LOCUS       NZ_CP069573             5164 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1250 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP069573
VERSION     NZ_CP069573.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357392
            Assembly: GCF_016890005.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5164)
  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  JOURNAL   Unpublished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 5164)
  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                   :: 770.24x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:03:03
            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)                     :: 5,029
            CDSs (total)                      :: 4,910
            Genes (coding)                    :: 4,669
            CDSs (with protein)               :: 4,669
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 241
            CDSs (without protein)            :: 241
            Pseudo Genes (ambiguous residues) :: 0 of 241
            Pseudo Genes (frameshifted)       :: 65 of 241
            Pseudo Genes (incomplete)         :: 178 of 241
            Pseudo Genes (internal stop)      :: 44 of 241
            Pseudo Genes (multiple problems)  :: 45 of 241
            Pseudo Genes (short protein)      :: 4 of 241
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069573.1.
            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..5164
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1250"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1250"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(4799..5164,1..549)
                     /locus_tag="I6J80_RS24675"
                     /old_locus_tag="I6J80_24685"
     CDS             join(4799..5164,1..549)
                     /locus_tag="I6J80_RS24675"
                     /old_locus_tag="I6J80_24685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001271363.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(753..1151)
                     /locus_tag="I6J80_RS24680"
                     /old_locus_tag="I6J80_24690"
     CDS             complement(753..1151)
                     /locus_tag="I6J80_RS24680"
                     /old_locus_tag="I6J80_24690"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1328..2254
                     /locus_tag="I6J80_RS24685"
                     /old_locus_tag="I6J80_24695"
     CDS             1328..2254
                     /locus_tag="I6J80_RS24685"
                     /old_locus_tag="I6J80_24695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_015231136.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPDRGGAKKDSGNLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQDRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2257..2790
                     /locus_tag="I6J80_RS24690"
                     /old_locus_tag="I6J80_24700"
     CDS             2257..2790
                     /locus_tag="I6J80_RS24690"
                     /old_locus_tag="I6J80_24700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168767.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISHDFQRLEESVANMKVNADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(2844..3065)
                     /locus_tag="I6J80_RS24695"
                     /old_locus_tag="I6J80_24705"
     CDS             complement(2844..3065)
                     /locus_tag="I6J80_RS24695"
                     /old_locus_tag="I6J80_24705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019842149.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_019842149.1"
                     /translation="MAKLGENTPHIIDAAVDFMASSQAFREYLKKLPPDNTIPPDLTDE
                     HVPLYIRRLEYYRLLYRPKQTESYWKKR"
                     /name="hypothetical protein"
     Typing          2..395
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.747"
                     /coverage="92.0"
                     /evalue="0.0"
     Typing          4800..5164
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.902"
                     /coverage="83.0"
                     /evalue="1.0999999999999999e-166"
     Typing          1329..2251
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.675"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtgaactaca gcggcctgat ttgcaaaaat ccgttccacc tggaatggct ggtgatggag
       61 tggcgcgagg aagcctatac cctcgatgaa ctggctgatt atctcgattt gagcgcctca
      121 gagcgtcgta gcatcgataa acattacggg atggggcgaa actgccacct gttcgaaatg
      181 acgcgcaaat gggcttacag ggcgattcgt cagggctggc cagcgttctc acagtggctt
      241 gaagcggtga tccagcgtgt cgaaatgtac aatgcatcgc ttcccgttcc gctttcactg
      301 gctgaatgtc gggctattgg caagagcatt gcgaaataca cgcacaggaa cttcacgccg
      361 gaaactttcg cacagtatgt ggctgatacg cacacgccag aaattcaggc tgcacgcggt
      421 cgcaagggcg gttctaagtc taagcgcagc acagtagcta catctgcacg cacgctgaaa
      481 ccgtgggagg cattagggat cagtcgcgcc tggtattacc aactgaaaaa acgaggtctc
      541 gtagagtaga ccaaataagc ctatatcaga taacagcgcc tttctggcgt ctttttgagc
      601 agcaggtttt ttgccgtttt tccccgttca gccctgcaat ggcgcggctt tccgcgtgat
      661 tgtggtggta gtgctcgccg cagtctcatg accgagcgta gcgagcgaat gagcgaggaa
      721 gcaccaggga atcggaacac ggatggaggc acttacgcgt ctgggtttgg ggatgtctcc
      781 agatcgtact taagttcctt aagtgcctgt aatatcctgt cttttttata gcatagctcg
      841 cctgtttttg tgtctaccag tcctgcttcg atcagtagcc cagccgcgag aaagagccgg
      901 tgattgcgtt cccgtcgttg tttttttccc tcgattcgtt tttggaccgc ctgttttcgt
      961 tcgctctcct gtgcctgtaa gtcgtttttt tccgctgttg ccagtacgtg gagaagtttg
     1021 cgttcctgtt ctgtgagtcc ggcttcgttg tcgatcaggt caataatctg tctctgtcgt
     1081 gcggtctgtt ctccgagctt cctgatgaat ccgatccgtt tcttcagcca ttcgatgttg
     1141 ctgatgcgca tgttcgtgat gctccctggt gtttttttgc ggtgtgttgt ggtcgtgcag
     1201 tatatcgctt gcggtcggcg ggtgcagggg gtatcttccg tgctaattcg taaaattaga
     1261 aggaagcgca cttatatgtt tctctccttc gtcgagaaac agtgcgctcc tgcagagggc
     1321 tgaaaccgtg gcaacctatc acctcagcgt taaatttggt ggcaaggggc aggctgcaaa
     1381 ccacgccgat tacatcgagc gcaaagagaa ataccgcgac cgtcaggatt tggaatattc
     1441 cgcacacgga aacatgccgg aatgggccag ggataatcct tcccatttct ggcaggcggc
     1501 tgaccagttt gaacgtgcga acggttcgac ctatagggaa cttgaaattg cattaccccg
     1561 tgaactgaca ccggaacagc gccttgaact ggtgcaggat tttgtacgtc aggaagctgg
     1621 cgaacggcac gcctggagtt ttgccattca caatccgaaa gcgagcattg acggcggcga
     1681 acagcctcat gcgcatatca tgatgagtca gcgtgtgaat gatggcattg aacgtacacc
     1741 ggaacagtat ttccggcgct ataacgccag gtatcccgac cggggaggtg cgaaaaagga
     1801 ttccggaaac ctgaccccca ctcagcaaaa agagcagttg cgggaattgc gaaaacgctg
     1861 ggaggtgaag cacaacgaac atatgagaaa gcatggcttt gaaaggggct tcattgactg
     1921 ccggacgctg aaagaacagg gcattgaacg acgtcccgaa gtgcatctgg gttttgaagc
     1981 tgctggacgg cttgatgatg cccagcgtca tgacatcatg caaaaacggt ctgaaccgga
     2041 ctattcccgc catcttgaac aggcgcgaac ggtcgggcat gacatcaggg aatggctgga
     2101 cactccggtt aagcaacatg aactggtcag aaggcttcaa catgatgttg cgcgggagca
     2161 tggctttgac atgagagaca gagtgagcag acaggaccga actgaacctg aacgggttaa
     2221 atcaccgtca cgtggatttt ctatgggatt ctgaacatgg ccagcacaga agaaaaatta
     2281 ctcacgctcc tgttatcggt ggagcatctg caacataccg caatggagca acagaaagct
