LOCUS       NZ_CP047824             2961 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Staphylococcus aureus strain UP_1278 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP047824
VERSION     NZ_CP047824.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11175630
            Assembly: GCF_009912195.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2961)
  AUTHORS   Dilthey,A., Meyer,S. and Kaasch,A.
  TITLE     Increasing the efficiency of long-read sequencing for hybrid
            assembly with k-mer-based multiplexing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2961)
  AUTHORS   Dilthey,A., Meyer,S. and Kaasch,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JAN-2020) Institute for Medical Microbiology and
            Hospital Hygene, University Hospital Duesseldorf, Moorenstrasse 5,
            Duesseldorf 40225, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Unicycler Hybrid Assembly v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 43x / 446x
            Sequencing Technology :: Illumina MiSeq / Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 03:56:23
            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)                     :: 2,814
            CDSs (total)                      :: 2,732
            Genes (coding)                    :: 2,647
            CDSs (with protein)               :: 2,647
            Genes (RNA)                       :: 82
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 85
            CDSs (without protein)            :: 85
            Pseudo Genes (ambiguous residues) :: 0 of 85
            Pseudo Genes (frameshifted)       :: 47 of 85
            Pseudo Genes (incomplete)         :: 39 of 85
            Pseudo Genes (internal stop)      :: 19 of 85
            Pseudo Genes (multiple problems)  :: 18 of 85
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047824.1.
            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..2961
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="UP_1278"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
     gene            join(2876..2961,1..919)
                     /locus_tag="E3T02_RS14040"
                     /old_locus_tag="E3T02_14040"
     CDS             join(2876..2961,1..919)
                     /locus_tag="E3T02_RS14040"
                     /old_locus_tag="E3T02_14040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020368559.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_078098897.1"
                     /translation="MHSYTTRCIDENQDNETLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQRVI
                     EEVVKEKPKARWLFLTLSTRNAIDGDHLEQSLKHMSKAFNKLKMYTKVKKNLIGFLRST
                     EVTVNKNDGSYNQHMHVLLCVESAYFKKQGQYIKQSEWVDLWQKALQVDYRPVANIKAI
                     KPNQKGDKDIQAAIKETSKYSVKSSDFLTDDDERNQEIVNDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKTTDEEEKAHSITAIWNFEKQNYYLKDLKR"
                     /name="protein rep"
     gene            complement(1896..2642)
                     /locus_tag="E3T02_RS14045"
                     /old_locus_tag="E3T02_14045"
     CDS             complement(1896..2642)
                     /locus_tag="E3T02_RS14045"
                     /old_locus_tag="E3T02_14045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001626434.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sulfite exporter TauE/SafE family protein"
                     /protein_id="WP_001626434.1"
                     /translation="MDFLFLIYILLAIFLGALVRSYFGFGEALVSMPLLSIIGLDFNSS
                     ISIVGLAGLCVAIFYTISGFKNIKLYPLVIMLTSSIIGIPIGIFILHNFDTNKIQEILA
                     IFLILYGFLKLIKNMFLKNTRNFKLLSPIWSSLAGVISGILGSLYNTHGVPIVIYATLS
                     KWKTKEFQNTIQAHFLFTSIFVVLGQATGNVWTDKTIPIFLITLPFLITATFIGKKLAK
                     KTSNHNFENWIYLLIGILGILLFISK"
                     /name="sulfite exporter TauE/SafE family protein"
