{ "type": "genome", "identifier": "GCF_001590785.1", "organism": "Alkalihalobacillus trypoxylicola", "title": "Alkalihalobacillus trypoxylicola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "KRIBB", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001590785.1", "bioproject": "PRJNA224116", "biosample": "SAMN04515757", "wgs_master": "LTAO00000000.1", "refseq_category": "na", "taxid": "519424", "species_taxid": "519424", "organism_name": "Alkalihalobacillus trypoxylicola", "infraspecific_name": "strain=KCTC 13244", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/03/14", "asm_name": "ASM159078v1", "asm_submitter": "KRIBB", "gbrs_paired_asm": "GCA_001590785.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/590/785/GCF_001590785.1_ASM159078v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4347941", "genome_size_ungapped": "4346898", "gc_percent": "35.500000", "replicon_count": "0", "scaffold_count": "40", "contig_count": "40", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-01-26", "total_gene_count": "4153", "protein_coding_gene_count": "4035", "non_coding_gene_count": "80", "pubmed_id": "27174273" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-03-14", "dateModified": "2016-03-14", "datePublished": "2016-03-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Alkalihalobacillus trypoxylicola" ], "sample_taxid": [ "519424" ], "sample_host_organism": [ "Trypoxylus dichotomus septentrionalis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "NA" ], "sample_host_location_id": [], "data_size": "1.222 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4347941", "Number of Sequences": "40", "Longest Sequences (bp)": "779723", "N50 (bp)": "234311", "Gap Ratio (%)": "0.024379", "GCcontent (%)": "35.7", "Number of CDSs": "4105", "Average Protein Length": "293.8", "Coding Ratio (%)": "83.2", "Number of rRNAs": "8", "Number of tRNAs": "65", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Alkalihalobacillus trypoxylicola", "strain": "strain=KCTC 13244", "accession": "GCA_001590785.1", "taxid": 519424, "species_taxid": 519424, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1428, "total_fragments": 1431, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Alkalihalobacillus trypoxylicola", "strain": "strain=NBRC 102646", "accession": "GCA_001592025.1", "taxid": 519424, "species_taxid": 519424, "relation_to_type": "type", "validated": true, "ani": 99.8512, "matched_fragments": 1239, "total_fragments": 1431, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Alkalihalobacillus alcalophilus", "strain": "strain=AV1934", "accession": "GCA_000292245.2", "taxid": 1445, "species_taxid": 1445, "relation_to_type": "type", "validated": true, "ani": 78.2626, "matched_fragments": 265, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus alcalophilus", "strain": "strain=CGMCC 1.3604", "accession": "GCA_004802515.1", "taxid": 1445, "species_taxid": 1445, "relation_to_type": "type", "validated": true, "ani": 78.0454, "matched_fragments": 249, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus bogoriensis", "strain": "strain=ATCC BAA-922", "accession": "GCA_000621445.1", "taxid": 246272, "species_taxid": 246272, "relation_to_type": "type", "validated": true, "ani": 77.4966, "matched_fragments": 114, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halalkalibacterium ligniniphilum", "strain": "strain=L1", "accession": "GCA_000334155.1", "taxid": 1134413, "species_taxid": 1134413, "relation_to_type": "type", "validated": true, "ani": 77.3244, "matched_fragments": 92, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus akibai", "strain": "strain=JCM 9157", "accession": "GCA_001315085.1", "taxid": 1411, "species_taxid": 1411, "relation_to_type": "type", "validated": true, "ani": 77.1072, "matched_fragments": 127, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalophilus marmarensis", "strain": "strain=DSM 21297", "accession": "GCA_000474275.2", "taxid": 521377, "species_taxid": 521377, "relation_to_type": "type", "validated": true, "ani": 77.0966, "matched_fragments": 115, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alkalihalobacillus akibai", "strain": "strain=JCM 9157", "accession": "GCA_000513135.1", "taxid": 1411, "species_taxid": 1411, "relation_to_type": "type", "validated": true, "ani": 77.0408, "matched_fragments": 128, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus alkalicellulosilyticus", "strain": "strain=FJAT-44921", "accession": "GCA_002019795.1", "taxid": 1912214, "species_taxid": 1912214, "relation_to_type": "type", "validated": true, "ani": 77.0059, "matched_fragments": 88, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacillus vulpis", "strain": "strain=Z8", "accession": "GCA_006861825.1", "taxid": 2325572, "species_taxid": 2325572, "relation_to_type": "type", "validated": true, "ani": 76.7102, "matched_fragments": 57, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoneobacillus rhizosphaerae", "strain": "strain=CIP 111885", "accession": "GCA_917563885.1", "taxid": 2880968, "species_taxid": 2880968, "relation_to_type": "type", "validated": true, "ani": 76.4355, "matched_fragments": 54, "total_fragments": 1431, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001590785.1", "gtdb_species": "s__Alkalihalobacillus trypoxylicola", "ani": 100.0, "matched_fragments": 1428, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Alkalihalobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.48", "min_intra_species_ani": "96.97", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_000292245.2", "gtdb_species": "s__Alkalihalobacillus alcalophilus", "ani": 78.249, "matched_fragments": 266, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Alkalihalobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.82", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_001038565.1", "gtdb_species": "s__Alkalihalobacillus pseudalcaliphilus", "ani": 78.1125, "matched_fragments": 261, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Alkalihalobacillus", "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_002797395.1", "gtdb_species": "s__45385 sp002797395", "ani": 77.8479, "matched_fragments": 121, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__45385", "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_002797325.1", "gtdb_species": "s__Bacillus_S sp002797325", "ani": 77.7933, "matched_fragments": 101, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S", "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_000621445.1", "gtdb_species": "s__Bacillus_AO bogoriensis", "ani": 77.5026, "matched_fragments": 113, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_F;g__Bacillus_AO", "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_000513115.1", "gtdb_species": "s__Bacillus_L hemicellulosilyticus", "ani": 77.3531, "matched_fragments": 112, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L", "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_000334155.1", "gtdb_species": "s__Bacillus_AN ligniniphilus", "ani": 77.3417, "matched_fragments": 93, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_AN", "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_000474275.2", "gtdb_species": "s__Bacillus_S marmarensis", "ani": 77.0993, "matched_fragments": 114, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S", "ani_circumscription_radius": 95.9507, "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_000513135.1", "gtdb_species": "s__Bacillus_L akibai", "ani": 77.0863, "matched_fragments": 128, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L", "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_002019795.1", "gtdb_species": "s__Bacillus_AO alkalicellulosilyticus", "ani": 77.0081, "matched_fragments": 87, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_F;g__Bacillus_AO", "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_002262935.1", "gtdb_species": "s__Lottiidibacillus patelloidae", "ani": 76.95, "matched_fragments": 51, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_E;f__SA5d-4;g__Lottiidibacillus", "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_006861825.1", "gtdb_species": "s__Psychrobacillus vulpis", "ani": 76.7508, "matched_fragments": 56, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Psychrobacillus", "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_002567495.1", "gtdb_species": "s__Bacillus_A cereus_AQ", "ani": 76.0292, "matched_fragments": 55, "total_fragments": 1431, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.10", "min_intra_species_ani": "96.80", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Alkalihalobacillus", "trypoxylicola" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }