LOCUS       CP117208                4063 bp    DNA     circular BCT 14-FEB-2023
DEFINITION  Escherichia coli strain 2021QW-00057 plasmid p2021QW-00057_2,
            complete sequence.
ACCESSION   CP117208
VERSION     CP117208.1
DBLINK      BioProject: PRJNA288601
            BioSample: SAMN22066472
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4063)
  AUTHORS   Johnson,J.D., Blankenship,H. and Soehnlen,M.
  TITLE     Long read genome assemblers struggle with small plasmids
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4063)
  CONSRTM   Clinical and Environmental Microbiology Branch: Whole genome
            sequencing antimicrobial resistance pathogens in the healthcare
            setting
  TITLE     Direct Submission
  JOURNAL   Submitted (21-APR-2022) Division of Healthcare Quality Promotion, US
            Centers for Disease Control and Prevention, 1600 Clifton Rd,
            Atlanta, GA, USA
REFERENCE   3  (bases 1 to 4063)
  AUTHORS   Johnson,J.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-JAN-2023) Bureau of Laboratories, Michigan Department
            of Health and Human Services, 3350 N Martin Luther King Blvd.,
            Lansing, MI 48906, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2022
            Assembly Method                   :: Trycycler v. v0.5.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 140x
            Sequencing Technology             :: Oxford Nanopore, Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 02/06/2023 11:07:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.4
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,145
            CDSs (total)                      :: 5,027
            Genes (coding)                    :: 4,828
            CDSs (with protein)               :: 4,828
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 199
            CDSs (without protein)            :: 199
            Pseudo Genes (ambiguous residues) :: 0 of 199
            Pseudo Genes (frameshifted)       :: 69 of 199
            Pseudo Genes (incomplete)         :: 131 of 199
            Pseudo Genes (internal stop)      :: 43 of 199
            Pseudo Genes (multiple problems)  :: 43 of 199
            Pseudo Genes (short protein)      :: 5 of 199
            CRISPR Arrays                     :: 2
            ##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..4063
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2021QW-00057"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2021QW-00057_2"
                     /geo_loc_name="USA"
                     /collection_date="2021"
     gene            join(4043..4063,1..681)
                     /locus_tag="M0L40_00335"
     CDS             join(4043..4063,1..681)
                     /locus_tag="M0L40_00335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WDA85542.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(929..3076)
                     /locus_tag="M0L40_00340"
     CDS             complement(929..3076)
                     /locus_tag="M0L40_00340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /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="WDA85543.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="MobA/MobL family protein"
     gene            3255..3509
                     /gene="mobC"
                     /locus_tag="M0L40_00345"
     CDS             3255..3509
                     /gene="mobC"
                     /locus_tag="M0L40_00345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WDA85541.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2719..3077)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3078..3254
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2..681
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(933..3163)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.989"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaatcaaacg cccttatcga ggcaagctac aagctcactt tgcaggaaca gcgcttcctg
       61 ctggtctgta tcagccgcct aaaatccgga gaagattccc cttcgccgga tgaacaaaaa
      121 accatgacca tcacggctgc agagtttcat gatgcctttc ctgacatggg acggcagcac
      181 gctgaagcta ggctcaagga agcgatagat cgcctctggg acaggtcagt aatcatcaag
      241 aacgaggaaa aacgagaaga gttccgctgg gtgcagtacc gggcgcagta tttcaaaggt
      301 gaggcgaaag tagatatcac cttctccgat gccatcatgc cgtatctgac acagctcaag
      361 gggcagttta cgcgggtagt cgtgaagaac gtctccagcc tttccagcac ctacagcatc
      421 cgcatttacg agctgctcca gcagttccgc agcaccggtg acagaacgat agctatcgat
