{ "type": "genome", "identifier": "GCF_009749405.1", "organism": "Agromyces lapidis", "title": "Agromyces lapidis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Contr", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009749405.1", "bioproject": "PRJNA224116", "biosample": "SAMN12869711", "wgs_master": "WBIQ00000000.1", "refseq_category": "reference genome", "taxid": "279574", "species_taxid": "279574", "organism_name": "Agromyces lapidis", "infraspecific_name": "strain=JCM 14321", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/12/14", "asm_name": "ASM974940v1", "asm_submitter": "National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Contr", "gbrs_paired_asm": "GCA_009749405.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/749/405/GCF_009749405.1_ASM974940v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3801572", "genome_size_ungapped": "3801572", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "15", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009749405.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3569", "protein_coding_gene_count": "3496", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-12-14", "dateModified": "2019-12-14", "datePublished": "2019-12-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Agromyces lapidis" ], "sample_taxid": [ "279574" ], "sample_host_organism": [ "not collected" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not collected" ], "sample_host_location_id": [], "data_size": "1.001 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3801572", "Number of Sequences": "15", "Longest Sequences (bp)": "730151", "N50 (bp)": "381095", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.9", "Number of CDSs": "3529", "Average Protein Length": "331.0", "Coding Ratio (%)": "92.2", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Agromyces lapidis", "strain": "strain=JCM 14321", "accession": "GCA_009749405.1", "taxid": 279574, "species_taxid": 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"matched_fragments": 901, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces cerinus subsp. cerinus", "strain": "strain=DSM 8595", "accession": "GCA_900142065.1", "taxid": 232089, "species_taxid": 33878, "relation_to_type": "type", "validated": true, "ani": 84.7172, "matched_fragments": 908, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces fucosus", "strain": "strain=CCUG 35506", "accession": "GCA_004134865.1", "taxid": 41985, "species_taxid": 41985, "relation_to_type": "type", "validated": true, "ani": 84.5177, "matched_fragments": 902, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces badenianii", "strain": "strain=MF30-A", "accession": "GCA_003070885.1", "taxid": 2080742, "species_taxid": 2080742, "relation_to_type": "type", "validated": true, "ani": 84.078, "matched_fragments": 773, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces cavernae", "strain": "strain=SYSU K20354", "accession": "GCA_021044935.1", "taxid": 2898659, "species_taxid": 2898659, "relation_to_type": "type", "validated": true, "ani": 84.024, "matched_fragments": 858, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces allii", "strain": "strain=JCM 13584", "accession": "GCA_009749385.1", "taxid": 393607, "species_taxid": 393607, "relation_to_type": "type", "validated": true, "ani": 83.7454, "matched_fragments": 832, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces humatus", "strain": "strain=JCM 14319", "accession": "GCA_021228295.1", "taxid": 279573, "species_taxid": 279573, "relation_to_type": "type", "validated": true, "ani": 83.7166, "matched_fragments": 813, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces mariniharenae", "strain": "strain=NEAU-184", "accession": "GCA_008122505.1", "taxid": 2604423, "species_taxid": 2604423, "relation_to_type": "type", "validated": true, "ani": 83.5315, "matched_fragments": 823, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces mediolanus", "strain": "strain=JCM 3346", "accession": "GCA_014648575.1", "taxid": 41986, "species_taxid": 41986, "relation_to_type": "type", "validated": true, "ani": 83.4264, "matched_fragments": 806, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces flavus", "strain": "strain=CPCC 202695", "accession": "GCA_004366335.2", "taxid": 589382, "species_taxid": 589382, "relation_to_type": "type", "validated": true, "ani": 82.1148, "matched_fragments": 761, "total_fragments": 1258, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces archimandritae", "strain": 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