{ "type": "genome", "identifier": "GCA_018371635.1", "organism": "Neisseria sp.", "title": "Neisseria sp.", "description": "contaminated; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of California, Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018371635.1", "bioproject": "PRJNA698986", "biosample": "SAMN17801599", "wgs_master": "JAHAKQ000000000.1", "refseq_category": "na", "taxid": "192066", "species_taxid": "192066", "organism_name": "Neisseria sp.", "infraspecific_name": "", "isolate": "L2_023_000G1_dasL2_023_000G1_concoct_93", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/16", "asm_name": "ASM1837163v1", "submitter": "University of California, Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/371/635/GCA_018371635.1_ASM1837163v1", "excluded_from_refseq": "contaminated; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-16", "dateModified": "2021-05-16", "datePublished": "2021-05-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Neisseria sp." ], "sample_taxid": [ "192066" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Pittsburgh, Magee-Womens Hospital of UPMC" ], "sample_host_location_id": [], "data_size": "0.667 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.29, "contamination": 0.52, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2349724", "Number of Sequences": "551", "Longest Sequences (bp)": "43287", "N50 (bp)": "5731", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "51.3", "Number of CDSs": "1837", "Average Protein Length": "279.8", "Coding Ratio (%)": "65.6", "Number of rRNAs": "0", "Number of tRNAs": "37", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Morococcus cerebrosus", "strain": "strain=CIP 81.93", "accession": "GCA_022749515.1", "taxid": 1056807, "species_taxid": 1056807, "relation_to_type": "type", "validated": true, "ani": 94.449, "matched_fragments": 436, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Morococcus cerebrosus", "strain": "strain=CIP 81.93", "accession": "GCA_000813705.1", "taxid": 1056807, "species_taxid": 1056807, "relation_to_type": "type", "validated": true, "ani": 94.3233, "matched_fragments": 427, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria sicca", "strain": "strain=DSM 17713", "accession": "GCA_014054945.1", "taxid": 490, "species_taxid": 490, "relation_to_type": "suspected-type", "validated": true, "ani": 92.4512, "matched_fragments": 415, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria sicca", "strain": "strain=ATCC 29256", "accession": "GCA_000174655.1", "taxid": 490, "species_taxid": 490, "relation_to_type": "suspected-type", "validated": true, "ani": 92.2369, "matched_fragments": 421, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria cinerea", "strain": "strain=CCUG 2156", "accession": "GCA_021025975.1", "taxid": 483, "species_taxid": 483, "relation_to_type": "type", "validated": true, "ani": 85.7897, "matched_fragments": 287, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria meningitidis", "strain": "strain=PartJ-Nmeningitidis-RM8376", "accession": "GCA_022869645.1", "taxid": 487, "species_taxid": 487, "relation_to_type": "type", "validated": true, "ani": 85.6037, "matched_fragments": 300, "total_fragments": 505, "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": 84.9985, "matched_fragments": 331, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria subflava", "strain": "strain=ATCC 49275", "accession": "GCA_005221305.1", "taxid": 28449, "species_taxid": 28449, "relation_to_type": "type", "validated": true, "ani": 84.9978, "matched_fragments": 327, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria perflava", "strain": "strain=CCUG 17915", "accession": "GCA_023472875.1", "taxid": 33053, "species_taxid": 33053, "relation_to_type": "suspected-type", "validated": true, "ani": 84.1932, "matched_fragments": 330, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria elongata subsp. elongata", "strain": "strain=ATCC 25295", "accession": "GCA_900113545.1", "taxid": 214482, "species_taxid": 495, "relation_to_type": "type", "validated": true, "ani": 83.5716, "matched_fragments": 259, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria elongata subsp. glycolytica", "strain": "strain=NCTC11050", "accession": "GCA_900475815.1", "taxid": 88719, "species_taxid": 495, "relation_to_type": "type", "validated": true, "ani": 83.5266, "matched_fragments": 255, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria elongata", "strain": "strain=NCTC10660", "accession": "GCA_900453895.1", "taxid": 495, "species_taxid": 495, "relation_to_type": "type", "validated": true, "ani": 83.4068, "matched_fragments": 267, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.29, "contamination": 0.52, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_003044445.1", "gtdb_species": "s__Neisseria mucosa_A", "ani": 95.8134, "matched_fragments": 459, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.2415, "mean_intra_species_ani": "96.25", "min_intra_species_ani": "95.81", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 15, "status": "inconclusive" }, { "accession": "GCF_017753665.1", "gtdb_species": "s__Neisseria sicca_D", "ani": 95.3676, "matched_fragments": 449, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.2415, "mean_intra_species_ani": "96.44", "min_intra_species_ani": "95.35", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "inconclusive" }, { "accession": "GCF_000193735.1", "gtdb_species": "s__Neisseria sicca_E", "ani": 94.5434, "matched_fragments": 457, "total_fragments": 505, "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_003044425.1", "gtdb_species": "s__Neisseria sicca_C", "ani": 94.4721, "matched_fragments": 463, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.8064, "mean_intra_species_ani": "96.78", "min_intra_species_ani": "96.77", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000952795.1", "gtdb_species": "s__Neisseria sp000952795", "ani": 94.44, "matched_fragments": 428, "total_fragments": 505, "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": "GCA_003028315.1", "gtdb_species": "s__Neisseria mucosa", "ani": 94.3671, "matched_fragments": 441, "total_fragments": 505, "gtdb_taxonomy": 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