{ "type": "genome", "identifier": "GCF_002108605.1", "organism": "Neisseria animaloris", "title": "Neisseria animaloris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Wadsworth Center / NYSDOH", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002108605.1", "bioproject": "PRJNA224116", "biosample": "SAMN06212707", "wgs_master": "MTBN00000000.1", "refseq_category": "na", "taxid": "326522", "species_taxid": "326522", "organism_name": "Neisseria animaloris", "infraspecific_name": "strain=DSM 21642", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/04/24", "asm_name": "ASM210860v1", "asm_submitter": "Wadsworth Center / NYSDOH", "gbrs_paired_asm": "GCA_002108605.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/108/605/GCF_002108605.1_ASM210860v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2325539", "genome_size_ungapped": "2325539", "gc_percent": "49.500000", "replicon_count": "0", "scaffold_count": "48", "contig_count": "48", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002108605.1-RS_2024_05_17", "annotation_date": "2024-05-17", "total_gene_count": "2235", "protein_coding_gene_count": "2139", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-04-24", "dateModified": "2017-04-24", "datePublished": "2017-04-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Neisseria animaloris" ], "sample_taxid": [ "326522" ], "sample_host_organism": [ "missing" ], "sample_host_organism_id": [], "sample_host_disease": [ "missing" ], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.657 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)": "2325539", "Number of Sequences": "48", "Longest Sequences (bp)": "568283", "N50 (bp)": "239661", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.3", "Number of CDSs": "2129", "Average Protein Length": "306.2", "Coding Ratio (%)": "84.1", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Neisseria animaloris", "strain": "strain=DSM 21642", "accession": "GCA_002108605.1", "taxid": 326522, "species_taxid": 326522, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 758, "total_fragments": 759, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Neisseria animaloris", "strain": "strain=NCTC12228", "accession": "GCA_900637855.1", "taxid": 326522, "species_taxid": 326522, "relation_to_type": "type", "validated": true, "ani": 99.9969, "matched_fragments": 758, "total_fragments": 759, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Neisseria dumasiana", "strain": "strain=93087", "accession": "GCA_002108505.1", "taxid": 1931275, "species_taxid": 1931275, "relation_to_type": "type", "validated": true, "ani": 87.1151, "matched_fragments": 468, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria dumasiana", "strain": "strain=LMG 30012", "accession": "GCA_022870885.1", "taxid": 1931275, "species_taxid": 1931275, "relation_to_type": "type", "validated": true, "ani": 86.9909, "matched_fragments": 474, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria zoodegmatis", "strain": "strain=NCTC12230", "accession": "GCA_900187305.1", "taxid": 326523, "species_taxid": 326523, "relation_to_type": "type", "validated": true, "ani": 86.1831, "matched_fragments": 475, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria zoodegmatis", "strain": "strain=DSM 21643", "accession": "GCA_002108575.1", "taxid": 326523, "species_taxid": 326523, "relation_to_type": "type", "validated": true, "ani": 86.0832, "matched_fragments": 469, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria weaveri", "strain": "strain=LMG 5135", "accession": "GCA_000224255.2", "taxid": 28091, "species_taxid": 28091, "relation_to_type": "type", "validated": true, "ani": 83.8606, "matched_fragments": 345, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Uruburuella testudinis", "strain": "strain=CCUG 63373m", "accession": "GCA_022870865.1", "taxid": 1282863, "species_taxid": 1282863, "relation_to_type": "type", "validated": true, "ani": 79.6312, "matched_fragments": 409, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Uruburuella suis", "strain": "strain=DSM 17474", "accession": "GCA_004341385.1", "taxid": 252130, "species_taxid": 252130, "relation_to_type": "type", "validated": true, "ani": 79.3029, "matched_fragments": 380, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kingella potus", "strain": "strain=NCTC13336", "accession": "GCA_900451175.1", "taxid": 265175, "species_taxid": 265175, "relation_to_type": "type", "validated": true, "ani": 78.8407, "matched_fragments": 285, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria cinerea", "strain": "strain=NCTC10294", "accession": "GCA_900475315.1", "taxid": 483, "species_taxid": 483, "relation_to_type": "type", "validated": true, "ani": 78.8173, "matched_fragments": 250, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kingella potus", "strain": "strain=3/SID/1128", "accession": "GCA_022870985.1", "taxid": 265175, "species_taxid": 265175, "relation_to_type": "type", "validated": true, "ani": 78.7968, "matched_fragments": 286, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria flavescens", "strain": "strain=ATCC 13120", "accession": "GCA_005221285.1", "taxid": 484, "species_taxid": 484, "relation_to_type": "type", "validated": true, "ani": 78.5667, "matched_fragments": 305, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria flavescens", "strain": "strain=NCTC8263", "accession": "GCA_900453805.1", "taxid": 484, "species_taxid": 484, "relation_to_type": "type", "validated": true, "ani": 78.5012, "matched_fragments": 308, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900637855.1", "gtdb_species": "s__Neisseria animaloris", "ani": 99.9969, "matched_fragments": 758, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.59", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_002108505.1", "gtdb_species": "s__Neisseria dumasiana", "ani": 87.1637, "matched_fragments": 467, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.54", "min_intra_species_ani": "97.26", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900187305.1", "gtdb_species": "s__Neisseria zoodegmatis", "ani": 86.2286, "matched_fragments": 473, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "96.60", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900638685.1", "gtdb_species": "s__Neisseria weaveri", "ani": 83.8288, "matched_fragments": 350, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.19", "min_intra_species_ani": "98.86", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_900636765.1", "gtdb_species": "s__Neisseria canis", "ani": 82.9359, "matched_fragments": 337, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014055005.1", "gtdb_species": "s__Neisseria dentiae", "ani": 81.2757, "matched_fragments": 435, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014297595.1", "gtdb_species": "s__Neisseria musculi", "ani": 79.8187, "matched_fragments": 415, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.59", "min_intra_species_ani": "98.59", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900636515.1", "gtdb_species": "s__Neisseria animalis", "ani": 79.2658, "matched_fragments": 301, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000193735.1", "gtdb_species": "s__Neisseria sicca_E", "ani": 79.1936, "matched_fragments": 279, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "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_005886145.1", "gtdb_species": "s__Neisseria sp000090875", "ani": 79.1893, "matched_fragments": 351, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "97.41", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_008807015.1", "gtdb_species": "s__Neisseria zalophi", "ani": 79.024, "matched_fragments": 327, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "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_000952795.1", "gtdb_species": "s__Neisseria sp000952795", "ani": 78.9947, "matched_fragments": 296, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 96.4916, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "96.69", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000193795.1", "gtdb_species": "s__Neisseria lactamica_A", "ani": 78.9134, "matched_fragments": 253, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "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_003044645.1", "gtdb_species": "s__Neisseria subflava_B", "ani": 78.5779, "matched_fragments": 288, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.654, "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_001618085.1", "gtdb_species": "s__Neisseria flavescens_C", "ani": 78.5647, "matched_fragments": 288, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.4709, "mean_intra_species_ani": "96.21", "min_intra_species_ani": "96.21", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005221285.1", "gtdb_species": "s__Neisseria flavescens", "ani": 78.5117, "matched_fragments": 305, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "96.65", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.93", "num_clustered_genomes": 6, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.086, "cell_length": -0.056, "doubling_h": -0.218, "growth_tmp": 35.0, "optimum_tmp": 20.0, "optimum_ph": 7.0, "genome_size": 2320088.203, "gc_content": 51.719, "coding_genes": 2137.057, "rRNA16S_genes": 4.014, "tRNA_genes": 58.021, "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": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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": [ "Neisseria", "animaloris" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }