{ "type": "genome", "identifier": "GCF_900110345.1", "organism": "Amphibacillus marinus", "title": "Amphibacillus marinus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900110345.1", "bioproject": "PRJNA224116", "biosample": "SAMN04488134", "wgs_master": "FODJ00000000.1", "refseq_category": "reference genome", "taxid": "872970", "species_taxid": "872970", "organism_name": "Amphibacillus marinus", "infraspecific_name": "strain=CGMCC 1.10434", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/31", "asm_name": "IMG-taxon 2617270769 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900110345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/110/345/GCF_900110345.1_IMG-taxon_2617270769_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": "3468523", "genome_size_ungapped": "3467988", "gc_percent": "38.500000", "replicon_count": "0", "scaffold_count": "29", "contig_count": "29", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900110345.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "3350", "protein_coding_gene_count": "3269", "non_coding_gene_count": "59", "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": [ "Amphibacillus marinus" ], "sample_taxid": [ "872970" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.987 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)": "3468523", "Number of Sequences": "29", "Longest Sequences (bp)": "806647", "N50 (bp)": "227437", "Gap Ratio (%)": "0.015424", "GCcontent (%)": "38.6", "Number of CDSs": "3289", "Average Protein Length": "300.5", "Coding Ratio (%)": "85.5", "Number of rRNAs": "3", "Number of tRNAs": "45", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amphibacillus marinus", "strain": "strain=CGMCC 1.10434", "accession": "GCA_900110345.1", "taxid": 872970, 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90, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amphibacillus sediminis", "strain": "strain=NBRC 103570", "accession": "GCA_001552275.1", "taxid": 360185, "species_taxid": 360185, "relation_to_type": "type", "validated": true, "ani": 77.4944, "matched_fragments": 187, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amphibacillus xylanus", "strain": "strain=NBRC 15112", "accession": "GCA_000307165.1", "taxid": 1449, "species_taxid": 1449, "relation_to_type": "type", "validated": true, "ani": 77.1979, "matched_fragments": 95, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gracilibacillus suaedae", "strain": "strain=LD4P30", "accession": "GCA_017599345.1", "taxid": 2820273, "species_taxid": 2820273, "relation_to_type": "type", "validated": true, "ani": 77.1371, "matched_fragments": 61, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gracilibacillus massiliensis", "strain": "strain=Awa-1", "accession": "GCA_001458115.1", "taxid": 1564956, "species_taxid": 1564956, "relation_to_type": "type", "validated": true, "ani": 77.1053, "matched_fragments": 58, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraliobacillus zengyii", "strain": "strain=X-1125", "accession": "GCA_003268595.1", "taxid": 2213194, "species_taxid": 2213194, "relation_to_type": "type", "validated": true, "ani": 77.0445, "matched_fragments": 95, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraliobacillus sediminis", "strain": "strain=126C4", "accession": "GCA_003426055.1", "taxid": 1885916, "species_taxid": 1885916, "relation_to_type": "type", "validated": true, "ani": 76.6665, "matched_fragments": 65, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquibacillus saliphilus", "strain": "strain=KHM2", "accession": "GCA_020404745.1", "taxid": 1909422, "species_taxid": 1909422, "relation_to_type": "type", "validated": true, "ani": 76.6442, "matched_fragments": 58, "total_fragments": 1138, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900110345.1", "gtdb_species": "s__Amphibacillus_D marinus", "ani": 100.0, "matched_fragments": 1136, "total_fragments": 1138, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Amphibacillus_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": "conclusive" }, { "accession": "GCF_003315295.1", "gtdb_species": "s__Paraliobacillus ryukyuensis", "ani": 78.0386, "matched_fragments": 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"spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Amphibacillus", "marinus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }