{ "type": "genome", "identifier": "GCF_012641365.1", "organism": "Leeia aquatica", "title": "Leeia aquatica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Inha University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_012641365.1", "bioproject": "PRJNA224116", "biosample": "SAMN14563386", "wgs_master": "JABAIM000000000.1", "refseq_category": "reference genome", "taxid": "2725557", "species_taxid": "2725557", "organism_name": "Leeia aquatica", "infraspecific_name": "strain=IMCC25680", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/21", "asm_name": "ASM1264136v1", "asm_submitter": "Inha University", "gbrs_paired_asm": "GCA_012641365.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/012/641/365/GCF_012641365.1_ASM1264136v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3556396", "genome_size_ungapped": "3556396", "gc_percent": "60.500000", "replicon_count": "0", "scaffold_count": "13", "contig_count": "13", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_012641365.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "3537", "protein_coding_gene_count": "3449", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-04-21", "dateModified": "2020-04-21", "datePublished": "2020-04-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Leeia aquatica" ], "sample_taxid": [ "2725557" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea:Chungju Lake" ], "sample_host_location_id": [], "data_size": "0.993 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)": "3556396", "Number of Sequences": "13", "Longest Sequences (bp)": "1780005", "N50 (bp)": "1780005", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.7", "Number of CDSs": "3461", "Average Protein Length": "313.2", "Coding Ratio (%)": "91.4", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Leeia aquatica", "strain": "strain=IMCC25680", "accession": "GCA_012641365.1", "taxid": 2725557, "species_taxid": 2725557, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1179, "total_fragments": 1179, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rivicola pingtungensis", "strain": "strain=DSM 29661", "accession": "GCA_003201855.1", "taxid": 1054498, "species_taxid": 1054498, "relation_to_type": "type", "validated": true, "ani": 77.7166, "matched_fragments": 207, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinimonas koreensis", "strain": "strain=DSM 17726", "accession": "GCA_000428465.1", "taxid": 356302, "species_taxid": 356302, "relation_to_type": "type", "validated": true, "ani": 77.5774, "matched_fragments": 215, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium violaceum", "strain": "strain=ATCC 12472", "accession": "GCA_000007705.1", "taxid": 536, "species_taxid": 536, "relation_to_type": "type", "validated": true, "ani": 77.551, "matched_fragments": 220, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium amazonense", "strain": "strain=DSM 26508", "accession": "GCA_001855565.1", "taxid": 1382803, "species_taxid": 1382803, "relation_to_type": "type", "validated": true, "ani": 77.5108, "matched_fragments": 190, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium sinusclupearum", "strain": "strain=MWU13-2610", "accession": "GCA_002902845.1", "taxid": 2077146, "species_taxid": 2077146, "relation_to_type": "type", "validated": true, "ani": 77.5064, "matched_fragments": 193, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Andreprevotia lacus", "strain": "strain=DSM 23236", "accession": "GCA_900176275.1", "taxid": 1121000, "species_taxid": 1121000, "relation_to_type": "type", "validated": true, "ani": 77.4865, "matched_fragments": 201, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium aquaticum", "strain": "strain=DSM 19852", "accession": "GCA_021129195.1", "taxid": 467180, "species_taxid": 467180, "relation_to_type": "type", "validated": true, "ani": 77.4626, "matched_fragments": 210, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vogesella fluminis", "strain": "strain=KCTC 23713", "accession": "GCA_014652335.1", "taxid": 1069161, "species_taxid": 1069161, "relation_to_type": "type", "validated": true, "ani": 77.4218, "matched_fragments": 208, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium piscinae", "strain": "strain=DSM 23278", "accession": "GCA_021129175.1", "taxid": 686831, "species_taxid": 686831, "relation_to_type": "type", "validated": true, "ani": 77.381, "matched_fragments": 199, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium alticapitis", "strain": "strain=MWU14-2602", "accession": "GCA_002924365.1", "taxid": 2073169, "species_taxid": 2073169, "relation_to_type": "type", "validated": true, "ani": 77.3279, "matched_fragments": 192, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leeia oryzae", "strain": "strain=DSM 17879", "accession": "GCA_000376945.1", "taxid": 356662, "species_taxid": 356662, "relation_to_type": "type", "validated": true, "ani": 77.3263, "matched_fragments": 233, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinimonas taiwanensis", "strain": "strain=DSM 18899", "accession": "GCA_900119825.1", "taxid": 240412, "species_taxid": 240412, "relation_to_type": "type", "validated": true, "ani": 77.3099, "matched_fragments": 182, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvimonas iriomotensis", "strain": "strain=CGMCC 1.8859", "accession": "GCA_014645535.1", "taxid": 449662, "species_taxid": 449662, "relation_to_type": "type", "validated": true, "ani": 77.2294, "matched_fragments": 149, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gulbenkiania indica", "strain": "strain=DSM 17901", "accession": "GCA_001517245.1", "taxid": 375574, "species_taxid": 375574, "relation_to_type": "type", "validated": true, "ani": 77.2072, "matched_fragments": 158, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gulbenkiania indica", "strain": "strain=DSM 17901", "accession": "GCA_001418035.1", "taxid": 