LOCUS       CP125032                2101 bp    DNA     circular BCT 16-MAY-2023
DEFINITION  Escherichia coli strain KFS-D13 plasmid pKFS-D13_5, complete
            sequence.
ACCESSION   CP125032
VERSION     CP125032.1
DBLINK      BioProject: PRJNA956323
            BioSample: SAMN34598746
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2101)
  AUTHORS   Gomi,R., Matsumura,Y., Yamamoto,M., Matsuda,T. and Harada,H.
  TITLE     Genomic surveillance of antimicrobial-resistant Escherichia coli in
            fecal sludge and sewage in Uganda
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2101)
  AUTHORS   Gomi,R., Matsumura,Y., Yamamoto,M., Matsuda,T. and Harada,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-MAY-2023) Department of environmental engineering,
            Kyoto University, KyotoDaigakuKatsura, Nishikyo-ku, Kyoto-city
            615-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. v2.9.1-b1780
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/09/2023 17:09:07
            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)                     :: 5,445
            CDSs (total)                      :: 5,326
            Genes (coding)                    :: 5,075
            CDSs (with protein)               :: 5,075
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 251
            CDSs (without protein)            :: 251
            Pseudo Genes (ambiguous residues) :: 0 of 251
            Pseudo Genes (frameshifted)       :: 91 of 251
            Pseudo Genes (incomplete)         :: 177 of 251
            Pseudo Genes (internal stop)      :: 39 of 251
            Pseudo Genes (multiple problems)  :: 53 of 251
            Pseudo Genes (short protein)      :: 4 of 251
            ##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..2101
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KFS-D13"
                     /isolation_source="Fecal sludge"
                     /db_xref="taxon:562"
                     /plasmid="pKFS-D13_5"
                     /geo_loc_name="Uganda"
                     /lat_lon="0.19 N 32.35 E"
                     /collection_date="2018"
                     /collected_by="Hidenori Harada, Mai Tanaka"
     gene            622..1587
                     /locus_tag="QL144_27220"
     CDS             622..1587
                     /locus_tag="QL144_27220"
                     /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="WHJ77324.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            1591..1857
                     /locus_tag="QL144_27225"
     CDS             1591..1857
                     /locus_tag="QL144_27225"
                     /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="WHJ77323.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          1016..1247
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 cgttgctcaa cgcctcacag acacggatta aaatccgcat ccgttcaccg ttttttaaag
       61 tccgttaaaa gcatgatgcc atctccgaga gttaatctcg tcaaatgcta aatcgtgggg
      121 gtcccctttg gggttccgat ttagtgattg acgacaccac cgattaaaaa acttatgcgg
      181 ggtggatggt ttcacgaagt gaggccatcc acctgtaaga cagggttttg tttttattcc
      241 ctgttttggt gatcgggtgt gtggaaaagg ttggggtaag ccgttcgggg gtgcttgttt
      301 tggggggtta aaattgtggt tattttttgc gcaattctcg cgcgtgatcc ttgtatttat
      361 acttaaggga taaatggcgg atatgaaata gtggtttagc ccagtaatga cgaggctttg
      421 agtgggtttt gacaggtcaa agaaaatgga gcagaattga ggcgttttta atcggcgttg
      481 gggagtgcgt caacactccc caacatttcg aatgtgtcac ctcagcggca aactctggtg
      541 acatgtactg gctcgcaatg cacaggtacg tgatgaatat accacatcaa atcacagcct
      601 gcccagatcg gagcaggctt aatgtcagaa gataaattcc tttcggacta cagcccccgt
      661 gatgcagttt gggataccca gcgcacgctt accgattctg tcgggggtat ctaccagact
      721 gctgctgaat tcgagcgcta tgcactccgt atggcctcct gtagcggttt gttacgtttt
      781 ggttggtcta ccatcatgga aaccggagaa acgcgcctac ggcttcgtag tgcgcaattt
      841 tgccgtgtcc gtcattgccc tgtctgccag tggagaagaa ccctcatgtg gcaagcccgt
      901 ttttatcagg ctctaccgaa aatcgttgtg gattacccgt cttcccgatg gttgtttctg
      961 acgttaactg tcaggaactg cgagataggt gaacttggaa cagtccttac agcaatgaat
     1021 gcggcgttta agcgaatgga aaagcgaaag gagctatcac ctgttcaggg gtggatcagg
     1081 gctacggagg tgacgcgagg taaggatggc agcgcacatc cgcattttca ctgtctgctg
     1141 atggtgcaac cttcttggtt taaagggaag aactacgtta agcacgaacg ttgggtagaa
     1201 ctctggcgcg attgcttgcg ggtgaactat gagccgaata tcgatattcg ggcagtaaaa
     1261 actaagacag gtgaggttgt ggccaacgtt gccgagcaac tgcaaagcgc ggttgctgaa
     1321 acgctgaaat actccgttaa accggaagat atggcaaacg atcctgagtg gtttcttgag
     1381 ctgacgcggc agcttcacaa gcgccgtttt atctcgaccg gtggggcgct aaaaaacgtc
     1441 ctccagttgg atcgagaaac caatgaggat cttgtcattg ccgacgatgt aggggatggc
     1501 actgatgacg ggaagcggac ggcgtttgtc tgggattcag gtaaacggcg ttacaaacgc
     1561 gcccctgaga aggataaatc ggattaacgt atgaatatta atattgaata cctgaatgga
     1621 aataagacta ttggtttatt ttttttaaga agtgaagcgg tgattcctga caggtttaaa
     1681 aaccttattt tgcttattga tggattaagt tttggcacat ttggttttca tccgcacgaa
     1741 ggttttgagg atgaattaat tttatatatt cagaaaacaa acgagagggt aaaaactctt
     1801 tttgtgaaaa tagatttaaa cggtatcaag tttggatttt taagaacgca ttcttagttc
     1861 tggaaaagag ccagcggcag actgaggtga taggtacgag attgcatgca atctctagtg
     1921 ctctgtctat cctgcattat cctcagcatt atcctcagca ttatcctcag ccttgccaac
     1981 tcgacaccaa tgcaggatag acaatccgat gtcaaatgtt aacactctgc gagtggtaca
     2041 ttttccccgg attatcgtcc tgagcctgcc gctggctctc tttctaccgc ctcgctttgc
     2101 t
//
