LOCUS       CP056408                2089 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00562 plasmid pRHBSTW-00562_5,
            complete sequence.
ACCESSION   CP056408
VERSION     CP056408.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148652
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2089)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 2089)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: WTP1 T2-00562
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 93.1724665296571x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 20:45:01
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,500
            CDSs (total)                      :: 4,379
            Genes (coding)                    :: 4,222
            CDSs (with protein)               :: 4,222
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 72 of 157
            Pseudo Genes (incomplete)         :: 75 of 157
            Pseudo Genes (internal stop)      :: 33 of 157
            Pseudo Genes (multiple problems)  :: 22 of 157
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..2089
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00562"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00562_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            620..1585
                     /locus_tag="HV235_22495"
     CDS             620..1585
                     /locus_tag="HV235_22495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="QLV66390.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            1589..1855
                     /locus_tag="HV235_22500"
     CDS             1589..1855
                     /locus_tag="HV235_22500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLV66391.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          1014..1245
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 ttgctcaacg cctcacagac acggattaaa atccgcatcc gttcaccgtt ttttaaagtc
       61 cgttaaaagc atgatgccat ctccgagagt taatctcgtc aaatgctaaa tcgtgggggt
      121 cccctttggg gttccgattt agtgattgac gacaccaccg attaaaaaac ttatgcgggg
      181 tggatggttt cacgaagtga ggccatccac ctgtaagaca gggttttgtt tttattccct
      241 gttttggtga tcgggtgtgt ggaaaaggtt ggggtaagcc gttcgggggt gcttgttttg
      301 gggggttaaa attgtggtta ttttttgcgc aattctcgcg cgtgatcctt gtatttatac
      361 ttaagggata aatggcggat atgaaatagt ggtttagccc agtaatgacg aggctttgag
      421 tgggttttga caggtcaaag aaaatggagc agaattgagg cgtttttaat cggcgttggg
      481 gagtgcgtca acactcccca acatttcgaa tgtgtcacct cagcggcaaa ctctggtgac
      541 atgtactggc tcgcaatgca caggtacgtg atgaatatac cacatcaaat cacagcctgc
      601 ccagatcgga gcaggcttaa tgtcagaaga taaattcctt tcggactaca gcccccgtga
      661 tgcagtttgg gatacccagc gcacgcttac cgattctgtc gggggtatct accagactgc
      721 tgctgaattc gagcgctatg cactccgtat ggcctcctgt agcggtttgt tacgttttgg
      781 ttggtctacc atcatggaaa ccggagaaac gcgcctacgg cttcgtagtg cgcaattttg
      841 ccgtgtccgt cattgccctg tctgccagtg gagaagaacc ctcatgtggc aagcccgttt
      901 ttatcaggct ctaccgaaaa tcgttgtgga ttacccgtct tcccgatggt tgtttctgac
      961 gttaactgtc aggaactgcg agataggtga acttggaaca gtccttacag caatgaatgc
     1021 ggcgtttaag cgaatggaaa agcgaaagga gctatcacct gttcaggggt ggatcagggc
     1081 tacggaggtg acgcgaggta aggatggcag cgcacatccg cattttcact gtctgctgat
     1141 ggtgcaacct tcttggttta aagggaagaa ctacgttaag cacgaacgtt gggtagaact
     1201 ctggcgcgat tgcttgcggg tgaactatga gccgaatatc gatattcggg cagtaaaaac
     1261 taagacaggt gaggttgtgg ccaacgttgc cgagcaactg caaagcgcgg ttgctgaaac
     1321 gctgaaatac tccgttaaac cggaagatat ggcaaacgat cctgagtggt ttcttgagct
     1381 gacgcggcag cttcacaagc gccgttttat ctcgaccggt ggggcgctaa aaaacgtcct
     1441 ccagttggat cgagaaacca atgaggatct tgtcattgcc gacgatgtag gggatggcac
     1501 tgatgacggg aagcggacgg cgtttgtctg ggattcaggt aaacggcgtt acaaacgcgc
     1561 ccctgagaag gataaatcgg attaacgtat gaatattaat attgaatacc tgaatggaaa
     1621 taagactatt ggtttatttt ttttaagaag tgaagcggtg attcctgaca ggtttaaaaa
     1681 ccttattttg cttattgatg gattaagttt tggcacattt ggttttcatc cgcacgaagg
     1741 ttttgaggat gaattaattt tatatattca gaaaacaaac gagagggtaa aaactctttt
     1801 tgtgaaaata gatttaaacg gtatcaagtt tggattttta agaacgcatt cttagttctg
     1861 gaaaagagcc agcggcagac tgaggtgata ggtacgagat tgcatgcaat ctctagtgct
     1921 ctgtctatcc tgcattatcc tcagcattat cctcagcctt gccaactcga caccaatgca
     1981 ggatagacaa tccgatgtca aatgttaaca ctctgcgagt ggtacatttt ccccggatta
     2041 tcgtcctgag cctgccgctg gctctctttc taccgcctcg ctttgctcg
//
