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GenBank: AARBEQ000000000.1
LOCUS AARBEQ010000000 203 rc DNA linear BCT 01-APR-2020 DEFINITION Escherichia coli strain CFSAN086593, whole genome shotgun sequencing project. ACCESSION AARBEQ000000000 VERSION AARBEQ000000000.1 DBLINK BioProject: PRJNA230969 BioSample: SAMN12662399 Sequence Read Archive: SRR10049366 KEYWORDS WGS; GMI. SOURCE Escherichia coli ORGANISM Escherichia coli Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia. REFERENCE 1 (bases 1 to 203) CONSRTM GenomeTrakr network: Whole genome sequencing for foodborne pathogen traceback TITLE Direct Submission JOURNAL Submitted (20-FEB-2020) Center for Food Safety and Applied Nutrition, US Food and Drug Administration, 5100 Paint Branch Pkwy, College Park, MD, USA COMMENT The Escherichia coli whole genome shotgun (WGS) project has the project accession AARBEQ000000000. This version of the project (01) has the accession number AARBEQ010000000, and consists of sequences AARBEQ010000001-AARBEQ010000203. The annotation was added by the assembly submitters using the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about stand-alone PGAP can be found here: https://github.com/ncbi/pgap/ This draft WGS assembly was generated by running SKESA to generate a de-novo assembly. The de-novo assembly was then concatenated with contigs generated using a guided assembler using antimicrobial resistance genes as baits to comprehensively catalog the set of resistance genes in the isolate. Note, some parts of the contigs derived from the guided assembler may overlap de-novo contigs, and other guided assembler contigs. De-novo contigs can be differentiated from guided assembler contigs by their names , which include either 'denovo' or 'guided'. ##Genome-Assembly-Data-START## Assembly Date :: 20-FEB-2020 Assembly Method :: SKESA v. 2.2 Assembly Name :: PDT000576979.2 Long Assembly Name :: NCBI Pathogen Detection Assembly PDT000576979.2 Genome Coverage :: 45x Sequencing Technology :: ILLUMINA ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Date :: 02/21/2020 01:10:22 Annotation Method :: Best-placed reference protein set; GeneMarkS-2+ Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Provider :: NCBI Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Annotation Software revision :: 2020-02-06.build4373 Genes (total) :: 5,356 CDSs (total) :: 5,251 Genes (coding) :: 5,088 CDSs (with protein) :: 5,088 Genes (RNA) :: 105 rRNAs :: 1, 3, 3 (5S, 16S, 23S) complete rRNAs :: 1 (5S) partial rRNAs :: 3, 3 (16S, 23S) tRNAs :: 90 ncRNAs :: 8 Pseudo Genes (total) :: 163 CDSs (without protein) :: 163 Pseudo Genes (ambiguous residues) :: 0 of 163 Pseudo Genes (frameshifted) :: 83 of 163 Pseudo Genes (incomplete) :: 58 of 163 Pseudo Genes (internal stop) :: 44 of 163 Pseudo Genes (multiple problems) :: 17 of 163 CRISPR Arrays :: 1 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..203 /organism="Escherichia coli" /mol_type="genomic DNA" /strain="CFSAN086593" /isolation_source="bovine manure" /db_xref="taxon:562" /geo_loc_name="USA: FL" /collection_date="2018" /collected_by="KRS" WGS AARBEQ010000001-AARBEQ010000203 //
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