      481 gatttccgaa ccatgcttgc cgttgaagat aaatatcaac aattcaaaga cttgaataag
      541 atgataatca agccagccat cgccgaactg aacgaaaaaa gcgatctggt tgtaactgtt
      601 gagacgatca aaaaggggcg cacggttgta gccctgcatt ttcgcttcaa ggaagacaaa
      661 cagatcaaga tgacgatcta aaatcgattt taaggcacct aaaacgctcc ctgctgcgtt
      721 ttttttgtgt tagtagtgcg aaggtactat tgaagtgaaa aattgcgtca aaaacgctct
      781 gatgcagcga aaaaagaccc cccaattttt gggggcggaa aaacaaaact atgcttgcgt
      841 tatgtgagtg tgcttcttgc attcatccct gtcgatgaac atcgacgaac ataacacgat
      901 gttaaacaaa acaaaatatt gttcacattc actgtgacca accgcgatca tgtctcctct
      961 cggtggtgtg tgttcgtgca tcttcctcgc gctgccattc ctcccaggta cgattaaaac
     1021 ccagcgagcg gaacagatga tccggctgtt tttctggtgt gttgacggca gcaaaaagcg
     1081 gtgcctcacg ggttttcaga tgaaactgca tcagttctgg tgcaggtgat atgtggctgt
     1141 ctgcatcgtg atttacggca acaccatacc ctgcataccg taacccctta tcggtcagcg
     1201 cactgatgac cagatgcctg ttatcggctg agggaacggc aaacgcggga tacagcgtac
     1261 cattaagccg gataacaccg cccagagagt catccacgcc catgaccagc aaaagctgaa
     1321 gctggcgggt ttcccggtcg acagaactca tgaccggcat cagcgtcggt ggcagacgtc
     1381 cctgcataaa atccaccttc cttgccgctg gtgatggcat ggctggctgg cggtcttctc
     1441 caagacagaa agactccggc catgtcttcg gctggcggag attgcgggta tgttgcggcc
     1501 atgtctggca aacctgcgtc agcagttgct caaaggttgc agaggaataa acacgttgca
     1561 gtggcggacg ttggccgatt tcgcttcggt cacagatata accactcctg tcacgcatta
     1621 aatcaacact ctcaaagatt ctggtgcggt atttctccag ctcgttcccc cagagcgtat
     1681 attctccgtt ccggttgtga agcagaaggt aacaggtcat ttccccgtta ccaggcatgg
     1741 gagcctcgcc ataccccgta acgactgctc tcagcacccc tgaatccata acggcattgt
     1801 catttttcct gagctgctcc gcgcgactac gttcagtatc ttcctgttcc ttccggcgca
     1861 attcctcttc acgtttaagc aactgggctc tgagagctgc aaggccggat tccccccact
     1921 gctgccactg tttttcaaat gccatctgac tcgcgggaat gtcctgtttc tccaccttcc
     1981 ggtaatgctg tcgtaatttt tccatttgct ggctcagaga ctggattttt ccctgctcac
     2041 tacggtattc cggtgccgcc cattgcatca ggggaatacg ggaaaaaccg gacgaaaacg
     2101 gcgatgattt tttcaggctg gcagcatggc tcatcgcttc ctttcgttcg gtgttcagct
     2161 cttcccagcg tctgcgcgtc gcctgcatat ctgccatcat cgacatggca ttactggtga
     2221 gtttccatgc cgagttactg tccttcggca acgcttcgat aatgtcacgt agtgtgtacg
     2281 aagttgcgtt gtcaggaagc ccgatattca gaaggtcagc cacacggcgg gcaggctctg
     2341 tcagccctcc gttcctgagt tcggtgcggg aaatctgtat ttccaggtta agcctgttaa
     2401 tcagacgatt ctgttcgccg cgttctgttt cgataccgcg tgtttccatc gcacaggcag
     2461 actttccgag gtgaatacca ggcgttttct caagcccctg tcgctcgtat gaacgatggt
     2521 ctatctcttc ctgataaccg gcgttcgcca gtgccctgtt tgcatggtca gcccatgatg
     2581 cccgccacgt ctcggcatgt gtccggtcgt tccagtccct gacctttccg ctgaacccag
     2641 caggtccgat agccctcgtg gtcagcatga tgtgcgcatg gggatttgtt ttatccatgt
     2701 gatggaacgc cacatcagca atcatgccct gactgacaaa gttttctctg acaaaggcga
     2761 gaacggtttc ccgtgcggca tcctgcggca gttcgtgggg gatggcgagt tcaatttccc
     2821 gcgcaagttg tgagttcttc cggcgttcgg ccttctcaac ggcattccag agttcggcac
     2881 ggttcgtaca ccaggcaggg gcggtggcgg gggtcagaat cacagcctca gccacaccgc
     2941 ttttgcgggt gtagtcgtga gtcagtccgg tacgctcatc aagcatcagt gaaccggaac
     3001 gataggcagc ggaagctacg gcgctgtagc cgctgcttct ggagataatt ttcatgctga
     3061 gatgataaat cgccatttct gccgtaatgc ctttttgtag ttttctttca gccccgcagg
     3121 gcgcacacaa tcgaaacgga gtggagattg tataagtgcg cacttcgtga tttgccgtgc
     3181 attatgccag ctcagttttt aaactaccag tgacgcgcta aaatgcgatt tttcatcgcg
     3241 cacggagtta catcatgagc agaacgctcg aacagaagat tgctgatgct gaggcgagat
     3301 tacagcgcct gaaggcgaag agccggagcc tggacacagc gcagaaggtt gttgtgggtg
     3361 ctgcattgct ggcaaaggtc agaaagccgg aggaggtgca gttgcgtgcc tggttactcc
     3421 agttcctgaa ggcagaggtg acacgacagg ctgatgtgac gcgcatactg ccgctgatta
     3481 acgagctgga ggcgctgcca gaacagtgat tgtatcgtcc gctcgccgca gccccagcga
     3541 ccgagcgtta gcgagcgagt gggcgaggaa gcggaagtga atcagtcgcc aggttgagca
     3601 catacgcacg gtttttcggc aggtgatatg cgctgaaccc gcatgaatac tgggtttcca
     3661 cagggttgga gggggtgtat tcgaaacttg caattctgct ttattgcaac gcattgtttt
     3721 tattggtttt ttgttttcag caccccaagt tatccacagg ctcgccgtta agtttttaag
     3781 atcttatttt tagatctttt tttttaaaac ctttttaggt cttgtaacac catgatttta
     3841 aagatgttct ggcaagataa gtggagcttt tgggggtgaa aggtggagct tttgggggtg
     3901 aaaggtggag cttttggggg tgaaaggtgg agcttttggg ggtgtaatcc acagaaaaag
     3961 ggggttgcaa aaaaaaaact tccacccata tgataagtgg cgtacagtaa aaaaacgcca
     4021 ccaatagcaa cgagcaagcg aaatgtcaga tctgatagct tac
//
