{ "type": "genome", "identifier": "GCF_004212445.1", "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_004212445.1", "bioproject": "PRJNA224116", "biosample": "SAMN10068960", "wgs_master": "QYZT00000000.1", "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": "2019/02/19", "asm_name": "ASM421244v1", "asm_submitter": "college of life science and technology", "gbrs_paired_asm": "GCA_004212445.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/212/445/GCF_004212445.1_ASM421244v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7928771", "genome_size_ungapped": "7928771", "gc_percent": "72.000000", "replicon_count": "0", "scaffold_count": "235", "contig_count": "235", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004212445.1-RS_2024_04_08", "annotation_date": "2024-04-08", "total_gene_count": "7054", "protein_coding_gene_count": "6805", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-02-19", "dateModified": "2019-02-19", "datePublished": "2019-02-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces alfalfae" ], "sample_taxid": [ "1642299" ], "sample_host_organism": [ "not collected" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Shanxi Province, Jingyang" ], "sample_host_location_id": [], "data_size": "2.130 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)": "7928771", "Number of Sequences": "235", "Longest Sequences (bp)": "245285", "N50 (bp)": "90629", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.2", "Number of CDSs": "6995", "Average Protein Length": "328.7", "Coding Ratio (%)": "87.0", "Number of rRNAs": "1", "Number of tRNAs": "55", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces alfalfae", "strain": "strain=XY25", "accession": "GCA_004212445.1", "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 atriruber", "strain": "strain=NRRL B-24165", "accession": "GCA_001418325.1", "taxid": 545121, "species_taxid": 545121, "relation_to_type": "type", "validated": true, "ani": 87.5279, "matched_fragments": 1634, "total_fragments": 2552, "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": 87.4691, "matched_fragments": 1631, "total_fragments": 2552, "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": 86.9607, "matched_fragments": 1853, "total_fragments": 2552, "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": 86.9051, "matched_fragments": 1640, "total_fragments": 2552, "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": 85.3374, "matched_fragments": 1797, "total_fragments": 2552, "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": 84.2079, "matched_fragments": 1724, "total_fragments": 2552, "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": 82.4266, "matched_fragments": 1497, "total_fragments": 2552, "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": 82.4001, "matched_fragments": 1333, "total_fragments": 2552, "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": 81.9473, "matched_fragments": 1530, "total_fragments": 2552, "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": 99.9999, "matched_fragments": 2552, "total_fragments": 2552, "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": 88.4136, "matched_fragments": 1831, "total_fragments": 2552, "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": 88.2327, "matched_fragments": 1821, "total_fragments": 2552, "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": 88.0807, "matched_fragments": 1746, "total_fragments": 2552, "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, 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