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GenBank: AASFXP000000000.1
LOCUS AASFXP010000000 113 rc DNA linear BCT 15-APR-2020 DEFINITION Escherichia coli strain CVM N18EC1294, whole genome shotgun sequencing project. ACCESSION AASFXP000000000 VERSION AASFXP000000000.1 DBLINK BioProject: PRJNA292663 BioSample: SAMN12359564 Sequence Read Archive: SRR9852771 KEYWORDS WGS. SOURCE Escherichia coli ORGANISM Escherichia coli Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia. REFERENCE 1 (bases 1 to 113) CONSRTM NARMS: The National Antimicrobial Resistance Monitoring System TITLE Direct Submission JOURNAL Submitted (29-JUL-2019) Center for Veterinary Medicine, US Food and Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA COMMENT The Escherichia coli whole genome shotgun (WGS) project has the project accession AASFXP000000000. This version of the project (01) has the accession number AASFXP010000000, and consists of sequences AASFXP010000001-AASFXP010000113. The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/ 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 :: 29-JUL-2019 Assembly Method :: SKESA v. 2.2 Assembly Name :: PDT000550330.1 Long Assembly Name :: NCBI Pathogen Detection Assembly PDT000550330.1 Genome Coverage :: 89x Sequencing Technology :: ILLUMINA ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Date :: 07/29/2019 21:44:14 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 :: 4.8 Genes (total) :: 5,251 CDSs (total) :: 5,154 Genes (coding) :: 4,925 CDSs (with protein) :: 4,925 Genes (RNA) :: 97 rRNAs :: 3, 2, 3 (5S, 16S, 23S) complete rRNAs :: 3 (5S) partial rRNAs :: 2, 3 (16S, 23S) tRNAs :: 79 ncRNAs :: 10 Pseudo Genes (total) :: 229 CDSs (without protein) :: 229 Pseudo Genes (ambiguous residues) :: 0 of 229 Pseudo Genes (frameshifted) :: 117 of 229 Pseudo Genes (incomplete) :: 92 of 229 Pseudo Genes (internal stop) :: 57 of 229 Pseudo Genes (multiple problems) :: 36 of 229 CRISPR Arrays :: 2 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..113 /organism="Escherichia coli" /mol_type="genomic DNA" /strain="CVM N18EC1294" /isolation_source="Chicken Thighs" /db_xref="taxon:562" /geo_loc_name="USA: SC" /collection_date="2018" /collected_by="FDA" WGS AASFXP010000001-AASFXP010000113 //
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