LOCUS       NZ_CP059920             3140 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain 64.1 plasmid p3, complete sequence.
ACCESSION   NZ_CP059920
VERSION     NZ_CP059920.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13613898
            Assembly: GCF_014170675.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3140)
  AUTHORS   Moffat,J., Chalmers,G., Reid-Smith,R., Mulvey,M., Aguno,A.,
            Calvert,J., Cormier,A., Ricker,N. and Boerlin,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-DEC-2019) Pathobiology, University of Guelph, 50 Stone
            Road E, Guelph, Ontario N1G 2W1, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.9x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:23:54
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,401
            CDSs (total)                      :: 5,286
            Genes (coding)                    :: 5,013
            CDSs (with protein)               :: 5,013
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 273
            CDSs (without protein)            :: 273
            Pseudo Genes (ambiguous residues) :: 1 of 273
            Pseudo Genes (frameshifted)       :: 129 of 273
            Pseudo Genes (incomplete)         :: 172 of 273
            Pseudo Genes (internal stop)      :: 55 of 273
            Pseudo Genes (multiple problems)  :: 69 of 273
            Pseudo Genes (short protein)      :: 4 of 273
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059920.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3140
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="64.1"
                     /host="Turkey"
                     /db_xref="taxon:562"
                     /plasmid="p3"
                     /geo_loc_name="Canada"
                     /collection_date="2016/2017"
     gene            839..1813
                     /locus_tag="H5C78_RS26660"
                     /old_locus_tag="H5C78_26660"
     CDS             839..1813
                     /locus_tag="H5C78_RS26660"
                     /old_locus_tag="H5C78_26660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006859061.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_006859061.1"
                     /translation="MSEDKFLSEYSPKDSVWDSHRAFTDSVGGIYRSAAEFERYAERMA
                     SCSGLLRFGWSTLMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVAD
                     YPSSRWLFLTLTVRNCAIGELGDTLTTINAAFKRLEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVPPSWFSGVAYVKQARWVELWRDCLRVNYEPNVDIRTVKTKTGEAVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPDWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVMADGVNEGEDDGSRLAFSWETEIKKYRRDPKRDNPKSEG"
                     /name="protein rep"
     gene            complement(2454..2624)
                     /locus_tag="H5C78_RS26665"
                     /old_locus_tag="H5C78_26665"
     CDS             complement(2454..2624)
                     /locus_tag="H5C78_RS26665"
                     /old_locus_tag="H5C78_26665"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_157903596.1"
                     /translation="MTPQQSALKAASHKASQKIVARDQRSDDRFVCLTASFSNVSMPFR
                     RVRFTRTATPE"
                     /name="hypothetical protein"
     Typing          174..256
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="81.176"
                     /coverage="93.0"
                     /evalue="7.16e-09"
ORIGIN
        1 ttaagcacaa aaagtgatgc caagcaatac gttaagcggc tgcggtgcgt gcggaactgc
       61 gccaggcagt ggaacaaccg acgaccacga ccgcgccacc ggaacggacg ggtcgggaac
      121 ggtgacgggc ctgcgttctg ccttggtgcg gccgaccgtg acggggccgc agcgggacag
      181 gatgtgtaat cgtataacct cgcacgcacg ccaatatgat taccgcctgg tcagggctgc
