{ "type": "genome", "identifier": "GCF_900110425.1", "organism": "Salinihabitans flavidus", "title": "Salinihabitans flavidus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900110425.1", "bioproject": "PRJNA224116", "biosample": "SAMN04490248", "wgs_master": "FODS00000000.1", "refseq_category": "reference genome", "taxid": "569882", "species_taxid": "569882", "organism_name": "Salinihabitans flavidus", "infraspecific_name": "strain=DSM 27842", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/31", "asm_name": "IMG-taxon 2634166353 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900110425.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/110/425/GCF_900110425.1_IMG-taxon_2634166353_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": "4088599", "genome_size_ungapped": "4087084", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "86", "contig_count": "86", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900110425.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "4023", "protein_coding_gene_count": "3892", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-31", "dateModified": "2016-10-31", "datePublished": "2016-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Salinihabitans flavidus" ], "sample_taxid": [ "569882" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.141 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)": "4088599", "Number of Sequences": "86", "Longest Sequences (bp)": "389779", "N50 (bp)": "121722", "Gap Ratio (%)": "0.037054", "GCcontent (%)": "63.2", "Number of CDSs": "3872", "Average Protein Length": "310.4", "Coding Ratio (%)": "88.2", "Number of rRNAs": "9", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Salinihabitans flavidus", "strain": "strain=DSM 27842", "accession": "GCA_900110425.1", "taxid": 569882, 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"matched_fragments": 476, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobius aquimarinus", "strain": "strain=KMM 8518", "accession": "GCA_018219815.1", "taxid": 2785917, "species_taxid": 2785917, "relation_to_type": "type", "validated": true, "ani": 78.2528, "matched_fragments": 403, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseivivax lentus", "strain": "strain=DSM 29430", "accession": "GCA_900156805.1", "taxid": 633194, "species_taxid": 633194, "relation_to_type": "type", "validated": true, "ani": 78.1155, "matched_fragments": 397, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum tesquicola", "strain": "strain=A-36s", "accession": "GCA_024128855.1", "taxid": 540254, "species_taxid": 540254, "relation_to_type": "type", "validated": true, "ani": 78.0849, "matched_fragments": 361, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria sediminis", "strain": "strain=CAU 1488", "accession": "GCA_005938215.1", "taxid": 2583820, "species_taxid": 2583820, "relation_to_type": "type", "validated": true, "ani": 78.0746, "matched_fragments": 420, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius indicus", "strain": "strain=DSM 26383", "accession": "GCA_008728195.1", "taxid": 540747, "species_taxid": 540747, "relation_to_type": "type", "validated": true, "ani": 78.0113, "matched_fragments": 461, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius indicus", "strain": "strain=B108", "accession": "GCA_001441635.1", "taxid": 540747, "species_taxid": 540747, "relation_to_type": "type", "validated": true, "ani": 78.0028, "matched_fragments": 456, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger marinus", "strain": "strain=DSM 26424", "accession": "GCA_900100085.1", "taxid": 555512, "species_taxid": 555512, "relation_to_type": "type", "validated": true, "ani": 77.963, "matched_fragments": 431, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Antarcticimicrobium sediminis", "strain": "strain=S4J41", "accession": "GCA_004348975.1", "taxid": 2546227, "species_taxid": 2546227, "relation_to_type": "type", "validated": true, "ani": 77.9099, "matched_fragments": 451, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger profundus", "strain": "strain=CGMCC 1.12377", "accession": "GCA_014637265.1", "taxid": 1229727, "species_taxid": 1229727, "relation_to_type": "type", "validated": true, "ani": 77.8298, "matched_fragments": 377, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola antarcticus", "strain": "strain=Ar-45", "accession": "GCA_002786285.1", "taxid": 1247613, "species_taxid": 1247613, "relation_to_type": "type", "validated": true, "ani": 77.6936, "matched_fragments": 327, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseivivax isoporae", "strain": "strain=LMG 25204", "accession": "GCA_000521865.1", "taxid": 591206, "species_taxid": 591206, "relation_to_type": "type", "validated": true, "ani": 77.6754, "matched_fragments": 353, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter fulva", "strain": "strain=con5", "accession": "GCA_018798885.1", "taxid": 2840474, "species_taxid": 2840474, "relation_to_type": "type", "validated": true, "ani": 77.673, "matched_fragments": 312, "total_fragments": 1314, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibaca methylaminivorans", "strain": "strain=DSM 21219", "accession": "GCA_900156525.1", 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334, "total_fragments": 1314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__UBA7951", "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_000423645.1", "gtdb_species": "s__Sediminimonas qiaohouensis", "ani": 78.4828, "matched_fragments": 415, "total_fragments": 1314, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sediminimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.45", "min_intra_species_ani": "97.45", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014196965.1", "gtdb_species": "s__Actibacterium_A naphthalenivorans", "ani": 78.4184, "matched_fragments": 390, 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