     2341 gttgctgatt ctctggctgt ggcaagggaa acacttcgcg gatatcggga tatttctgac
     2401 ggtgtggcaa aacaggtcag ggatgaagtc agaaacgagg tgcagaagct ggacgtagca
     2461 gggctgatag gtgagcgcat cagccatgat tttcagcggc tggaagagtc agtcgcaaac
     2521 atgaaggtaa acgcggatgc cctgaacagg gatattgcga caattcacag caatatcgtg
     2581 caggaataca acacccttaa agggtatagc tggaaatggc tgggtggggt gtcagtggct
     2641 tttctggtta tgttctgtgt gctcggatgg ggaatgaaaa caatactcga caggaactac
     2701 aacgccacag cggcggtgta tcagaaagtt gtgacactgg aagataaact ggcggagaaa
     2761 cctgtcacgg gtaagagccg gaaaaactga cgcgcttcgt ttgtccaacg cctcacggag
     2821 cgcgaaagga tttcgcgaac cgttcaccgt tttttccaat atgattctgt ctgctttggt
     2881 cgataaagca gtcgatagta ttccagcctt cgtatatata acggtacgtg ctcatcagta
     2941 agatctggcg gtattgtgtt atcaggggga agttttttca gatactcacg aaatgcctgg
     3001 cttgatgcca taaaatctac agctgcatcg ataatatgtg gggtgttttc acctaatttt
     3061 gccatgatga taatccttat attatcacgg tttgtgaatg atagggtgtc actattattt
     3121 atgcgttagt gaaccagaaa aaatcccccg ttggcatagg gggatatgta aggagaaata
     3181 acttcgcagg tgttcttgtt tgtataacgt gaaaagactg cacgcaactt aataagtctg
     3241 ccgtacttac tttcagtttt caacataagg tttataacaa tgtatggaat ggaagtgagc
     3301 tttaaggttt cagctctaaa aaataaaata tttattagtt ggctggttgt tgttcttgtt
     3361 ctgtatgtat ataaacacta tcgacatatt atgaccggga acattcctta ccccctctgc
     3421 gctcgcagag gttttttttg tcattaatta ataatgaact gaaatgcagt tccgatacct
     3481 ccatttgcac attatccctg acatatggta ccggaaccgc attaatttta tgttataaga
     3541 gtttattttt aatgtccaga tggtttaata gtatttatat gtaattagct gtatggatag
     3601 tactggtttt attgtataac ttgtcgtttt ttttattgtt tttgtgtggt gtgctaatct
     3661 ttaagttata aaaaaacccc ttggaataca ggggcaaaag taaggaaaac aaatggatgc
     3721 tcagtttgtg tgacacttta aactaatgga actatagagt ggaggttgtt acagtcgctt
     3781 ttataaaaca gcaaccagtt tttttcaata gtctgatgat ggttgtgaca gttttgtgat
     3841 attgttcaaa atgtttcttg ttgaatgttt gttttttggt ctattggtgt ctggttttat
     3901 tttttctgct attacatatc aagaaatgtg attggtgtag caagagtgga atgcgatgtg
     3961 gataaactaa ttggttgtcg aatctaattt acttagaaaa ctacacttgt ttttgtgtat
     4021 gaatttagtg aatttgtctg tctatgtgtt ttcgtgcatt tataaatcct tcgtcaggat
     4081 cttaaattta gtgttgaata tgtagggcct gtacggtaat tattatttag cgtagctact
     4141 tcatcgttgt tcgaacacaa ccaacaacct gtaattgttg tttctcttgg ttccccactt
     4201 ttgtggggtt ttttatctct tccgtgcatc gtaaagcgcg gactccttct ggaaaggttg
     4261 ttttagggca tcactgaggc attttttgcg tttgtgaata ttgagcatcc gataactaaa
     4321 atatttccca tagactctga ttcttgccac cgaccccagg tcggtttttt tttgtcctgg
     4381 cgagatgtga agtttggaaa caggaaaccc cgtcagagcg ccacgcacca ggggagaaaa
     4441 cttgtcgttt tgagccgttc ggtgttcaga acgcacgaaa ccgatcgcac atcgctttcg
     4501 tgcatagtta tgcaacgccc tgaaaacgtt tctgacgcgt ttttctggtt tggcctggtg
     4561 ttttcttgtc tttttgcgtt ttttgcgcca gaaagcgatt gagggcgttt tacagggtac
     4621 gtacaacggg agttatggta aatggatcgg tttttcggga aggatcgaca ggatttgccg
     4681 ttgggtgtag tgtaagcgac tgaaaaacaa acgcccctga aattcgtgtc tatccgccaa
     4741 gactttcacg aaaatacagg ggcgatgtcg gtcgataacc tggaaggaat cgtaacacat
     4801 gagcgccgcg cttcaatact tcgaagaaaa tttaccccac cgtccctatc acacggatga
     4861 tctcgctttc ggccttcgta tctccggcaa agggcgcgcg cttcttgcac ggtatatcca
     4921 gcagaaccag cctcatgcac agttctggct ggtttttgac gttgaccgcg agggggctgc
     4981 gattgactgg agcgaccgga acgctcccgc gccgaacatc accgttaaaa atcctgtgaa
     5041 cggacacgct cacctgctct acgcactcaa catcgccgtg agaaccgcgc ctgatgcctc
     5101 ggttaaggcg ctgaaatatg ccgcagcggt tgaacgttcg ctgtgtgaga aactttgtgc
     5161 ggat
//
