{ "type": "genome", "identifier": "GCF_016406325.1", "organism": "Shewanella putrefaciens", "title": "Shewanella putrefaciens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ocean University of China", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016406325.1", "bioproject": "PRJNA224116", "biosample": "SAMN17120581", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "24", "species_taxid": "24", "organism_name": "Shewanella putrefaciens", "infraspecific_name": "strain=ATCC 8071", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/12/27", "asm_name": "ASM1640632v1", "asm_submitter": "Ocean University of China", "gbrs_paired_asm": "GCA_016406325.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/406/325/GCF_016406325.1_ASM1640632v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4386330", "genome_size_ungapped": "4386330", "gc_percent": "44.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016406325.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "3907", "protein_coding_gene_count": "3719", "non_coding_gene_count": "129", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-12-27", "dateModified": "2020-12-27", "datePublished": "2020-12-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella putrefaciens" ], "sample_taxid": [ "24" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.248 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)": "4386330", "Number of Sequences": "1", "Longest Sequences (bp)": "4386330", "N50 (bp)": "4386330", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "44.4", "Number of CDSs": "3801", "Average Protein Length": "327.8", "Coding Ratio (%)": "85.2", "Number of rRNAs": "25", "Number of tRNAs": "100", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella putrefaciens", "strain": "strain=ATCC 8071", "accession": "GCA_016406325.1", "taxid": 24, "species_taxid": 24, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1462, "total_fragments": 1462, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella putrefaciens", "strain": "strain=JCM 20190", "accession": "GCA_014647555.1", "taxid": 24, "species_taxid": 24, "relation_to_type": "type", "validated": true, "ani": 99.9382, "matched_fragments": 1434, "total_fragments": 1462, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella putrefaciens", "strain": "strain=NBRC 3908", "accession": "GCA_001591325.1", "taxid": 24, "species_taxid": 24, "relation_to_type": "type", "validated": true, "ani": 99.9279, "matched_fragments": 1392, "total_fragments": 1462, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella profunda", "strain": "strain=DSM 15900", "accession": "GCA_023283765.1", "taxid": 254793, "species_taxid": 254793, "relation_to_type": "type", "validated": true, "ani": 89.7389, "matched_fragments": 1217, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella oncorhynchi", "strain": "strain=S-1", "accession": "GCA_012584455.1", "taxid": 2726434, "species_taxid": 2726434, "relation_to_type": "type", "validated": true, "ani": 86.537, "matched_fragments": 1133, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella hafniensis", "strain": "strain=ATCC BAA-1207", "accession": "GCA_019655335.1", "taxid": 365590, "species_taxid": 365590, "relation_to_type": "type", "validated": true, "ani": 85.0465, "matched_fragments": 1057, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella baltica", "strain": "strain=NCTC10735", "accession": "GCA_900456975.1", "taxid": 62322, "species_taxid": 62322, "relation_to_type": "type", "validated": true, "ani": 84.9622, "matched_fragments": 1107, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella glacialipiscicola", "strain": "strain=LMG 23744", "accession": "GCA_023283485.1", 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900156405.1", "gtdb_species": "s__Shewanella morhuae", "ani": 82.2847, "matched_fragments": 931, "total_fragments": 1462, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.45", "min_intra_species_ani": "98.44", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014647135.1", "gtdb_species": "s__Shewanella xiamenensis", "ani": 82.0246, "matched_fragments": 930, "total_fragments": 1462, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Shewanella", "putrefaciens" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }