{ "type": "genome", "identifier": "GCF_900106955.1", "organism": "Aidingimonas halophila", "title": "Aidingimonas halophila", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900106955.1", "bioproject": "PRJNA224116", "biosample": "SAMN05443545", "wgs_master": "FNNI00000000.1", "refseq_category": "reference genome", "taxid": "574349", "species_taxid": "574349", "organism_name": "Aidingimonas halophila", "infraspecific_name": "strain=DSM 19219", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/22", "asm_name": "IMG-taxon 2693429859 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900106955.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/106/955/GCF_900106955.1_IMG-taxon_2693429859_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3886483", "genome_size_ungapped": "3886108", "gc_percent": "58.000000", "replicon_count": "0", "scaffold_count": "21", "contig_count": "21", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900106955.1-RS_2024_04_26", "annotation_date": "2024-04-26", "total_gene_count": "3659", "protein_coding_gene_count": "3551", "non_coding_gene_count": "62", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-22", "dateModified": "2016-10-22", "datePublished": "2016-10-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Aidingimonas halophila" ], "sample_taxid": [ "574349" ], "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": "1.101 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)": "3886483", "Number of Sequences": "21", "Longest Sequences (bp)": "699185", "N50 (bp)": "387745", "Gap Ratio (%)": "0.009649", "GCcontent (%)": "58.2", "Number of CDSs": "3628", "Average Protein Length": "322.1", "Coding Ratio (%)": "90.2", "Number of rRNAs": "3", "Number of tRNAs": "59", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aidingimonas halophila", "strain": "strain=DSM 19219", "accession": "GCA_900106955.1", "taxid": 574349, "species_taxid": 574349, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1284, "total_fragments": 1285, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aidingimonas halophila", "strain": "strain=KCTC 12885", "accession": "GCA_014651655.1", "taxid": 574349, "species_taxid": 574349, "relation_to_type": "type", "validated": true, "ani": 99.9911, "matched_fragments": 1270, "total_fragments": 1285, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aidingimonas lacisalsi", "strain": "strain=XHU 5135", "accession": "GCA_008079445.1", "taxid": 2604086, "species_taxid": 2604086, "relation_to_type": "type", "validated": true, "ani": 83.3021, "matched_fragments": 830, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas ventosae", "strain": "strain=CECT 5797", "accession": "GCA_004363555.1", "taxid": 229007, "species_taxid": 229007, "relation_to_type": "type", "validated": true, "ani": 78.3721, "matched_fragments": 298, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas qijiaojingensis", "strain": "strain=KCTC 22228", "accession": "GCA_014651875.1", "taxid": 980347, "species_taxid": 980347, "relation_to_type": "type", "validated": true, "ani": 78.2219, "matched_fragments": 385, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas taeanensis", "strain": "strain=BH539", "accession": "GCA_900100755.1", "taxid": 284577, "species_taxid": 284577, "relation_to_type": "type", "validated": true, "ani": 77.9899, "matched_fragments": 288, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lysinitropha", "strain": "strain=3(2)", "accession": "GCA_902500215.1", "taxid": 2607506, "species_taxid": 2607506, "relation_to_type": "type", "validated": true, "ani": 77.9779, "matched_fragments": 269, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas anticariensis", "strain": "strain=FP35", "accession": "GCA_000409775.1", "taxid": 258591, "species_taxid": 258591, "relation_to_type": "type", "validated": true, "ani": 77.9001, "matched_fragments": 362, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidoxydans", "strain": "strain=MCCC 1A11059", "accession": "GCA_017868775.1", "taxid": 2733484, "species_taxid": 2733484, "relation_to_type": "type", "validated": true, "ani": 77.8805, "matched_fragments": 302, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas anticariensis", "strain": "strain=DSM 16096", "accession": "GCA_000428505.1", "taxid": 258591, "species_taxid": 258591, "relation_to_type": "type", "validated": true, "ani": 77.8685, "matched_fragments": 355, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas alkalisoli", "strain": "strain=M5N1S17", "accession": "GCA_021412585.1", "taxid": 2907158, "species_taxid": 2907158, "relation_to_type": "type", "validated": true, "ani": 77.8613, "matched_fragments": 319, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas fontilapidosi", "strain": "strain=CECT 7341", "accession": "GCA_014192285.1", "taxid": 616675, "species_taxid": 616675, "relation_to_type": "type", "validated": true, "ani": 77.846, "matched_fragments": 275, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas icarae", "strain": "strain=D1-1", "accession": "GCA_009901955.1", "taxid": 2691040, "species_taxid": 2691040, "relation_to_type": "type", "validated": true, "ani": 77.8224, "matched_fragments": 251, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas pellis", "strain": "strain=L5", "accession": "GCA_008297955.1", "taxid": 2606936, "species_taxid": 2606936, "relation_to_type": "type", "validated": true, "ani": 77.781, "matched_fragments": 277, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas ethanolica", "strain": "strain=MCCC 1A11081", "accession": "GCA_021404305.1", "taxid": 2733486, "species_taxid": 2733486, "relation_to_type": "type", "validated": true, "ani": 77.781, "matched_fragments": 274, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas campisalis", "strain": "strain=A4", "accession": "GCA_022341425.1", "taxid": 74661, "species_taxid": 74661, "relation_to_type": "type", "validated": true, "ani": 77.7561, "matched_fragments": 275, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas bachuensis", "strain": "strain=DX6", "accession": "GCA_011742165.1", "taxid": 2717286, "species_taxid": 2717286, "relation_to_type": "type", "validated": true, "ani": 77.7457, "matched_fragments": 310, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas smyrnensis", "strain": "strain=AAD6", "accession": "GCA_000265245.2", "taxid": 720605, "species_taxid": 720605, "relation_to_type": "type", "validated": true, "ani": 77.7074, "matched_fragments": 300, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas xianhensis", "strain": "strain=CGMCC 1.6848", "accession": "GCA_900113605.1", "taxid": 442341, "species_taxid": 442341, "relation_to_type": "type", "validated": true, "ani": 77.6997, "matched_fragments": 283, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas zhangzhouensis", "strain": "strain=MCCC 1A11036", "accession": "GCA_021404465.1", "taxid": 2733481, "species_taxid": 2733481, 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77.3783, "matched_fragments": 127, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900106955.1", "gtdb_species": "s__Aidingimonas halophila", "ani": 100.0, "matched_fragments": 1284, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Aidingimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_008079445.1", "gtdb_species": "s__Aidingimonas lacisalsi", "ani": 83.3021, "matched_fragments": 830, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Aidingimonas", "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_004363555.1", "gtdb_species": "s__Halomonas ventosae", "ani": 78.3721, "matched_fragments": 298, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.59", "min_intra_species_ani": "95.59", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001971685.1", "gtdb_species": "s__Halomonas_B sp001971685", "ani": 78.2825, "matched_fragments": 338, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas_B", "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_014651875.1", "gtdb_species": "s__Halomonas_A qijiaojingensis", "ani": 78.2379, "matched_fragments": 387, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas_A", "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_003202205.1", "gtdb_species": "s__Halomonas sp003202205", "ani": 78.1715, "matched_fragments": 361, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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"status": "-" }, { "accession": "GCF_015992245.1", "gtdb_species": "s__Halomonas sp015992245", "ani": 77.7811, "matched_fragments": 307, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.35", "min_intra_species_ani": "99.35", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007989465.1", "gtdb_species": "s__Halomonas halophila", "ani": 77.7731, "matched_fragments": 301, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.43", "min_intra_species_ani": "97.59", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": 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