375574, "species_taxid": 375574, "relation_to_type": "type", "validated": true, "ani": 77.1729, "matched_fragments": 160, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ralstonia pseudosolanacearum", "strain": "strain=LMG 9673", "accession": "GCA_919586305.1", "taxid": 1310165, "species_taxid": 1310165, "relation_to_type": "type", "validated": true, "ani": 77.1365, "matched_fragments": 140, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium sphagni", "strain": "strain=IIBBL 14B-1", "accession": "GCA_001855555.1", "taxid": 1903179, "species_taxid": 1903179, "relation_to_type": "type", "validated": true, "ani": 77.0568, "matched_fragments": 200, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum camelliae", "strain": "strain=WT00C", "accession": "GCA_001929405.1", "taxid": 1892903, "species_taxid": 1892903, "relation_to_type": "type", "validated": true, "ani": 76.868, "matched_fragments": 156, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum aridicola", "strain": "strain=NCCP-691", "accession": "GCA_019656455.1", "taxid": 2849687, "species_taxid": 2849687, "relation_to_type": "type", "validated": true, "ani": 76.8574, "matched_fragments": 107, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum rubrisubalbicans", "strain": "strain=NBRC 102523", "accession": "GCA_001591225.1", "taxid": 80842, "species_taxid": 80842, "relation_to_type": "type", "validated": true, "ani": 76.6918, "matched_fragments": 138, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum rubrisubalbicans", "strain": "strain=DSM 11543", "accession": "GCA_003719195.1", "taxid": 80842, "species_taxid": 80842, "relation_to_type": "type", "validated": true, "ani": 76.6707, "matched_fragments": 140, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=DSM 26916", "accession": "GCA_003663955.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 76.5935, "matched_fragments": 89, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella aquatica", "strain": "strain=FT127W", "accession": "GCA_009857595.1", "taxid": 2660641, "species_taxid": 2660641, "relation_to_type": "type", "validated": true, "ani": 76.5867, "matched_fragments": 166, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=BSN1", "accession": "GCA_003865015.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 76.551, "matched_fragments": 92, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rugamonas fusca", "strain": "strain=FT3S", "accession": "GCA_014042365.1", "taxid": 2758568, "species_taxid": 2758568, "relation_to_type": "type", "validated": true, "ani": 76.5228, "matched_fragments": 163, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Natronospirillum operosum", "strain": "strain=G-116", "accession": "GCA_004768465.1", "taxid": 2759953, "species_taxid": 2759953, "relation_to_type": "type", "validated": true, "ani": 75.9825, "matched_fragments": 52, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sihuiensis", "strain": "strain=KCTC 32246", "accession": "GCA_900106015.1", "taxid": 1274359, "species_taxid": 1274359, "relation_to_type": "type", "validated": true, "ani": 75.5882, "matched_fragments": 98, "total_fragments": 1179, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_012641365.1", "gtdb_species": "s__Leeia aquatica", "ani": 100.0, "matched_fragments": 1179, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Leeiaceae;g__Leeia", "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_003201855.1", "gtdb_species": "s__Rivicola pingtungensis", "ani": 77.7329, "matched_fragments": 206, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Aquaspirillaceae;g__Rivicola", "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_008275125.1", "gtdb_species": "s__Chromobacterium paludis", "ani": 77.6795, "matched_fragments": 210, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "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_902829295.1", "gtdb_species": "s__Vogesella oryzae", "ani": 77.6115, "matched_fragments": 207, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Vogesella", "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_000428465.1", "gtdb_species": "s__Chitinimonas koreensis", "ani": 77.5634, "matched_fragments": 216, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinimonadaceae;g__Chitinimonas", "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_001855565.1", "gtdb_species": "s__Chromobacterium amazonense", "ani": 77.5247, "matched_fragments": 189, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.81", "min_intra_species_ani": "97.67", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_016428945.1", "gtdb_species": "s__Chromobacterium sp016428945", "ani": 77.5179, "matched_fragments": 196, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000376945.1", "gtdb_species": "s__Leeia oryzae", "ani": 77.3263, "matched_fragments": 233, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Leeiaceae;g__Leeia", "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_900119825.1", "gtdb_species": "s__Chitinimonas taiwanensis", "ani": 77.31, "matched_fragments": 182, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinimonadaceae;g__Chitinimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.92", "min_intra_species_ani": "96.91", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014645535.1", "gtdb_species": "s__Silvimonas iriomotensis", "ani": 77.2303, "matched_fragments": 148, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Silvimonas", "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_001855555.1", "gtdb_species": "s__Chromobacterium sphagni", "ani": 77.0434, "matched_fragments": 201, "total_fragments": 1179, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Chromobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "99.33", "mean_intra_species_af": "0.93", 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