{ "type": "genome", "identifier": "GCF_003337715.1", "organism": "Ciceribacter lividus", "title": "Ciceribacter lividus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003337715.1", "bioproject": "PRJNA224116", "biosample": "SAMN09074871", "wgs_master": "QPIX00000000.1", "refseq_category": "reference genome", "taxid": "1197950", "species_taxid": "1197950", "organism_name": "Ciceribacter lividus", "infraspecific_name": "strain=DSM 25528", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/07/24", "asm_name": "ASM333771v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003337715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/337/715/GCF_003337715.1_ASM333771v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4521451", "genome_size_ungapped": "4520596", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "32", "contig_count": "32", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003337715.1-RS_2024_05_01", "annotation_date": "2024-05-01", "total_gene_count": "4344", "protein_coding_gene_count": "4216", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-07-24", "dateModified": "2018-07-24", "datePublished": "2018-07-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Ciceribacter lividus" ], "sample_taxid": [ "1197950" ], "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": "1.255 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)": "4521451", "Number of Sequences": "32", "Longest Sequences (bp)": "810761", "N50 (bp)": "334985", "Gap Ratio (%)": "0.018910", "GCcontent (%)": "63.2", "Number of CDSs": "4292", "Average Protein Length": "312.5", "Coding Ratio (%)": "89.0", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ciceribacter lividus", "strain": "strain=DSM 25528", "accession": "GCA_003337715.1", "taxid": 1197950, "species_taxid": 1197950, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1489, "total_fragments": 1490, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Ciceribacter ferrooxidans", "strain": "strain=F8825", "accession": "GCA_004137355.1", "taxid": 2509717, "species_taxid": 2509717, "relation_to_type": "type", "validated": true, "ani": 90.9553, "matched_fragments": 1251, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ciceribacter thiooxidans", "strain": "strain=F43B", "accession": "GCA_014126615.1", "taxid": 1969821, "species_taxid": 1969821, "relation_to_type": "type", "validated": true, "ani": 89.7693, "matched_fragments": 1235, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ciceribacter selenitireducens", "strain": "strain=ATCC BAA-1503", "accession": "GCA_000518785.1", "taxid": 448181, "species_taxid": 448181, "relation_to_type": "type", "validated": true, "ani": 81.5689, "matched_fragments": 892, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella fusca", "strain": "strain=DSM 21319", "accession": "GCA_014203155.1", "taxid": 544480, "species_taxid": 544480, "relation_to_type": "type", "validated": true, "ani": 80.4888, "matched_fragments": 662, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella pollutisoli", "strain": "strain=KCTC 52677", "accession": "GCA_024609765.1", "taxid": 2250594, "species_taxid": 2250594, "relation_to_type": "type", "validated": true, "ani": 80.3126, "matched_fragments": 686, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella yambaruensis", "strain": "strain=DSM 18801", "accession": "GCA_022899355.1", "taxid": 415996, "species_taxid": 415996, "relation_to_type": "type", "validated": true, "ani": 80.2273, "matched_fragments": 719, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium 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"GCA_019793465.1", "taxid": 2867516, "species_taxid": 2867516, "relation_to_type": "type", "validated": true, "ani": 79.6974, "matched_fragments": 645, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium sophoriradicis", "strain": "strain=CCBAU 03470", "accession": "GCA_003939025.1", "taxid": 1535245, "species_taxid": 1535245, "relation_to_type": "type", "validated": true, "ani": 79.694, "matched_fragments": 642, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium redzepovicii", "strain": "strain=18T", "accession": "GCA_019793435.1", "taxid": 2867518, "species_taxid": 2867518, "relation_to_type": "type", "validated": true, "ani": 79.4784, "matched_fragments": 656, "total_fragments": 1490, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium viscosum", "strain": "strain=DSM 7307", "accession": "GCA_014873945.1", "taxid": 1673, "species_taxid": 1673, 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