{ "type": "genome", "identifier": "GCF_004127445.1", "organism": "Streptomyces alfalfae", "title": "Streptomyces alfalfae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "college of life science and technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004127445.1", "bioproject": "PRJNA224116", "biosample": "SAMN08955411", "wgs_master": "QEXM00000000.1", "refseq_category": "na", "taxid": "1642299", "species_taxid": "1642299", "organism_name": "Streptomyces alfalfae", "infraspecific_name": "strain=XY25", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/02/01", "asm_name": "ASM412744v1", "asm_submitter": "college of life science and technology", "gbrs_paired_asm": "GCA_004127445.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/127/445/GCF_004127445.1_ASM412744v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8273342", "genome_size_ungapped": "8273342", "gc_percent": "72.000000", "replicon_count": "0", "scaffold_count": "57", "contig_count": "57", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004127445.1-RS_2024_04_04", "annotation_date": "2024-04-04", "total_gene_count": "7285", "protein_coding_gene_count": "7024", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-02-01", "dateModified": "2019-02-01", "datePublished": "2019-02-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces alfalfae" ], "sample_taxid": [ "1642299" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Shanxi province, Jingyang" ], "sample_host_location_id": [], "data_size": "2.211 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)": "8273342", "Number of Sequences": "57", "Longest Sequences (bp)": "873667", "N50 (bp)": "283721", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.2", "Number of CDSs": "7296", "Average Protein Length": "332.7", "Coding Ratio (%)": "88.0", "Number of rRNAs": "12", "Number of tRNAs": "85", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces alfalfae", "strain": "strain=XY25", "accession": "GCA_004127445.1", "taxid": 1642299, "species_taxid": 1642299, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces silaceus", "strain": "strain=NRRL B-24166", "accession": "GCA_001419745.1", "taxid": 545123, "species_taxid": 545123, "relation_to_type": "type", "validated": true, "ani": 87.6067, "matched_fragments": 1655, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces atriruber", "strain": "strain=NRRL B-24165", "accession": "GCA_001418325.1", "taxid": 545121, "species_taxid": 545121, "relation_to_type": "type", "validated": true, "ani": 87.5483, "matched_fragments": 1646, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces kanamyceticus", "strain": "strain=ATCC 12853", "accession": "GCA_008704495.1", "taxid": 1967, "species_taxid": 1967, "relation_to_type": "type", "validated": true, "ani": 86.9828, "matched_fragments": 1895, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces kanamyceticus", "strain": "strain=NRRL B-2535", "accession": "GCA_001418465.1", "taxid": 1967, "species_taxid": 1967, "relation_to_type": "type", "validated": true, "ani": 86.9455, "matched_fragments": 1679, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces durmitorensis", "strain": "strain=MS405", "accession": "GCA_023498005.1", "taxid": 319947, "species_taxid": 319947, "relation_to_type": "type", "validated": true, "ani": 85.4128, "matched_fragments": 1846, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces spectabilis", "strain": "strain=KCTC9218", "accession": "GCA_022698305.1", "taxid": 68270, "species_taxid": 68270, "relation_to_type": "type", "validated": true, "ani": 84.1756, "matched_fragments": 1783, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces aurantiacus", "strain": "strain=NRRL ISP-5412", "accession": "GCA_001418335.1", "taxid": 47760, "species_taxid": 47760, "relation_to_type": "type", "validated": true, "ani": 82.5201, "matched_fragments": 1352, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lomondensis", "strain": "strain=DSM 41428", "accession": "GCA_021440105.1", "taxid": 68229, "species_taxid": 68229, "relation_to_type": "type", "validated": true, "ani": 82.4926, "matched_fragments": 1545, "total_fragments": 2730, "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": 82.1652, "matched_fragments": 1530, "total_fragments": 2730, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 5.21, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004127445.1", "gtdb_species": "s__Streptomyces alfalfae", "ani": 100.0, "matched_fragments": 2679, "total_fragments": 2730, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.46", "min_intra_species_ani": "98.55", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.88", "num_clustered_genomes": 8, "status": "conclusive" }, { "accession": "GCF_003945545.1", "gtdb_species": "s__Streptomyces sp003945545", "ani": 88.3518, "matched_fragments": 1880, "total_fragments": 2730, "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_008704395.1", "gtdb_species": "s__Streptomyces alboniger", "ani": 88.2646, "matched_fragments": 1869, "total_fragments": 2730, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.40", "min_intra_species_ani": "96.83", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_016905445.1", "gtdb_species": "s__Streptomyces sp016905445", "ani": 88.1373, "matched_fragments": 1759, "total_fragments": 2730, "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": "GCA_004010275.1", "gtdb_species": "s__Streptomyces huasconensis", "ani": 88.0432, "matched_fragments": 1837, "total_fragments": 2730, "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_001419745.1", "gtdb_species": "s__Streptomyces silaceus", "ani": 87.6052, "matched_fragments": 1656, "total_fragments": 2730, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.58", "min_intra_species_ani": "99.58", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { 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