{ "type": "genome", "identifier": "GCF_009828115.1", "organism": "Allopontixanthobacter sediminis", "title": "Allopontixanthobacter sediminis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Zhejiang Sci-Tech University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009828115.1", "bioproject": "PRJNA224116", "biosample": "SAMN13631586", "wgs_master": "WTYL00000000.1", "refseq_category": "reference genome", "taxid": "1689985", "species_taxid": "1689985", "organism_name": "Allopontixanthobacter sediminis", "infraspecific_name": "strain=KCTC 42453", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/02", "asm_name": "ASM982811v1", "asm_submitter": "Zhejiang Sci-Tech University", "gbrs_paired_asm": "GCA_009828115.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/828/115/GCF_009828115.1_ASM982811v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3158912", "genome_size_ungapped": "3158912", "gc_percent": "61.500000", "replicon_count": "0", "scaffold_count": "6", "contig_count": "6", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009828115.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "3045", "protein_coding_gene_count": "2978", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-02", "dateModified": "2020-01-02", "datePublished": "2020-01-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Allopontixanthobacter sediminis" ], "sample_taxid": [ "1689985" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "0.886 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)": "3158912", "Number of Sequences": "6", "Longest Sequences (bp)": "1194408", "N50 (bp)": "1077472", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.5", "Number of CDSs": "2976", "Average Protein Length": "320.4", "Coding Ratio (%)": "90.6", "Number of rRNAs": "3", "Number of tRNAs": "43", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Allopontixanthobacter sediminis", "strain": "strain=KCTC 42453", "accession": "GCA_009828115.1", "taxid": 1689985, "species_taxid": 1689985, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1050, "total_fragments": 1050, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Allopontixanthobacter confluentis", "strain": "strain=KCTC 52259", "accession": "GCA_009827615.1", "taxid": 1849021, "species_taxid": 1849021, "relation_to_type": "type", "validated": true, "ani": 78.7715, "matched_fragments": 412, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter aerophilus", "strain": "strain=Ery1", "accession": "GCA_003581645.1", "taxid": 2306995, "species_taxid": 2306995, "relation_to_type": "type", "validated": true, "ani": 78.5693, "matched_fragments": 353, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontixanthobacter luteolus", "strain": "strain=SW-109", "accession": "GCA_009828095.1", "taxid": 295089, "species_taxid": 295089, "relation_to_type": "type", "validated": true, "ani": 78.4505, "matched_fragments": 334, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marensis", "strain": "strain=DSM 21428", "accession": "GCA_001461885.1", "taxid": 543877, "species_taxid": 543877, "relation_to_type": "type", "validated": true, "ani": 78.4388, "matched_fragments": 349, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marensis", "strain": "strain=KCTC 22370", "accession": "GCA_001028625.1", "taxid": 543877, "species_taxid": 543877, "relation_to_type": "type", "validated": true, "ani": 78.4026, "matched_fragments": 349, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania gaetbuli", "strain": "strain=DSM 16225", "accession": "GCA_009827315.1", "taxid": 266952, "species_taxid": 266952, "relation_to_type": "type", "validated": true, "ani": 78.3187, "matched_fragments": 344, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter litoralis", "strain": "strain=DSM 8509", "accession": "GCA_001719165.1", "taxid": 39960, "species_taxid": 39960, "relation_to_type": "type", "validated": true, "ani": 78.2943, "matched_fragments": 324, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania proteolytica", "strain": "strain=6B39", "accession": "GCA_019711565.1", "taxid": 2867239, "species_taxid": 2867239, "relation_to_type": "type", "validated": true, "ani": 78.2757, "matched_fragments": 362, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marinus", "strain": "strain=H32", "accession": "GCA_009827515.1", "taxid": 538382, "species_taxid": 538382, "relation_to_type": "type", "validated": true, "ani": 78.2602, "matched_fragments": 388, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella rigui", "strain": "strain=KCTC 42620", "accession": "GCA_003958625.1", "taxid": 1708790, "species_taxid": 1708790, "relation_to_type": "type", "validated": true, "ani": 78.2005, "matched_fragments": 314, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania gelatinilytica", "strain": "strain=1NDH1", "accession": "GCA_019711315.1", "taxid": 2867231, "species_taxid": 2867231, "relation_to_type": "type", "validated": true, "ani": 78.1286, "matched_fragments": 321, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter rhizovicinus", "strain": "strain=AY-3R", "accession": "GCA_004135625.1", "taxid": 2268576, "species_taxid": 2268576, "relation_to_type": "type", "validated": true, "ani": 78.0652, "matched_fragments": 341, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella amylolytica", "strain": "strain=NS1", "accession": "GCA_003626915.1", "taxid": 2338327, "species_taxid": 2338327, "relation_to_type": "type", "validated": true, "ani": 78.0071, "matched_fragments": 315, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania huizhouensis", "strain": "strain=YG19", "accession": "GCA_019711635.1", "taxid": 2867245, "species_taxid": 2867245, "relation_to_type": "type", "validated": true, "ani": 77.9715, "matched_fragments": 257, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontixanthobacter aquaemixtae", "strain": "strain=KCTC 52763", "accession": "GCA_009827395.1", "taxid": 1958940, "species_taxid": 1958940, "relation_to_type": "type", "validated": true, "ani": 77.9558, "matched_fragments": 287, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania soli", "strain": "strain=6D36", "accession": "GCA_015529805.1", "taxid": 2782568, "species_taxid": 2782568, "relation_to_type": "type", "validated": true, "ani": 77.9532, "matched_fragments": 299, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania qiaonensis", "strain": "strain=6D47A", "accession": "GCA_019711515.1", "taxid": 2867240, "species_taxid": 2867240, "relation_to_type": "type", "validated": true, "ani": 77.9338, "matched_fragments": 291, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium arvoryzae", "strain": "strain=KCTC 32422", "accession": "GCA_014652615.1", "taxid": 1256514, "species_taxid": 1256514, "relation_to_type": "type", "validated": true, "ani": 77.8506, "matched_fragments": 326, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Croceibacterium atlanticum", "strain": "strain=26DY36", "accession": "GCA_001008165.2", "taxid": 1267766, "species_taxid": 1267766, "relation_to_type": "type", "validated": true, "ani": 77.8283, "matched_fragments": 285, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Croceibacterium atlanticum", "strain": "strain=DSM 100738", "accession": "GCA_014199315.1", "taxid": 1267766, "species_taxid": 1267766, "relation_to_type": "type", "validated": true, "ani": 77.8017, "matched_fragments": 283, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontixanthobacter aestiaquae", "strain": "strain=KCTC 42006", "accession": "GCA_009827455.1", "taxid": 1509367, "species_taxid": 1509367, "relation_to_type": "type", "validated": true, "ani": 77.6151, "matched_fragments": 256, "total_fragments": 1050, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009828115.1", "gtdb_species": "s__Pseudopontixanthobacter_A sediminis", "ani": 100.0, "matched_fragments": 1050, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pseudopontixanthobacter_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": "conclusive" }, { "accession": "GCF_009827615.1", "gtdb_species": "s__Pseudopontixanthobacter_A confluentis", "ani": 78.7823, "matched_fragments": 412, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pseudopontixanthobacter_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", 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"num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_005884405.1", "gtdb_species": "s__Qipengyuania marisflavi", "ani": 78.3619, "matched_fragments": 308, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_009827315.1", "gtdb_species": "s__Qipengyuania gaetbuli", "ani": 78.3374, "matched_fragments": 344, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_009827515.1", "gtdb_species": "s__Pelagerythrobacter marinus", "ani": 78.2696, "matched_fragments": 387, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_016461955.1", "gtdb_species": "s__QFOP01 sp003248785", "ani": 78.2325, "matched_fragments": 323, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__QFOP01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "98.19", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { 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"GCF_012979275.1", "gtdb_species": "s__Pseudopontixanthobacter vadosimaris", "ani": 78.2003, "matched_fragments": 318, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pseudopontixanthobacter", "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_003958625.1", "gtdb_species": "s__Tsuneonella rigui", "ani": 78.1698, "matched_fragments": 316, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "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_900177715.1", "gtdb_species": "s__Erythrobacter xiamenensis", "ani": 78.141, "matched_fragments": 318, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_011047315.1", "gtdb_species": "s__Erythrobacter sp011047315", "ani": 78.0737, "matched_fragments": 358, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_000013005.1", "gtdb_species": "s__Altererythrobacter_D litoralis_A", "ani": 78.067, "matched_fragments": 339, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Altererythrobacter_D", "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_005434975.1", "gtdb_species": "s__Parerythrobacter lutipelagi", "ani": 78.0602, "matched_fragments": 318, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Parerythrobacter", "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_003626915.1", 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