     Typing          2..919
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.995"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 atggagagag aagaaaattg ataatgtaag ttatgcagat atactagaaa tcttaaaaat
       61 aaaaaaggct tttaacgtaa aacaatgtgg taacgtctta gagttcaagc caactgatga
      121 aggttattta aaattacata aaacatggtt ttgtaagtca aaattatgcc cagtttgtaa
      181 ttggaggcgt gctatgaaaa atagttatca agctcaaaga gtgattgaag aagtcgttaa
      241 agaaaagcca aaagcacgtt ggttatttct cacattatca acacgaaatg caatagatgg
      301 tgaccattta gaacaaagtt taaaacatat gtctaaggct tttaataaat taaaaatgta
      361 tacaaaagtt aaaaagaatt taattggatt tttacgttca accgaagtaa cggttaataa
      421 aaatgacggt agttataatc aacatatgca tgttttatta tgtgttgaaa gtgcgtattt
      481 taaaaagcaa ggtcagtata taaaacaaag tgagtgggtc gatttatggc aaaaagcatt
      541 acaagttgat tatcgacccg tagcaaatat taaagcgatc aaaccaaatc aaaaaggcga
      601 taaagatatt caagcagcta tcaaagaaac ctctaaatat tcggttaagt catctgattt
      661 tttaactgat gatgatgaaa gaaatcaaga aatcgtgaat gatttggaaa aaggtttata
      721 ccgaaaacgt atgttgagtt atggtggatt gcttaaacaa aaacataaga ttttaaattt
      781 agacgatgct gaagatggta atttgattaa tacaagtgat gaagataaaa caactgacga
      841 agaagaaaaa gcacattcaa ttacggcaat ttggaatttt gaaaaacaaa attattactt
      901 aaaagatttg aaacgttagc ttaaaagcta gcgtttttta tgtattttgc ccctgcggga
      961 actatagcgt tcaaccagca tggttgccca gtttttatgc caatttttaa atttgcatgt
     1021 aaatgggcag tgtctcaaaa attcgacact ggttttgctc gaattttagt ttgtgaaatt
     1081 aagatatatt tatttggctc atatttgcgt tttaaaagct tatgtaggtt tttaggcata
     1141 aaactatatg ttttacccct aaatctttaa aatgcccctt taaaattcaa aataaaggta
     1201 tttaaaattt taaaaaataa aaaagctact agcaaaaaac tagtagctta aatcttagtt
     1261 aaattttgat gtagtattaa tttttatatc tacgctacaa cgtcgattca aattcgtgca
     1321 gtattaattt ttgtatctgc gccacaacgc cgattctagt taatgcagta ttaatttttg
     1381 tatctgcgcc acaacgccga ttacttaaaa ctaagataaa aaatcgacga aggtcgatta
     1441 tggtttttgc acgcgttctt tttagaacgc ataagtgcgc ccttacggga tttaactaga
     1501 ttataacgat gaaaaataga cctgtaaagc aataactatt gtgataaagt ttgctaaaaa
     1561 ggagttttga agttgaaaaa aaacagaacg taatttattt tctattttct tatctttagg
     1621 aagtcttttt gctatcttta gtggtttctt tattttgggc attggaatgt taattggtgg
     1681 agcaacttta ttaactaaaa gtatttctga agaataaaag agttgacgca tttatgccga
     1741 gaaaatttat tgtgcgttga gaagaaccct taactaaact tgcagacgaa tgtcggcata
     1801 gcgtgagcta ttaagccgac cattcgacaa gttttgggat tgttaagggt tccgaggctc
     1861 aacgtcaata aagcaattgg aataaagcaa aaagtttatt tagaaataaa aagtaatata
     1921 cctaaaattc ctattagtaa ataaatccaa ttttcaaagt tatgatttga agtttttttc
     1981 gctaattttt tacctataaa tgttgctgtt attaaaaatg gtaaagtgat taaaaaaatc
     2041 ggaatggttt tgtctgtcca tacgttacct gtagcttgtc ctaaaacgac aaatatagag
     2101 gtaaataaga aatgggcttg tattgtgttt tgaaattctt ttgttttcca tttacttaaa
     2161 gttgcatata tgacgatagg tacaccatgg gtattatata aactgcctaa tattccagat
     2221 ataacacccg cgagagaact ccaaataggg gagaggagtt taaaatttct tgtatttttt
     2281 aaaaacatat ttttaattaa ttttagaaag ccgtatagga ttaaaaaaat agctaaaatt
     2341 tcttgtattt tgtttgtatc aaagttgtga agaataaaaa taccgatggg tatgccaatt
     2401 atgctgcttg ttaacataat tactaaaggg tataatttaa tgtttttaaa tcctgaaatg
     2461 gtataaaaaa tagcaacaca tagaccagct agtccaacaa tagatataga actattgaaa
     2521 tctaatccaa taatagacaa aagaggcata cttactaaag cttctccaaa accgaagtaa
     2581 cttctaacta atgctcctaa aaaaatagct aagagtatgt aaattaaaaa caaaaaatcc
     2641 attacgaatt tctccttaaa aattgtgttt tttattttga ttttgaaacg agtgaaacga
     2701 gtttcttctt gtcttgatac tatatagaaa taattcaaag ataaaaaaag tcgtttgaac
     2761 tttgatatta cagtgttttt agctattttt aacgtggaaa ataaaatttg acataaaaaa
     2821 actccagtaa taagattaaa ttgtcgagat aaaatcaaat actggaggtt tttatatgca
     2881 ttcttatact actagatgta tagacgaaaa tcaagataac gaaacattaa aagatatgac
     2941 taaaagtggg aaacaacgcc c
//
