{ "type": "genome", "identifier": "GCF_000717345.1", "organism": "Streptomyces lydicus", "title": "Streptomyces lydicus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Illinois", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000717345.1", "bioproject": "PRJNA224116", "biosample": "SAMN02645328", "wgs_master": "JNZA00000000.1", "refseq_category": "na", "taxid": "47763", "species_taxid": "47763", "organism_name": "Streptomyces lydicus", "infraspecific_name": "strain=NRRL ISP-5461", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/07/01", "asm_name": "ASM71734v1", "asm_submitter": "University of Illinois", "gbrs_paired_asm": "GCA_000717345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/717/345/GCF_000717345.1_ASM71734v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8181439", "genome_size_ungapped": "8181439", "gc_percent": "72.000000", "replicon_count": "0", "scaffold_count": "131", "contig_count": "131", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000717345.1-RS_2024_05_16", "annotation_date": "2024-05-16", "total_gene_count": "7398", "protein_coding_gene_count": "7122", "non_coding_gene_count": "77", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-07-01", "dateModified": "2014-07-01", "datePublished": "2014-07-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces lydicus" ], "sample_taxid": [ "47763" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Michigan" ], "sample_host_location_id": [], "data_size": "2.200 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)": "8181439", "Number of Sequences": "131", "Longest Sequences (bp)": "373795", "N50 (bp)": "181980", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.1", "Number of CDSs": "7376", "Average Protein Length": "319.0", "Coding Ratio (%)": "86.3", "Number of rRNAs": "3", "Number of tRNAs": "86", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces lydicus", "strain": "strain=NRRL ISP-5461", "accession": "GCA_000717345.1", "taxid": 47763, "species_taxid": 47763, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 2670, "total_fragments": 2675, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptomyces lydicus", "strain": "strain=ATCC 25470", "accession": "GCA_004125245.1", "taxid": 47763, "species_taxid": 47763, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9776, "matched_fragments": 2570, "total_fragments": 2675, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptomyces inhibens", "strain": "strain=NEAU-D10", "accession": "GCA_003389455.1", "taxid": 2293571, "species_taxid": 2293571, "relation_to_type": "type", "validated": true, "ani": 88.7042, "matched_fragments": 1955, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces angustmyceticus", "strain": "strain=JCM 4053", "accession": "GCA_019933235.1", "taxid": 285578, "species_taxid": 285578, "relation_to_type": "type", "validated": true, "ani": 88.2224, "matched_fragments": 1963, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces decoyicus", "strain": "strain=NRRL 2666", "accession": "GCA_001270575.1", "taxid": 249567, "species_taxid": 249567, "relation_to_type": "type", "validated": true, "ani": 88.1005, "matched_fragments": 1955, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces libani subsp. libani", "strain": "strain=JCM 4322", "accession": "GCA_014649275.1", "taxid": 68044, "species_taxid": 68043, "relation_to_type": "type", "validated": true, "ani": 88.0491, "matched_fragments": 2075, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lydicamycinicus", "strain": "strain=NBRC 110027", "accession": "GCA_000829715.2", "taxid": 1546107, "species_taxid": 1546107, "relation_to_type": "type", "validated": true, "ani": 87.9895, "matched_fragments": 2003, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces decoyicus", "strain": "strain=NRRL 2666", "accession": "GCA_019880305.1", "taxid": 249567, "species_taxid": 249567, "relation_to_type": "type", "validated": true, "ani": 87.9754, "matched_fragments": 2046, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces sioyaensis", "strain": "strain=DSM 40032", "accession": "GCA_004122735.1", "taxid": 67364, "species_taxid": 67364, "relation_to_type": "type", "validated": true, "ani": 87.9659, "matched_fragments": 1780, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces platensis", "strain": "strain=DSM 40041", "accession": "GCA_002119195.1", "taxid": 58346, "species_taxid": 58346, "relation_to_type": "type", "validated": true, "ani": 87.9583, "matched_fragments": 1923, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces platensis", "strain": "strain=ATCC 23948", "accession": "GCA_008704855.1", "taxid": 58346, "species_taxid": 58346, "relation_to_type": "type", "validated": true, "ani": 87.9425, "matched_fragments": 1991, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces tubercidicus", "strain": "strain=NBRC 13090", "accession": "GCA_009811635.1", "taxid": 47759, "species_taxid": 47759, "relation_to_type": "type", "validated": true, "ani": 87.8177, "matched_fragments": 1851, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces kronopolitis", "strain": "strain=CGMCC 4.7323", "accession": "GCA_014646275.1", "taxid": 1612435, "species_taxid": 1612435, "relation_to_type": "type", "validated": true, "ani": 87.6906, "matched_fragments": 1842, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces pinistramenti", "strain": "strain=SF28", "accession": "GCA_020564935.1", 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92743, "relation_to_type": "type", "validated": true, "ani": 83.8129, "matched_fragments": 1685, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces monomycini", "strain": "strain=NRRL B-24309", "accession": "GCA_022271435.1", "taxid": 371720, "species_taxid": 371720, "relation_to_type": "type", "validated": true, "ani": 83.682, "matched_fragments": 1664, "total_fragments": 2675, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 5.21, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000717345.1", "gtdb_species": "s__Streptomyces lydicus", "ani": 100.0, "matched_fragments": 2670, "total_fragments": 2675, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.39", "min_intra_species_ani": "95.38", 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