LOCUS       NZ_CP047832             2476 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Staphylococcus aureus strain UP_996 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP047832
VERSION     NZ_CP047832.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11175622
            Assembly: GCF_009912655.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2476)
  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  JOURNAL   Unpublished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 2476)
  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 03:52:19
            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)                     :: 2,719
            CDSs (total)                      :: 2,637
            Genes (coding)                    :: 2,566
            CDSs (with protein)               :: 2,566
            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)              :: 71
            CDSs (without protein)            :: 71
            Pseudo Genes (ambiguous residues) :: 0 of 71
            Pseudo Genes (frameshifted)       :: 42 of 71
            Pseudo Genes (incomplete)         :: 32 of 71
            Pseudo Genes (internal stop)      :: 13 of 71
            Pseudo Genes (multiple problems)  :: 14 of 71
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047832.1.
            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..2476
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="UP_996"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
     gene            complement(join(2313..2476,1..313))
                     /locus_tag="E3S94_RS13635"
                     /old_locus_tag="E3S94_13635"
     CDS             complement(join(2313..2476,1..313))
                     /locus_tag="E3S94_RS13635"
                     /old_locus_tag="E3S94_13635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664727.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000664727.1"
                     /translation="MKERYGTVYKGSQRLIDEESGEVIEVDKLYRKQTSGNFVKAYIVQ
                     LISMLDMIGGKKLKIVNYILDNVHLSNNTMIATTREIAKATGTSLQTVITTLKILEEGN
                     IIKRKTGVLMLNPELLMRGDDQKQKYLLLEFGNFEQEANEKQENALSDYYSFKD"
                     /name="replication/maintenance protein RepL"
     gene            complement(761..1495)
                     /gene="erm(C)"
                     /locus_tag="E3S94_RS13640"
                     /old_locus_tag="E3S94_13640"
     ARG             complement(765..1495)
                     /name="erm(C)"
                     /gene="erm(C)"
                     /gene_name="23S rRNA (adenine(2058)-N(6))-methyltransferase
                     Erm(C)"
                     /tool="amrfinderplus"
                     /drug_class="LINCOSAMIDE/MACROLIDE/STREPTOGRAMIN"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(1556..1615)
                     /gene="ermCL"
                     /locus_tag="E3S94_RS13645"
                     /old_locus_tag="E3S94_13645"
     CDS             complement(1556..1615)
                     /gene="ermCL"
                     /locus_tag="E3S94_RS13645"
                     /old_locus_tag="E3S94_13645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002497446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA methylase leader peptide ErmCL"
                     /protein_id="WP_002497446.1"
                     /translation="MGIFSIFVISTVHYQPNKK"
                     /name="ermCL"
     ARG             complement(762..1495)
                     /name="ErmC"
                     /gene="ErmC"
                     /gene_name="Erm 23S ribosomal RNA methyltransferase"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic; lincosamide antibiotic;
