{ "type": "genome", "identifier": "GCF_000016065.1", "organism": "Shewanella loihica PV-4", "title": "Shewanella loihica PV-4", "description": "na", "data type": "Genome sequencing and assembly", "organization": "US DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000016065.1", "bioproject": "PRJNA224116", "biosample": "SAMN00623064", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "323850", "species_taxid": "359303", "organism_name": "Shewanella loihica PV-4", "infraspecific_name": "strain=PV-4", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2007/03/07", "asm_name": "ASM1606v1", "asm_submitter": "US DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000016065.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/016/065/GCF_000016065.1_ASM1606v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4602594", "genome_size_ungapped": "4602594", "gc_percent": "53.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-10-31", "total_gene_count": "4038", "protein_coding_gene_count": "3899", "non_coding_gene_count": "125", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2007-03-07", "dateModified": "2007-03-07", "datePublished": "2007-03-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella loihica PV-4" ], "sample_taxid": [ "323850" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.305 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 96.88, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4602594", "Number of Sequences": "1", "Longest Sequences (bp)": "4602594", "N50 (bp)": "4602594", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "53.7", "Number of CDSs": "3963", "Average Protein Length": "331.3", "Coding Ratio (%)": "85.6", "Number of rRNAs": "25", "Number of tRNAs": "95", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella loihica", "strain": "strain=PV-4", "accession": "GCA_000016065.1", "taxid": 359303, "species_taxid": 359303, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1533, "total_fragments": 1534, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella aquimarina", "strain": "strain=JCM 12193", "accession": "GCA_023349185.1", "taxid": 260365, "species_taxid": 260365, "relation_to_type": "type", "validated": true, "ani": 90.7582, "matched_fragments": 1328, "total_fragments": 1534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella insulae", "strain": "strain=JBTF-M18", "accession": "GCA_009831655.1", "taxid": 2681496, "species_taxid": 2681496, "relation_to_type": "type", "validated": true, "ani": 90.648, "matched_fragments": 1369, "total_fragments": 1534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella marisflavi", "strain": "strain=JCM 12192", "accession": "GCA_023283925.1", "taxid": 260364, "species_taxid": 260364, "relation_to_type": "type", "validated": true, "ani": 84.66, "matched_fragments": 1188, "total_fragments": 1534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella colwelliana", "strain": "strain=ATCC 39565", "accession": "GCA_000518705.1", "taxid": 23, "species_taxid": 23, "relation_to_type": "type", "validated": true, "ani": 79.9215, "matched_fragments": 510, "total_fragments": 1534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella seohaensis", "strain": "strain=KCTC 23556", "accession": "GCA_025449215.1", "taxid": 755175, "species_taxid": 755175, "relation_to_type": "type", "validated": true, "ani": 79.8851, "matched_fragments": 354, "total_fragments": 1534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella cyperi", "strain": "strain=FJAT-53720", "accession": "GCA_017354985.1", "taxid": 2814292, "species_taxid": 2814292, "relation_to_type": "type", "validated": true, "ani": 78.3282, "matched_fragments": 411, "total_fragments": 1534, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella salipaludis", "strain": "strain=SHSM-M6", "accession": "GCA_012911865.1", 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Shewanella", "loihica", "PV-4" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }