{ "type": "genome", "identifier": "GCF_006716085.1", "organism": "Leucobacter komagatae", "title": "Leucobacter komagatae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006716085.1", "bioproject": "PRJNA224116", "biosample": "SAMN11512024", "wgs_master": "VFON00000000.1", "refseq_category": "reference genome", "taxid": "55969", "species_taxid": "55969", "organism_name": "Leucobacter komagatae", "infraspecific_name": "strain=DSM 8803", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/08", "asm_name": "ASM671608v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_006716085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/716/085/GCF_006716085.1_ASM671608v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3752337", "genome_size_ungapped": "3752337", "gc_percent": "66.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006716085.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "3409", "protein_coding_gene_count": "3329", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-07-08", "dateModified": "2019-07-08", "datePublished": "2019-07-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Leucobacter komagatae" ], "sample_taxid": [ "55969" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.031 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)": "3752337", "Number of Sequences": "2", "Longest Sequences (bp)": "3292530", "N50 (bp)": "3292530", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.6", "Number of CDSs": "3410", "Average Protein Length": "334.4", "Coding Ratio (%)": "91.2", "Number of rRNAs": "9", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Leucobacter komagatae", "strain": "strain=DSM 8803", "accession": "GCA_006716085.1", "taxid": 55969, "species_taxid": 55969, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1246, "total_fragments": 1250, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Leucobacter aridicollis", "strain": "strain=DSM 17380", "accession": "GCA_013409595.1", "taxid": 283878, "species_taxid": 283878, "relation_to_type": "type", "validated": true, "ani": 86.7617, "matched_fragments": 887, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter aridicollis", "strain": "strain=L-9", "accession": "GCA_016758215.1", "taxid": 283878, "species_taxid": 283878, "relation_to_type": "type", "validated": true, "ani": 86.6847, "matched_fragments": 870, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter chironomi", "strain": "strain=DSM 19883", "accession": "GCA_000421845.1", "taxid": 491918, "species_taxid": 491918, "relation_to_type": "type", "validated": true, "ani": 80.6031, "matched_fragments": 439, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter muris", "strain": "strain=DSM 101948", "accession": "GCA_004028235.1", "taxid": 1935379, "species_taxid": 1935379, "relation_to_type": "type", "validated": true, "ani": 80.3057, "matched_fragments": 459, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter ruminantium", "strain": "strain=A2", "accession": "GCA_017565705.1", "taxid": 1289170, "species_taxid": 1289170, "relation_to_type": "type", "validated": true, "ani": 80.2028, "matched_fragments": 431, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter luti", "strain": "strain=RF6", "accession": "GCA_016758235.1", "taxid": 340320, "species_taxid": 340320, "relation_to_type": "suspected-type", "validated": true, "ani": 80.0339, "matched_fragments": 472, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter luti", "strain": "strain=RF6", "accession": "GCA_004217175.1", "taxid": 340320, "species_taxid": 340320, "relation_to_type": "suspected-type", "validated": true, "ani": 79.9795, "matched_fragments": 468, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter zeae", "strain": "strain=CC-MF41", "accession": "GCA_016758175.1", "taxid": 1257004, "species_taxid": 1257004, "relation_to_type": "type", "validated": true, "ani": 79.937, "matched_fragments": 457, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter chromiisoli", "strain": "strain=CSA1", "accession": "GCA_016522505.1", "taxid": 2796471, "species_taxid": 2796471, "relation_to_type": "type", "validated": true, "ani": 79.9221, "matched_fragments": 412, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter soli", "strain": "strain=CIP 111803", "accession": "GCA_910593785.1", "taxid": 2812850, "species_taxid": 2812850, "relation_to_type": "type", "validated": true, "ani": 79.4816, "matched_fragments": 373, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces marinus", "strain": "strain=DSM 26151", "accession": "GCA_021442325.1", "taxid": 1389020, "species_taxid": 1389020, "relation_to_type": "type", "validated": true, "ani": 78.0604, "matched_fragments": 284, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces mariniharenae", "strain": "strain=NEAU-184", "accession": "GCA_008122505.1", "taxid": 2604423, "species_taxid": 2604423, "relation_to_type": "type", "validated": true, "ani": 77.8823, "matched_fragments": 306, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leucobacter chinensis", "strain": "strain=NC76-1", "accession": "GCA_019049105.1", "taxid": 2851010, "species_taxid": 2851010, "relation_to_type": "type", "validated": true, "ani": 77.6487, "matched_fragments": 228, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium invictum", "strain": "strain=DSM 19600", "accession": "GCA_023155715.1", "taxid": 515415, "species_taxid": 515415, "relation_to_type": "type", "validated": true, "ani": 77.4295, "matched_fragments": 230, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006716085.1", "gtdb_species": "s__Leucobacter komagatae", "ani": 100.0, "matched_fragments": 1247, "total_fragments": 1250, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leucobacter", "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": "conclusive" }, { "accession": "GCF_013409595.1", "gtdb_species": "s__Leucobacter aridicollis", "ani": 86.7761, "matched_fragments": 887, "total_fragments": 1250, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leucobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", "min_intra_species_ani": "96.99", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001482305.1", "gtdb_species": "s__Leucobacter sp001482305", "ani": 82.0231, "matched_fragments": 667, "total_fragments": 1250, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leucobacter", "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": "-" }, { 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