{ "type": "genome", "identifier": "GCF_900002405.1", "organism": "Actinomyces succiniciruminis", "title": "Actinomyces succiniciruminis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WUR", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900002405.1", "bioproject": "PRJNA224116", "biosample": "SAMEA2537693", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1522002", "species_taxid": "1522002", "organism_name": "Actinomyces succiniciruminis", "infraspecific_name": "strain=AM4", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/12/22", "asm_name": "AAM4", "asm_submitter": "WUR", "gbrs_paired_asm": "GCA_900002405.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/002/405/GCF_900002405.1_AAM4", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3331270", "genome_size_ungapped": "3323497", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "90", "contig_count": "90", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900002405.1-RS_2024_04_26", "annotation_date": "2024-04-26", "total_gene_count": "2908", "protein_coding_gene_count": "2790", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-12-22", "dateModified": "2016-12-22", "datePublished": "2016-12-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomyces succiniciruminis" ], "sample_taxid": [ "1522002" ], "sample_host_organism": [ "Cow" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Netherlands" ], "sample_host_location_id": [], "data_size": "0.911 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)": "3331270", "Number of Sequences": "90", "Longest Sequences (bp)": "223495", "N50 (bp)": "69311", "Gap Ratio (%)": "0.233545", "GCcontent (%)": "69.3", "Number of CDSs": "2853", "Average Protein Length": "335.0", "Coding Ratio (%)": "86.1", "Number of rRNAs": "1", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinomyces succiniciruminis", "strain": "strain=AM4", "accession": "GCA_900002405.2", "taxid": 1522002, "species_taxid": 1522002, "relation_to_type": "type", "validated": true, "ani": 99.9999, "matched_fragments": 1064, "total_fragments": 1070, "ani_threshold": 95, "status": "conclusive" }, { 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"strain=DSM 43320", "accession": "GCA_000711965.1", "taxid": 1659, "species_taxid": 1659, "relation_to_type": "type", "validated": true, "ani": 81.3631, "matched_fragments": 570, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces dentalis", "strain": "strain=DSM 19115", "accession": "GCA_000429225.1", "taxid": 272548, "species_taxid": 272548, "relation_to_type": "type", "validated": true, "ani": 81.3256, "matched_fragments": 545, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces radicidentis", "strain": "strain=CCUG 36733", "accession": "GCA_001553565.1", "taxid": 111015, "species_taxid": 111015, "relation_to_type": "type", "validated": true, "ani": 80.8966, "matched_fragments": 509, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces denticolens", "strain": "strain=DSM 20671", "accession": "GCA_002072185.1", "taxid": 52767, "species_taxid": 52767, "relation_to_type": "type", "validated": true, "ani": 80.8385, "matched_fragments": 447, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces timonensis", "strain": "strain=7400942", "accession": "GCA_000295095.1", "taxid": 1288391, "species_taxid": 1288391, "relation_to_type": "type", "validated": true, "ani": 80.8309, "matched_fragments": 464, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces oris", "strain": "strain=FDAARGOS_1051", "accession": "GCA_016127955.1", "taxid": 544580, "species_taxid": 544580, "relation_to_type": "suspected-type", "validated": true, "ani": 80.6026, "matched_fragments": 484, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces marmotae", "strain": "strain=zg-325", "accession": "GCA_009829655.1", "taxid": 2737173, "species_taxid": 2737173, 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"matched_fragments": 186, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinotalea solisilvae", "strain": "strain=KACC 19191", "accession": "GCA_016464425.1", "taxid": 2072922, "species_taxid": 2072922, "relation_to_type": "type", "validated": true, "ani": 76.2914, "matched_fragments": 219, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900002405.1", "gtdb_species": "s__Actinomyces succiniciruminis", "ani": 99.9999, "matched_fragments": 1064, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 96.3414, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "98.26", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.86", 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"status": "-" }, { "accession": "GCF_009930875.1", "gtdb_species": "s__Actinomyces sp009930875", "ani": 87.0188, "matched_fragments": 799, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "98.69", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004102025.1", "gtdb_species": "s__Actinomyces qiguomingii", "ani": 85.3105, "matched_fragments": 825, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, 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