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCA_902523895.1", "gtdb_species": "s__Pelagibacter sp902523895", "ani": 90.8462, "matched_fragments": 228, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902537665.1", "gtdb_species": "s__Pelagibacter sp902537665", "ani": 90.6491, "matched_fragments": 242, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.87", "min_intra_species_ani": "95.87", "mean_intra_species_af": "0.77", "min_intra_species_af": "0.77", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902600635.1", "gtdb_species": "s__Pelagibacter sp902600635", "ani": 90.426, "matched_fragments": 152, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902578265.1", "gtdb_species": "s__Pelagibacter sp902578265", "ani": 90.3358, "matched_fragments": 251, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.64", "min_intra_species_ani": "99.64", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902568855.1", "gtdb_species": "s__Pelagibacter sp902568855", "ani": 89.9453, "matched_fragments": 126, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902594395.1", "gtdb_species": "s__Pelagibacter sp902594395", "ani": 88.6955, "matched_fragments": 126, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902633585.1", "gtdb_species": "s__Pelagibacter sp902633585", "ani": 86.1409, "matched_fragments": 179, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902579925.1", "gtdb_species": "s__Pelagibacter sp902579925", "ani": 85.129, "matched_fragments": 184, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.80", "min_intra_species_ani": "96.31", "mean_intra_species_af": "0.69", "min_intra_species_af": "0.68", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902524045.1", "gtdb_species": "s__Pelagibacter sp902524045", "ani": 84.8159, "matched_fragments": 143, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902515095.1", "gtdb_species": "s__Pelagibacter sp902515095", "ani": 84.3296, "matched_fragments": 244, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902514945.1", "gtdb_species": "s__Pelagibacter sp902514945", "ani": 83.9701, "matched_fragments": 198, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902609915.1", "gtdb_species": "s__Pelagibacter sp902609915", "ani": 83.6911, "matched_fragments": 169, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902557155.1", "gtdb_species": "s__Pelagibacter sp902557155", "ani": 78.9888, "matched_fragments": 175, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902616165.1", "gtdb_species": "s__Pelagibacter sp902616165", "ani": 78.9194, "matched_fragments": 103, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902587755.1", "gtdb_species": "s__Pelagibacter sp902587755", "ani": 78.7901, "matched_fragments": 163, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902613755.1", "gtdb_species": "s__Pelagibacter sp902613755", "ani": 78.7089, "matched_fragments": 180, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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_902558585.1", "gtdb_species": "s__Pelagibacter sp902558585", "ani": 78.5842, "matched_fragments": 115, "total_fragments": 325, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter", "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 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Pelagibacterales", "f__Pelagibacteraceae", "g__Pelagibacter", "s__" ], "_genome_taxon": [ "uncultured", "prokaryote", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Pelagibacterales", "f__Pelagibacteraceae", "g__Pelagibacter", "s__", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Pelagibacterales", "Pelagibacteraceae", "Pelagibacter", "s", "", "" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }