LOCUS       NZ_CP049974             1934 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain ARL09/232 plasmid pCO_Eco4457-7, complete
            sequence.
ACCESSION   NZ_CP049974
VERSION     NZ_CP049974.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14351533
            Assembly: GCF_013376575.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1934)
  AUTHORS   Olivera,C.D. and Rakonjac,J.
  TITLE     Complete genome assembly of New Delhi metallo-beta-lactamase-1
            (NDM-1)- producing Escherichia coli human isolate from New Zealand
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1934)
  AUTHORS   Olivera,C.D. and Rakonjac,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-MAR-2020) School of Fundamental Science, Massey
            University, Tennent Drive, Palmerston North 4442, New Zealand
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAR-2020
            Assembly Method                   :: Unicycler v. MAR-2020
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 02:37:54
            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)                     :: 5,280
            CDSs (total)                      :: 5,159
            Genes (coding)                    :: 4,937
            CDSs (with protein)               :: 4,937
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 222
            CDSs (without protein)            :: 222
            Pseudo Genes (ambiguous residues) :: 0 of 222
            Pseudo Genes (frameshifted)       :: 77 of 222
            Pseudo Genes (incomplete)         :: 134 of 222
            Pseudo Genes (internal stop)      :: 53 of 222
            Pseudo Genes (multiple problems)  :: 41 of 222
            Pseudo Genes (short protein)      :: 2 of 222
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP049974.1.
            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..1934
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ARL09/232"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /culture_collection="NZRM:4457"
                     /db_xref="taxon:562"
                     /plasmid="pCO_Eco4457-7"
                     /geo_loc_name="New Zealand"
                     /collection_date="2009"
                     /collected_by="Institute of Environmental Science and
                     Research (ESR)"
     gene            complement(join(1603..1934,1..385))
                     /locus_tag="G9448_RS26140"
                     /old_locus_tag="G9448_26220"
     CDS             complement(join(1603..1934,1..385))
                     /locus_tag="G9448_RS26140"
                     /old_locus_tag="G9448_26220"
                     /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="protein rep"
                     /protein_id="WP_064761962.1"
                     /translation="MWQARFYQSLPRIVADYPDARWMFLTLTVRNCAIGELGETLNRMN
                     MAFQRLKDRKEFRPVQGWIRTTEVTRGSDGSAHPHFHTLMMVPPSMFTRDYVKHDRWVE
                     LWRECLRVNYDPNVDVRAVKPRKPKDGESLASATAELVRGAVAETLKYSTKPADMVADP
                     EWFLELTKQTHKRRFVATGGALKDILKLDQETDADMVIGDDIPEGDDDGSRIAFEWKTE
                     SKKYRRSPSKDKAESD"
                     /name="protein rep"
     gene            complement(642..944)
                     /locus_tag="G9448_RS26145"
                     /old_locus_tag="G9448_26225"
     CDS             complement(642..944)
                     /locus_tag="G9448_RS26145"
                     /old_locus_tag="G9448_26225"
                     /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_023150476.1"
                     /translation="MAGSIRARSLYLYLRDNSGDKKWHQALRTKASGLICVVEGFGSIL
                     LGVVALKATPATTAIVRGCDHLQKFDSKRQPTGDTAMITRQMSHRPAWDGVHAKP"
                     /name="hypothetical protein"
     Typing          1686..1877
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.601"
                     /coverage="100.0"
                     /evalue="1.39e-59"
ORIGIN
        1 taggcttgcg gggttttact gctcgaacat caacattcgg atcgtaattc acacgcaaac
       61 actctcgcca aagctctacc cagcggtcat gtttaacgta atctcgcgtg aacattgagg
      121 gaggaaccat catcagagtg tgaaagtgcg ggtgcgcact accgtcactt ccacgtgtaa
      181 cttccgtggt gcggatccag ccctgaacag gtcgaaactc tttgcgatcc ttaagtcgct
      241 ggaaggccat gttcattcgg ttaagtgtct cacccaattc cccgatcgcg cagtttcgca
      301 ctgtgagggt caggaacatc cagcgtgcat ctggataatc cgcaacaata cgcggcaggg
      361 actgataaaa acgggcttgc cacatcaggg atcgcctcca ctggcagaca ggacagtgcc
      421 ggacacggca gaaatgcgcc tcacgtagcc taaggcgagt ttctccagtt tctttgaggg
      481 tagaccaacc aaacctcagt aaaccgccac aggaagccat acgcgccccg tagcgctcat
      541 attcggctgc gagaaggtaa atcccaccta cgtcgtcaga aacgcttttg tgagcgtccc
      601 agggcgcgtc tgagggggag taatccgtga ggttctggag tttagggttt tgcatgcaca
      661 ccgtcccatg ctgggcgatg gctcatttga cgtgttatca ttgccgtatc acctgttggt
      721 tgtcgcttcg aatcgaattt ctgcaggtgg tcacaccccc gaacgatggc cgtcgttgcg
      781 ggggtcgctt ttaaggcgac cactcccaac agaatacttc caaaaccttc tacaacgcaa
      841 ataagccccg aagccttggt acgcaaggct tgatgccatt ttttatcgcc agagttatcc
      901 cttaagtata aatacaagga tcgcgcgcgg atcgaaccag ccattcaacg cccacccgcc
      961 accaaaaact gccacaacgc caggagcgaa acagcaacgc tcaacgcact atcaacatga
     1021 ttaagaacct caaaaaacat aacaacctca ctcgaatgga attgggtaaa tctatttagt
     1081 ctgtgatttg cgaacccata ctttttcgca tcacgacaga accaactcca ttcgttctgg
     1141 ttgtatccgg taccagacaa ttaaaaaccg tcttccaggt ggttggcctc acttcgtgaa
     1201 tccaaccacc tcagccaatt tttcaatcag caatgtcgtc aatcactaaa tcggaaccca
     1261 ctggcaagcc agcgggaccc cacgatttag agtttgacga tttcggaaac ggcgagcgct
     1321 ggcagatttt aatctgactg cgtgaggtgt tggcagggtg tcggggcgca gccctgacga
     1381 atcgtttttg gcaccgacat cgtgatggcg gtgtaccaaa aacacatctt gtcccaactg
     1441 agttcggaaa ccgaactcag taattgagtg acgtcacttt gcggcgttag ccctatcctg
     1501 catcggagta gaaccaatag gacaagatgt gtttttggag taccgccgac aagcggcgtc
     1561 ctctcaaaaa cgtcgtggtc agggctgcgc cccgacaccc tgtcagtctg attcagcttt
     1621 atcttttgac ggtgagcgac ggtacttttt ggattcggtt ttccactcaa aagcaatgcg
     1681 tgaaccatca tcatcgcctt cgggaatatc atccccgatt accatatcgg catcagtttc
     1741 ctgatcgagt ttcagtatgt ctttgagtgc gccaccggta gccacaaatc ggcgcttatg
     1801 tgtctgctta gtcaattcga ggaaccattc aggatcagca accatgtcag ccggcttcgt
     1861 ggaatatttc agggtttcag ccactgcgcc ccgtacaagt tccgcagttg cagaagccaa
     1921 tgattctccg tcct
//
