{ "type": "genome", "identifier": "GCF_013407765.1", "organism": "Allostreptomyces psammosilenae", "title": "Allostreptomyces psammosilenae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013407765.1", "bioproject": "PRJNA224116", "biosample": "SAMN12024957", "wgs_master": "JACBZD000000000.1", "refseq_category": "reference genome", "taxid": "1892865", "species_taxid": "1892865", "organism_name": "Allostreptomyces psammosilenae", "infraspecific_name": "strain=DSM 42178", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/13", "asm_name": "ASM1340776v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_013407765.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/407/765/GCF_013407765.1_ASM1340776v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6645128", "genome_size_ungapped": "6645128", "gc_percent": "74.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013407765.1-RS_2024_09_29", "annotation_date": "2024-09-29", "total_gene_count": "5487", "protein_coding_gene_count": "5305", "non_coding_gene_count": "95", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-13", "dateModified": "2020-07-13", "datePublished": "2020-07-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Allostreptomyces psammosilenae" ], "sample_taxid": [ "1892865" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.744 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 5.21, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6645128", "Number of Sequences": "2", "Longest Sequences (bp)": "5416953", "N50 (bp)": "5416953", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "74.3", "Number of CDSs": "5580", "Average Protein Length": "340.2", "Coding Ratio (%)": "85.7", "Number of rRNAs": "21", "Number of tRNAs": "91", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Allostreptomyces psammosilenae", "strain": "strain=DSM 42178", "accession": "GCA_013407765.1", "taxid": 1892865, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lichenis", "strain": "strain=LCR6-01", "accession": "GCA_023218175.1", "taxid": 2306967, "species_taxid": 2306967, "relation_to_type": "type", "validated": true, "ani": 78.6838, "matched_fragments": 962, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora paracochleata", "strain": "strain=DSM 41656", "accession": "GCA_024172095.1", "taxid": 58354, "species_taxid": 58354, "relation_to_type": "type", "validated": true, "ani": 78.6486, "matched_fragments": 1019, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora viridis", "strain": "strain=DSM 44826", "accession": "GCA_007829815.1", "taxid": 281105, "species_taxid": 281105, "relation_to_type": "type", "validated": true, "ani": 78.6071, "matched_fragments": 1100, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora griseola", "strain": "strain=JCM 3339", "accession": "GCA_014648555.1", "taxid": 2064, "species_taxid": 2064, "relation_to_type": "type", "validated": true, "ani": 78.5724, "matched_fragments": 952, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces chromofuscus", "strain": "strain=DSM 40273", "accession": "GCA_015160875.1", "taxid": 42881, "species_taxid": 42881, "relation_to_type": "type", "validated": true, "ani": 78.5589, "matched_fragments": 869, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces chromofuscus", "strain": "strain=JCM 4354", "accession": "GCA_014649435.1", "taxid": 42881, "species_taxid": 42881, "relation_to_type": "type", "validated": true, "ani": 78.434, "matched_fragments": 882, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces buecherae", "strain": "strain=AC541", "accession": "GCA_014295035.1", "taxid": 2763006, "species_taxid": 2763006, "relation_to_type": "type", "validated": true, "ani": 78.4288, "matched_fragments": 976, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus pinicola", "strain": "strain=MMS16-CNU450", "accession": "GCA_003258295.1", "taxid": 2219663, "species_taxid": 2219663, "relation_to_type": "type", "validated": true, "ani": 78.3857, "matched_fragments": 857, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces chumphonensis", "strain": "strain=KK1-2", "accession": "GCA_014779715.1", "taxid": 1214925, "species_taxid": 1214925, "relation_to_type": "type", "validated": true, "ani": 78.3318, "matched_fragments": 795, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces albus subsp. albus", "strain": "strain=NRRL B-1811", "accession": "GCA_000725885.1", "taxid": 67257, "species_taxid": 1888, "relation_to_type": "suspected-type", "validated": true, "ani": 78.3156, "matched_fragments": 874, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila paucisporea", "strain": "strain=CGMCC 4.2025", "accession": "GCA_900142575.1", "taxid": 310782, "species_taxid": 310782, "relation_to_type": "type", "validated": true, "ani": 78.2318, "matched_fragments": 942, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus jiangxiensis", "strain": "strain=NBRC 100920", "accession": "GCA_000787795.1", "taxid": 235985, "species_taxid": 235985, "relation_to_type": "type", "validated": true, "ani": 78.1529, "matched_fragments": 913, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces deccanensis", "strain": "strain=KCTC 19241", "accession": "GCA_022385335.1", "taxid": 424188, "species_taxid": 424188, "relation_to_type": "type", "validated": true, "ani": 78.1005, "matched_fragments": 923, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus jiangxiensis", "strain": "strain=CGMCC 4.1857", "accession": "GCA_900109465.1", "taxid": 235985, "species_taxid": 235985, "relation_to_type": "type", "validated": true, "ani": 78.1003, "matched_fragments": 918, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces caniscabiei", "strain": "strain=NE06-02D", "accession": "GCA_014930365.1", "taxid": 2746961, "species_taxid": 2746961, "relation_to_type": "type", "validated": true, "ani": 78.0031, "matched_fragments": 934, "total_fragments": 2214, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 5.21, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013407765.1", 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"s__Streptomyces sp003144095", "ani": 79.2414, "matched_fragments": 847, "total_fragments": 2214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_004684805.1", "gtdb_species": "s__Streptomyces palmae", "ani": 79.0878, "matched_fragments": 841, "total_fragments": 2214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_000240165.1", "gtdb_species": "s__Streptomyces cattleya", "ani": 79.0781, "matched_fragments": 998, "total_fragments": 2214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014084125.1", "gtdb_species": "s__Streptacidiphilus sp014084125", "ani": 78.9627, "matched_fragments": 931, "total_fragments": 2214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_002794255.1", "gtdb_species": "s__Streptomyces carminius", "ani": 78.9554, "matched_fragments": 932, "total_fragments": 2214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_007097205.2", "gtdb_species": "s__Streptomyces alkaliterrae", "ani": 78.8614, "matched_fragments": 706, "total_fragments": 2214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.63", "min_intra_species_ani": "99.32", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002300355.1", "gtdb_species": "s__Kitasatospora sp002300355", "ani": 78.6875, "matched_fragments": 1052, 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