LOCUS       NZ_CP069548             2099 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1248 plasmid unnamed6.
ACCESSION   NZ_CP069548
VERSION     NZ_CP069548.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357390
            Assembly: GCF_016889845.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2099)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2099)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.14.1
            Genome Coverage                   :: 947.14x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:14:06
            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)                     :: 4,982
            CDSs (total)                      :: 4,860
            Genes (coding)                    :: 4,620
            CDSs (with protein)               :: 4,620
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 240
            CDSs (without protein)            :: 240
            Pseudo Genes (ambiguous residues) :: 0 of 240
            Pseudo Genes (frameshifted)       :: 68 of 240
            Pseudo Genes (incomplete)         :: 167 of 240
            Pseudo Genes (internal stop)      :: 52 of 240
            Pseudo Genes (multiple problems)  :: 43 of 240
            Pseudo Genes (short protein)      :: 4 of 240
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069548.1.
            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/
FEATURES             Location/Qualifiers
     source          1..2099
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1248"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1248"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(<1..399)
                     /locus_tag="I6J78_RS24520"
                     /old_locus_tag="I6J78_24525"
     CDS             complement(<1..399)
                     /locus_tag="I6J78_RS24520"
                     /old_locus_tag="I6J78_24525"
                     /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_204148187.1"
                     /translation="MDDRFMIKKSHLMSSKYDHDALDDLSNELIEKLKYEYKMLQNVKS
                     FSVSEDYEHLELNRYLDDEIKSLKTVSFGDDLELRELNRYLDKEIMSLKTVSFGDDLEL
                     LELNRYLDKEIMSLKTVSFGDDHELRELN"
                     /name="hypothetical protein"
     gene            complement(413..1642)
                     /locus_tag="I6J78_RS24525"
                     /old_locus_tag="I6J78_24530"
     CDS             complement(413..1642)
                     /locus_tag="I6J78_RS24525"
                     /old_locus_tag="I6J78_24530"
                     /inference="COORDINATES: protein motif:HMM:NF037255.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PIN-like domain-containing protein"
                     /protein_id="WP_114499597.1"
                     /translation="MLTQESATDEKNKTEMNNRGFFMSMRDMFKGFYTGNIKDNPDIYR
                     ADDTLFVFDTNVILDLYRNNQETISAIKKSIEQIRENIYLPYFTALEYQRRRLGVIDDQ
                     KHLISTTTSPVVDLLSYSSKLLEKCNNSKARHYEGLNRQVSELIKKSIDLLNSGLEDMY
                     GKLNESIDELNTKDIHREWIDNIFSGKIGVKKDQEYINGLDAECKSRYELKTPPGFCDA
                     DKVGKPDNIFSYDGITYQRAYGDFYIWKETLEHAASTGAKNVFLITNDAKDDFIFKVGR
                     DKENRENKGVHAILREEMLNNSSVQFFDVINTKELILNINNAFDLKINTENLNISTGNG
                     YGAGSNTSNSEHRALLENRIKREKAEIAGLSKKLESATDPEIMAKIRLLMKGKLSSIQK
                     MSSILSSITE"
                     /name="PIN-like domain-containing protein"
     gene            complement(<1913..1993)
                     /locus_tag="I6J78_RS24530"
                     /old_locus_tag="I6J78_24535"
                     /pseudo=""
     CDS             complement(<1913..1993)
                     /locus_tag="I6J78_RS24530"
                     /old_locus_tag="I6J78_24535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     Typing          complement(1667..2099)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.878"
                     /coverage="85.0"
                     /evalue="3.0300000000000004e-110"
ORIGIN
        1 gttcagttcc cggagctcgt ggtcatcgcc gaaactgacg gttttcagac tcatgatctc
       61 cttgtccaga tagcggttca gctcgagaag ctcgaggtca tcgccgaaac tgacggtttt
      121 cagactcatg atctccttgt ccagatagcg gttcagttcc cggagctcga ggtcatcgcc
      181 gaaactgacg gttttcagac tcttgatctc atcgtccaga tagcggttca gctcgaggtg
      241 ttcataatct tcactgacgc taaaactctt aacattttgt agcatcttat attcgtactt
      301 cagcttctct attaactcat tacttaaatc atcaagagca tcatggtcat atttcgatga
      361 catcagatgc gattttttaa tcataaatct gtcatccata tgatactcct tcttactctg
      421 ttattgatga aaggattgag ctcatcttct gaatagaaga taactttcct ttcattagaa
      481 gtctaatttt agccattatc tcaggatctg tcgcagattc tagcttttta gatagaccag
      541 caatttctgc cttttctctt tttattctgt tttctaggag tgctcggtgt tcactgttgc
      601 ttgtgttact tccagcccca tacccattcc ctgttgaaat gttgaggttt tcggtgttta
      661 ttttaagatc gaatgcgttg tttatattta agattagttc ttttgtgttt attacatcaa
      721 aaaattgaac gcttgagtta tttagcattt cctctcttaa tatagcgtga acacctttgt
      781 tttctctatt ttctttatct ctaccaactt taaatatgaa gtcatctttt gcatcattag
      841 tgattaggaa aacgtttttc gcacctgttg atgcggcatg ctctagagtt tctttccata
      901 tgtagaaatc accataagct ctttgataag taatgccgtc ataagagaat atattatctg
      961 gctttcctac cttgtctgcg tcacagaatc cagggggcgt ttttaattca taccttgatt
     1021 tacattcagc atctaatcca ttaatgtatt cttggtcctt ttttacgcct atttttccag
     1081 agaatatgtt gtcaatccat tctctatgta tgtcttttgt atttaactca tcaattgatt
     1141 cattgagttt tccatacata tcctctagtc ctgagtttaa taaatcaatg gattttttta
     1201 ttaactcaga tacttgtctg tttagccctt cgtaatgcct tgctttggag ttgttgcatt
     1261 tttctaatag ttttgatgaa taagataata aatcaacaac aggagatgtt gttgttgata
     1321 tcaagtgttt ctgatcgtcg ataaccccta atcttcttct ctgatactcc aacgcagtaa
     1381 aataagggag atatatattt tctcgtatct gttctattga tttctttatc gcagatattg
     1441 tttcctggtt gtttctatat aggtctaata tgacattggt gtcaaaaaca aataatgtat
     1501 catctgccct gtatatatca ggattgtcct ttatgttgcc tgtataaaat cctttaaaca
     1561 tatccctcat cgacataaaa aagcccctat tattcatttc tgttttgttc ttttcgtcag
     1621 ttgctgactc ttgtgtcaac atcaaaatca atcgatcatg caaatgatct cttgagattc
     1681 cttttttcta cgcgtaatct ttcttcctgt aaacgaaaaa accaccctgg caggtggtct
     1741 tttcgaaggt tagataatcc tggcagattc tctaaccgtg gtaacagtct tgtgcgagac
     1801 atgtcaccaa atccgtcctt tcagtgtagc ctcactcagg ccaccacttc aagaactctc
     1861 gatacatctc tcgcacatcc tgtttaccag tggccgttgc caatggcgat tagtcgtgtc
     1921 ttttcgggtt ggactcaaga cgatagttac cggataaggc gcagcggtcg gactgaacgg
     1981 ggggttcgtg catacagtcc agcttggagc gaactgccta cccggaactg agtgtcaggc
     2041 gtggaatgag aaaccgcggc cataacagcg gaatgacacc ggtaaaccga aaggcagga
//
