{ "type": "genome", "identifier": "GCA_018365915.1", "organism": "Collinsella intestinalis", "title": "Collinsella intestinalis", "description": "derived from metagenome; incomplete metagenome", "data type": "Genome sequencing and assembly", "organization": "University of California, Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018365915.1", "bioproject": "PRJNA698986", "biosample": "SAMN17800881", "wgs_master": "JAGZJA000000000.1", "refseq_category": "na", "taxid": "147207", "species_taxid": "147207", "organism_name": "Collinsella intestinalis", "infraspecific_name": "", "isolate": "L3_128_245G1_dasL3_128_245G1_concoct_49", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/16", "asm_name": "ASM1836591v1", "submitter": "University of California, Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/365/915/GCA_018365915.1_ASM1836591v1", "excluded_from_refseq": "derived from metagenome; incomplete 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": [ "Collinsella intestinalis" ], "sample_taxid": [ "147207" ], "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": "0.530 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": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1885274", "Number of Sequences": "19", "Longest Sequences (bp)": "471379", "N50 (bp)": "231343", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.3", "Number of CDSs": "1619", "Average Protein Length": "337.3", "Coding Ratio (%)": "86.9", "Number of rRNAs": "0", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Collinsella intestinalis", "strain": "strain=DSM 13280", "accession": "GCA_000156175.1", "taxid": 147207, "species_taxid": 147207, "relation_to_type": "suspected-type", "validated": true, "ani": 97.3765, "matched_fragments": 530, "total_fragments": 620, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Collinsella stercoris", "strain": "strain=DSM 13279", "accession": "GCA_000156215.1", "taxid": 147206, "species_taxid": 147206, "relation_to_type": "type", "validated": true, "ani": 83.9484, "matched_fragments": 412, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella stercoris", "strain": "strain=DSM 13279", "accession": "GCA_025149625.1", "taxid": 147206, "species_taxid": 147206, "relation_to_type": "type", "validated": true, "ani": 83.9261, "matched_fragments": 419, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella phocaeensis", "strain": "strain=Marseille-P3245", "accession": "GCA_900119895.1", "taxid": 1871016, "species_taxid": 1871016, "relation_to_type": "type", "validated": true, "ani": 82.1298, "matched_fragments": 311, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella provencensis", "strain": "strain=Marseille-P3740", "accession": "GCA_900199705.1", "taxid": 1937461, "species_taxid": 1937461, "relation_to_type": "type", "validated": true, "ani": 81.2333, "matched_fragments": 247, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella tanakaei", "strain": "strain=YIT 12063", "accession": "GCA_000225705.1", "taxid": 626935, "species_taxid": 626935, "relation_to_type": "suspected-type", "validated": true, "ani": 80.6946, "matched_fragments": 264, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enorma burkinafasonensis", "strain": "strain=Marseille-P9525", "accession": "GCA_902150035.1", "taxid": 2590867, "species_taxid": 2590867, "relation_to_type": "type", "validated": true, "ani": 79.9972, "matched_fragments": 264, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enorma timonensis", "strain": "strain=GD5", "accession": "GCA_000321165.1", "taxid": 1232436, "species_taxid": 1232436, "relation_to_type": "type", "validated": true, "ani": 79.6204, "matched_fragments": 245, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella vaginalis", "strain": "strain=Marseille-P2666", "accession": "GCA_900176655.1", "taxid": 1870987, "species_taxid": 1870987, "relation_to_type": "type", "validated": true, "ani": 79.3145, "matched_fragments": 226, "total_fragments": 620, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000156175.1", "gtdb_species": "s__Collinsella intestinalis", "ani": 97.3765, "matched_fragments": 530, "total_fragments": 620, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.88", "min_intra_species_ani": "95.17", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 15, "status": "conclusive" }, { "accession": "GCA_900551665.1", 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