      241 gccccgacac cccgccaacg cctcacggca cgcgaaaaaa ttccgcgtcc cgctcaccgt
      301 tcccgaactc gtcaaacaga aaatcgcggg gtcccgcgcc tccggcgtgg gttccgattt
      361 tgtgattgac gatggcacgg gaagatactg gtggtggtgg ttggtgtcac ggagtgaggc
      421 caaccacctg tgaggctgtt tttgttgttc acaaattcgg ggtgaaagtc tgtggatgag
      481 atgggtgtaa gtgggtggga tgtgtggctt tggggggggg ctaaaaaaat agctcgaaat
      541 ttgagcaatt ctcgcgcgcg atccttgtat ttatacttaa gggataactg gcggacgtaa
      601 aatggtgctt caagccagta ttggcgcggc ttagagtggt gtttgacgga tcaaaggatt
      661 tggcgcaaaa ttgaagtgtt tttaagcggc gctgaggagt gcgctaacac tcctcagcat
      721 ttgaaagtgt caccggaaga ttagccgtca gacggtgaca gtaactggca cgcaatgcac
      781 aggtacgtga tgaatataac acatcaaatc accacctgca cagatcggag caggtggcat
      841 gtcagaagat aaattcctgt cggagtacag cccgaaagat tcggtctggg actcacatcg
      901 tgcgtttact gattctgtcg gtggtattta ccggagtgct gctgaatttg agcgttatgc
      961 agagcgtatg gcctcctgta gcggtttatt gcgttttggc tggtctacgc tcatggaaac
     1021 cggagagacg cgcctgaggc ttcgtagtgc gcagttctgc cgtgtccggc attgtcctgt
     1081 ctgccagtgg agaagaacgc tcatgtggca agcccgtttt taccaggctc taccaaaaat
     1141 cgttgcggat tatccatctt cacgttggtt gttcctgacg ttaactgtca ggaactgcgc
     1201 gatcggggaa ctgggcgata cgctgactac gataaatgcg gcgtttaagc ggctggaaaa
     1261 acggaaggag ctttccccag tacagggctg gattagagcg acggaagtta cacggggaaa
     1321 agacggcagc gcgcatccgc actttcactg tttgctgatg gtgcctccat catggttctc
     1381 tggtgttgct tatgtcaaac aagctcgttg ggtggaactc tggcgggatt gtctgcgggt
     1441 gaattatgaa ccgaacgttg atatccggac agtgaaaacg aaaacaggcg aggctgttgc
     1501 caatgttgca gaacagctac agagtgctgt tgctgaaacc ctgaaatatt ccgttaagcc
     1561 ggaagacatg gctaatgatc ctgactggtt tctggaactg acgcggcagc ttcacaagcg
     1621 ccgtttcatt tcgaccggtg gcgcactcaa gaacgtccta cagcttgaca gggaaaccaa
     1681 tgaggatctt gtgatggcgg acggtgttaa cgaaggagag gatgacggct cgcggctggc
     1741 gttctcatgg gaaacggaaa tcaaaaagta ccgacgtgat ccgaaacggg ataacccgaa
     1801 atcagagggg tgagcgcgtc gttgtgaccc cccatgttat agccaacacc cgaacaggcc
     1861 acgcagacgc gctcagagtg cgtctgagcg cgtttcaggg tcgcggcccc tgaaaacgtg
     1921 attgcagacg tttttgctcg ccagaaacgc gctcaggcgt tttttaacgc atagcgggtg
     1981 cggtgtcgag aagggggttt ttaaaacgga atccgggtgc cggaccgggg gtgtcagaaa
     2041 acaccggttc ggatatgggt gaagaacgga gttcgggaac ctttgccgga cattcgcaag
     2101 aaaaacaaca ggtttaatct tttaaaagat gcacaacgcc ctccgtttga acgaaaacac
     2161 ccaaagtacg tttctttgtt caaacagatt aacacattga tattgttagt tttgcgtcat
     2221 cacggacggc tctgtaacgc ggttgctcgc cttcctggct cgtttgatgt cgatgtagca
     2281 gagcttgcac atgttgagtt tttacaggag ttcgctacct gtgcaccagg gcgatttttt
     2341 actccccgtc atcttacgat gacgccttcc gacatcagaa cgatttttca tatttattcc
     2401 tttatttcaa acagttaata cacttacctc tcatgtatta cgaagtggaa aattcattcc
     2461 ggcgtggccg tccgtgtaaa acggacgcgc cggaaaggca tggacacgtt actgaaagac
     2521 gctgtcagac agacgaaacg gtcatcagaa cgctggtcac gagcgacgat tttctggctg
     2581 gccttatgtg atgctgcttt cagggcagat tgttgtggcg tcacttggtg ttccctacgg
     2641 tcgcacacaa gtgacgccgc acagcttcag actccacgta cacacgcaag cagccaaatt
     2701 tcaaatggcc ttatgccgtg cacacagtca caagaagcta atgcagctag acagaaaagt
     2761 tttaagacgc agatatataa ggcattctcg ccactctgcg aggggaaaac tcgtaagttt
     2821 catgacacac aaaaccgtac gggtaatccg aaggtaaaaa taacgtacct caatcaccag
     2881 tggtgatatc cgttcccaga ggctaaacgg atgtaccgcc ataaaggcat cccctttcag
     2941 gctacgagga tattgcaatc acccgaaggc gtttctctca gatcgctgaa acattggctg
     3001 gcagtcaccc gaaggcgctc ctctcagact gctggaacat tggctggtca tccgaagatg
     3061 acagtgtggt cgcgtaagcc tccctctcag accaccggga gattggttgg tcgccgaagc
     3121 gacaagttag cgtttaaatt
//
