{ "type": "genome", "identifier": "GCF_015070875.1", "organism": "Ramlibacter pallidus", "title": "Ramlibacter pallidus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Dongguk University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_015070875.1", "bioproject": "PRJNA224116", "biosample": "SAMN16454033", "wgs_master": "JADDIV000000000.1", "refseq_category": "reference genome", "taxid": "2780087", "species_taxid": "2780087", "organism_name": "Ramlibacter pallidus", "infraspecific_name": "strain=HM2", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/28", "asm_name": "ASM1507087v1", "asm_submitter": "Dongguk University", "gbrs_paired_asm": "GCA_015070875.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/015/070/875/GCF_015070875.1_ASM1507087v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4310278", "genome_size_ungapped": "4310179", "gc_percent": "70.000000", "replicon_count": "0", "scaffold_count": "6", "contig_count": "6", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_015070875.1-RS_2024_07_08", "annotation_date": "2024-07-08", "total_gene_count": "4281", "protein_coding_gene_count": "4215", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-28", "dateModified": "2020-10-28", "datePublished": "2020-10-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Ramlibacter pallidus" ], "sample_taxid": [ "2780087" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Jeju Island" ], "sample_host_location_id": [], "data_size": "1.153 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)": "4310278", "Number of Sequences": "6", "Longest Sequences (bp)": "929898", "N50 (bp)": "821002", "Gap Ratio (%)": "0.002297", "GCcontent (%)": "69.9", "Number of CDSs": "4254", "Average Protein Length": "316.7", "Coding Ratio (%)": "93.8", "Number of rRNAs": "6", "Number of tRNAs": "45", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ramlibacter monticola", "strain": "strain=KACC 19175", "accession": "GCA_016722785.1", "taxid": 1926872, "species_taxid": 1926872, "relation_to_type": "type", "validated": true, "ani": 84.1306, "matched_fragments": 991, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter alkalitolerans", "strain": "strain=KACC 19305", "accession": "GCA_016722765.1", "taxid": 2039631, "species_taxid": 2039631, "relation_to_type": "type", "validated": true, "ani": 84.1008, "matched_fragments": 996, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter agri", "strain": "strain=G-1-2-2", "accession": "GCA_012927085.1", "taxid": 2728837, "species_taxid": 2728837, "relation_to_type": "type", "validated": true, "ani": 83.9412, "matched_fragments": 986, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter humi", "strain": "strain=18x22-1", "accession": "GCA_004681975.1", "taxid": 2530451, "species_taxid": 2530451, "relation_to_type": "type", "validated": true, "ani": 83.1939, "matched_fragments": 847, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter tataouinensis", "strain": "strain=TTB310", "accession": "GCA_000215705.1", "taxid": 94132, "species_taxid": 94132, "relation_to_type": "type", "validated": true, "ani": 83.0782, "matched_fragments": 853, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter henchirensis", "strain": "strain=DSM 14656", "accession": "GCA_004682015.1", "taxid": 204072, "species_taxid": 204072, "relation_to_type": "type", "validated": true, "ani": 82.8299, "matched_fragments": 834, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter pinisoli", "strain": "strain=MAH-25", "accession": "GCA_009758015.1", "taxid": 2682844, "species_taxid": 2682844, "relation_to_type": "type", "validated": true, "ani": 82.7049, "matched_fragments": 882, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter algicola", "strain": "strain=CrO1", "accession": "GCA_016641735.1", "taxid": 2795217, "species_taxid": 2795217, "relation_to_type": "type", "validated": true, "ani": 82.5462, "matched_fragments": 836, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter aquaticus", "strain": "strain=LMG 30558", "accession": "GCA_015159745.1", "taxid": 2780094, "species_taxid": 2780094, "relation_to_type": "type", "validated": true, "ani": 82.5298, "matched_fragments": 712, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga crocea", "strain": "strain=BA0156", "accession": "GCA_011388215.1", "taxid": 2716225, "species_taxid": 2716225, "relation_to_type": "type", "validated": true, "ani": 80.9746, "matched_fragments": 672, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Melaminivora alkalimesophila", "strain": "strain=CY1", "accession": "GCA_000282995.1", "taxid": 1165852, 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_013087525.1", "gtdb_species": "s__Ramlibacter sp013087525", "ani": 85.8261, "matched_fragments": 1036, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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": "GCA_004144865.1", "gtdb_species": "s__Ramlibacter sp004144865", "ani": 85.394, "matched_fragments": 960, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": 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1, "status": "-" }, { "accession": "GCF_016654015.1", "gtdb_species": "s__Ramlibacter ginsenosidimutans", "ani": 84.0551, "matched_fragments": 954, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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": "-" }, { "accession": "GCF_012927085.1", "gtdb_species": "s__Ramlibacter sp012927085", "ani": 83.9454, "matched_fragments": 984, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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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