LOCUS       NZ_CP107286             2573 bp    DNA     circular CON 14-NOV-2023
DEFINITION  Escherichia coli strain SW4848 plasmid p2.6, complete sequence.
ACCESSION   NZ_CP107286
VERSION     NZ_CP107286.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31221298
            Assembly: GCF_025808215.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2573)
  AUTHORS   Mota-Bravo,L.M.
  TITLE     Complete genome of multidrug resistant Escherichia coli SW4848
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2573)
  AUTHORS   Mota-Bravo,L.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-OCT-2022) School of Biological Sciences, University of
            California, Irvine, 1106 Biological Sciences III, Irvine, CA
            92697-2527, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 08-OCT-2020
            Assembly Method                   :: Unicycler v. v0.4.8-beta
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 38.7x
            Sequencing Technology :: Illumina MiniSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/14/2023 04:08:17
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,127
            CDSs (total)                      :: 5,007
            Genes (coding)                    :: 4,820
            CDSs (with protein)               :: 4,820
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 187
            CDSs (without protein)            :: 187
            Pseudo Genes (ambiguous residues) :: 0 of 187
            Pseudo Genes (frameshifted)       :: 79 of 187
            Pseudo Genes (incomplete)         :: 120 of 187
            Pseudo Genes (internal stop)      :: 45 of 187
            Pseudo Genes (multiple problems)  :: 49 of 187
            Pseudo Genes (short protein)      :: 4 of 187
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP107286.1.
            Bacteria and source DNA available from PI Luis Mota-Bravo.
            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..2573
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SW4848"
                     /host="Water from a lake"
                     /db_xref="taxon:562"
                     /plasmid="p2.6"
                     /geo_loc_name="USA: City Park Lake, Baton Rouge, Louisiana"
                     /lat_lon="30.429116 N 91.167173 W"
                     /altitude="8 m"
                     /collection_date="2015-11-02"
                     /collected_by="Luis Mota-Bravo"
     gene            1..114
                     /locus_tag="OF379_RS24855"
                     /old_locus_tag="OF379_24855"
     CDS             1..114
                     /locus_tag="OF379_RS24855"
                     /old_locus_tag="OF379_24855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001517211.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            complement(1103..1471)
                     /locus_tag="OF379_RS24860"
                     /old_locus_tag="OF379_24860"
     CDS             complement(1103..1471)
                     /locus_tag="OF379_RS24860"
                     /old_locus_tag="OF379_24860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880027.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_017880027.1"
                     /translation="MANFNPGPRTAIAAVRDSKNDIETWKKNGIRREEIVTVLNERYGL
                     NISLVAFDKALYRLRKSTDEPSLADVDSVSAAETNFSEASGPENGFFLSKNDFMRAEEE
                     SQRMVESFRDSLGRKKGF"
                     /name="hypothetical protein"
     gene            complement(1855..2004)
                     /locus_tag="OF379_RS24865"
                     /old_locus_tag="OF379_24865"
     CDS             complement(1855..2004)
                     /locus_tag="OF379_RS24865"
                     /old_locus_tag="OF379_24865"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001417847.1"
                     /translation="MPSEYDEQRDANDTQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          complement(2040..2213)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.571"
                     /coverage="100.0"
                     /evalue="2.6e-76"
     Typing          2..316
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.814"
                     /coverage="99.0"
                     /evalue="2.52e-61"
     Typing          2137..2573
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.744"
                     /coverage="90.0"
                     /evalue="5.3e-178"
ORIGIN
        1 atgcacgaac cccccgttca gtccgactgc tgcgcctgtt ccggtaacta tcgacttgag
       61 tccaacccgg aaagacatgc aaaagcgcca ctggcagcag ccactggtaa ctgatttaga
      121 ggagttagtc ttgaagttat gtgccagtta aggctaaact gaaaggacag atttggttac
      181 tgcgctcctc ttaagccagt taccgcggtt caaagagttg ctgctctgag aaccttcgaa
      241 aaaccgcctt gctgggcggt tttttcgttt ccagagcaag agattacgac gcaacgaaaa
      301 ggatctcaag aagatcatct gtgatattca acagatacct atctctcgat tcataaaaaa
      361 agccacataa gtggcttttt ttatgggtgg tacgtcaatt taaaagactg tgtactacaa
      421 agatcagaca cagaatgatg gtcagcacct ggcttataag tggtgcttta ataaacgccg
      481 taagcagttc ggccatacgt ttattccttc atattgatag aaaggaatac cggctcacgt
      541 tgacgtagat tcaccccagg ggtaaaatta ctttgctata agtaacgaca acgtgagctt
      601 cggtacatgt tttcgggtag cagtcagcga ttcgcagtcg ctgattgagg caaaaaaaag
      661 aaccattccg ggttcttttt ttttgccctt ttcaccccta ggacgtaatg atatcacatc
      721 tgaaaatgtg gcgtgcgagt caccaaaacg ctctatttac cataacatcc gttgcgtgca
      781 ccgcctgaga ggctctcagg gcgtttctga cgggaaaccg gtaaaacagg caacaaacca
      841 cccgaaaacc cgccagaaac gcgcaggctc tgtttttacg gcatgcatga gtatgcgcgc
      901 aagtgcatag cgcagaattt cacaccattc agccggggta agtcctgttt ccgatgttct
      961 tcttatccga aaacggtgaa cggggacgca atttattgcg tggccgtaag gcattgacca
     1021 agccgtaagg cacggtaggt aattgcaggt gtccgacaat ttcgagtaga ggatccacta
     1081 tttcactact tagaattcaa aatcagaatc ctttcttcct gccaaggcta tctctgaatg
     1141 actcaaccat tctttgagat tcttcttctg ctcgcatgaa gtcattcttg gacagaaaaa
     1201 aaccattttc aggcccactg gcttcagaga aattcgtttc tgcagcagac acagaatcca
     1261 catcagcaag agacggttca tctgtacttt ttctcaatct gtaaagagcc ttatcaaacg
     1321 caaccagtga gatattcagg ccgtaacgtt cattcagcac agtcacaatc tcttccctac
     1381 ggataccatt tttcttccag gtttctatat cgttcttgga atccctgaca gctgcaatgg
     1441 ctgttcttgg accagggtta aaattcgcca tataccgccc ataatgtctt atatttgtct
     1501 cataatagtc caaaaataag agtaaaacgc aaaaaatgtc ttacaattgt cttattgttg
     1561 tcctttccgg ttcatgtatc catgaaccgc ctgatgtgga acgcttttta tcgatctcat
     1621 gcgctgccaa agatagattc attctttaaa agtcaggtta cattatccct taaatggcca
     1681 tacaccatac gcaaccgcga ttttcatcgc aattgcatga attaaaaggt aaaaactgaa
     1741 tttcccgttt atttatgtaa tacacaacgt attacaacca cctgtaatca catgaaaata
     1801 aagaaataag atgtaatacc ggcgtattac acgtacgctg accagcgaaa aaagttataa
     1861 cgcttccctg ccgacaggcg gcccaaaatc caccggggcg tgcaggttct cttcagtaac
     1921 ctgcgccatt aaatcaaaaa ggtcatattc gccgggaagc tgcgtatcat tcgcatcccg
     1981 ttgttcatca tactcagatg gcatggggtg atatccagta gctaaggagt tgttagcggg
     2041 tttcggggcg cagccctgaa ccagtcacgt agcgctagca gagtatatac tggcttacta
     2101 tgttggcact gatgagggtg tcagtgaagt gcttcatgtg gcaggagaaa aaaggctgca
     2161 ccggtgcgtc agcagaatat gtgatacagg atatattccg cttcctcgct cactgactcg
     2221 ctgcgctcgg tcgttcggct gcggcgagcg gtaccaactt acaggcgggg cggaaatttc
     2281 ctgggagatg ccaagaagaa gcttaacgga gaagcaataa ggccacggcg aagccgtttt
     2341 tccataggct ccgcccccct gacaagcatc acgaaatctg acgctcaaat cagtggtggc
     2401 gaaacccgac aggacttaaa gataccaggc gtttccccct ggtggctccc tcgtgcgctc
     2461 tcctgttcct gcctttcggt gtaccggtgt cattccgctg ttatggccgc gtttatctca
     2521 ttccacgcct gacactcagt tccgggtagg cagttcgctc caagctggac tgt
//