                     streptogramin antibiotic; streptogramin A antibiotic;
                     streptogramin B antibiotic"
                     /identity="99.59"
                     /coverage="100.0"
     Typing          complement(2..313)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="98.0"
                     /evalue="1.39e-162"
     Typing          complement(2304..2476)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.864"
                     /coverage="100.0"
                     /evalue="1.7399999999999998e-82"
ORIGIN
        1 tatttccttc ttctaagatt ttaagtgttg ttattactgt ttgtagactt gttcctgtag
       61 cttttgctat ttctcttgtt gtagctatca ttgtattgtt acttaagtgg acattatcta
      121 ggatatagtt aacgatttta agtttttttc cgccaatcat atctaacata cttattaatt
      181 gcactatata tgcctttacg aagttaccag acgtttgttt acggtataac ttgtctacct
      241 ctatgacttc tccactttct tcgtctatga gcctctgaga gcctttatag actgttccat
      301 atctttcttt catctttttc tcactcctta ttttaaacta ttctaactat atcataactg
      361 ttctaaaaaa aaaagaacat ttgttaaaag aaattagaac aaaatgagtg aaaaattaga
      421 acaaacaaat tccttataaa ccttatcatc tcaacctata ttaagatttt acctagttga
      481 atcttctttt ctatataaag cgtcggagca tatcaggggg ttatctaacg taaatgctac
      541 ccttcggctc gctttcgctc ggcattgacg tcagatactg caccccctga acccccatgc
      601 tccaacagca aaaaggaaac tttttgctgc ttttccgacg cttattcgct tcgctcatat
      661 ttatatagaa aagaagtgaa tgcgcaaaag acataatcga ttcacaaaaa ataggtacac
      721 gaaaaacaag ttaagggatg cagtttatgc atcccttaac ttacttatta aataatttat
      781 agctattgaa aagagataag aattgttcaa agctaatatt gtttaaatcg tcaattcctg
      841 catgttttaa ggaattgtta aattgatttt ttgtaaatat tttcttgtat tctttgttaa
      901 cccatttcat aacgaaataa ttatacttct gtttatcttt gtgtgatatt cttgattttt
      961 ttctatttaa tctgataagt gagctattca ctttaggttt aggatgaaaa tattctcttg
     1021 gaaccatact taatatagaa atatcaactt ctgccattaa aaataatgcc aatgagcgtt
     1081 ttgtatttaa taatctttta gcaaacccgt attccacgat taaataaatc tcatcagcta
     1141 tactatcaaa aacaattttg cgtattatat ccgtacttat gttataaggt atattaccaa
     1201 atattttata ggattggttt ttaggaaatt taaactgcaa tatatccttg tttaaaactt
     1261 ggaaattatc gtgatcaaca agtttatttt ctgtagtttt gcataattta tggtctattt
     1321 caatggcagt tacgaaatta cacctctgta ctaattcaag ggtaaaatgc ccttttcctg
     1381 agccgatttc aaagatatta tcatgttcat ttaatcttat atttgtcatt attttatcta
     1441 tattatgttt tgaagtaata aagttttgac tgtgttttat atttttctcg ttcattataa
     1501 ccctctttaa tttggttata atgaattttg cttattaacg attcattata accacttatt
     1561 ttttgtttgg ttgataatga actgtgctga ttacaaaaat actaaaaatg cccatatttt
     1621 ttcctcctta taaaattagt ataattatag cacgagctct gataaatatg aacatgatga
     1681 gtgatcgtta aatttatact gcaatctgat gcgattattg aataaaagat atgagagatt
     1741 tatctagttt ctttttttac aagaaaaaag aaagttctta aaggttttat acttttggtc
     1801 gtagagcaca cggtttaacg acttaattac gaagtaaata agtctagtgt gttattagac
     1861 tttaatgttt ttttaaggca ttagtgcatt taagcgtcag agcatggctt tatgccgaga
     1921 aaactattgg ttggaatggc gtgtgtgtta gccaaagctt tggcgagttg gttgggggtt
     1981 tcatgggatt aatcccatga aagtaccaac tcaacaacac actaacgcct gttggttcca
     2041 accaatagga aattggaata agcaattagt ataatgagag tataatgttg gtataacgtt
     2101 agtataatga tgcttttttt cattatattt tttatgtact ttaaacctgc acgcttatgt
     2161 gaattagaaa aagcttaatc gcatttcata gattgacctc ccaataacta cgtggtgtta
     2221 ttgggaggtc aatctatttc atttgcgtta agcttttgat ctacattaag cgtgcaggtt
     2281 ttttgtctat ttgtagacga ttttatgtta tactagtcct tgaaagaata ataatcagat
     2341 aatgcatttt cttgtttttc atttgcctct tgctcaaagt tcccaaattc gagtaagagg
     2401 tatttttgtt tttggtcgtc gcctctcatt agtagttcag ggtttaacat taatactcca
     2461 gtttttcttt ttataa
//
