LOCUS       NZ_CP047868             2348 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Staphylococcus aureus strain UP_419 plasmid unnamed, complete
            sequence.
ACCESSION   NZ_CP047868
VERSION     NZ_CP047868.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11175587
            Assembly: GCF_009912975.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2348)
  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  JOURNAL   Unpublished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 2348)
  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                   :: 227x / 184x
            Sequencing Technology :: Illumina MiSeq / Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 03:50:48
            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)                     :: 2,810
            CDSs (total)                      :: 2,728
            Genes (coding)                    :: 2,651
            CDSs (with protein)               :: 2,651
            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)              :: 77
            CDSs (without protein)            :: 77
            Pseudo Genes (ambiguous residues) :: 0 of 77
            Pseudo Genes (frameshifted)       :: 46 of 77
            Pseudo Genes (incomplete)         :: 35 of 77
            Pseudo Genes (internal stop)      :: 28 of 77
            Pseudo Genes (multiple problems)  :: 30 of 77
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047868.1.
            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..2348
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="UP_419"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed"
     gene            complement(492..1427)
                     /locus_tag="E3S59_RS14005"
                     /old_locus_tag="E3S59_14005"
     CDS             complement(492..1427)
                     /locus_tag="E3S59_RS14005"
                     /old_locus_tag="E3S59_14005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002440612.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_160195540.1"
                     /translation="MSRENYSKYLQNKDSDILHSTGYSNSRLHAHTVCISKPKISFDRM
                     TIVGNLNKNNAQKLSEFMSTEPQIRLWDILQTKFKAKALQGKVYIEYDKVKADTWDRRN
                     MRVEFNPNKLTHEEMLWLKQNIINYMEDDGFTRIDLAFDFEDDLSNYYAMTDKAVKKTV
                     FYGRDGKPETKYFGVRDSDRFIRIYNKKQERKDNADVEVMSDHLWRVEIELKRDMVDYW
                     NDCFNDLHILKPDWKIIERTSDRAIVFMLLNDEEEWGKIHRNSRTKYKNLIKEISPVDL
                     TELMKSTLRENEKQLQKQIEFWQIKSKKLF"
                     /name="replication initiation factor domain-containing
                     protein"
     Typing          complement(518..1368)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.141"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 tgcattttaa gccctttcta ggacatttaa tcattccacg tataaaaaat aactaaaaac
       61 ttttttcgtt caacagagag acgataaatc attttaaaat ttattttcta aatcttttag
      121 aatacgaaat atgtttttct atctcggtta ttcttcttaa taaaaagcta aagccttaaa
      181 aaataggtgt ataatgtaac tcttgtattt taaagagcat aagtggaatc ctgcacagaa
      241 atgtctccaa atgtctccat tcggtagcta tttctgtgca aaatattgat ttgacagtgt
      301 caaatgggat tcctatttat gcgataaaaa ttgttatatg actcccgaac ggctacacaa
      361 aagctaccta atagctacac aaaatcaaaa atggatacca tatggatacc taaaatcaaa
      421 aatagctccc aaatagctac attattaggt agctatttgg gagctaaaag ggagccgaat
      481 ggtagccatt tttaaaatag cttcttactt tttatctgcc aaaattctat ttgcttttgt
      541 aattgttttt cattttctct taaagtcgat ttcattaatt ccgttaaatc aactggagat
      601 atttctttaa ttaagttttt atatttggtt ctagaatttc tatgaatttt accccattct
      661 tcttcatcat ttagcaacat aaaaactatt gctctatcag aagtgcgttc aattattttc
      721 caatctggtt tcaaaatatg taaatcatta aaacaatcat tccagtaatc caccatatct
      781 cttttaagtt caatttctac acgccataag tgatcagaca taacttcgac atctgcgtta
      841 tctttacgtt cttgtttttt gttataaatt ctaataaatc tatcactatc acgaacgcca
      901 aaatattttg tttctggttt cccgtcacga ccataaaata cagttttctt aactgcttta
      961 tcagtcattg cataataatt acttaaatca tcttcaaaat caaaagctaa atctattctt
     1021 gtaaaaccgt catcttccat gtagttgata atgttttgtt ttaaccaaag catttcttca
     1081 tgcgtaagtt tattcggatt aaattcaaca cgcatattac gtctatccca tgtatctgct
     1141 tttactttgt cgtattcaat ataaactttt ccttgtagtg ctttagcttt aaatttcgtt
     1201 tgtagtatat cccaaagtct aatttgtggt tcagtactca tgaattcaga tagcttttga
     1261 gcattatttt tatttaaatt cccaacaatt gtcatacggt cgaaactgat ttttggtttc
     1321 gatatgcaca cagtatgtgc gtgtaaccgg ctattagagt agccggttga gtgtaaaata
     1381 tcactatcct tattttgtaa gtactttgaa taattttctc tactcataaa aaatcgactc
     1441 cttaatttaa tttaagaagt cgctcacccg aatatatacc ttgaagaaaa aactaatatc
     1501 gtttaatatc tagatataca aaatataaaa aacaacttaa tgtttttcct tgggtaagtc
     1561 gcattcacaa actttggcgg gggagtgagc gacttctttt tattttgtta ttaatataac
     1621 actatcaaaa agcttggtct attatgacca agctttttgg tgtttataaa cctatgtcaa
     1681 aaatttcttt caacaacaaa aaaacgcctt aaccctttat tgacaaggga taaagcctta
     1741 attcaaaaat tgagttattt ctatatagta tcaagacaag aagaaactcg tttcaaaaaa
     1801 gccaaaaaat ctcatcgtta aatacttttg aatgcactat gattaaataa atgttaaagt
     1861 gaaaatataa ttctcgaaca tcattaattc ttttaacatg aaatagttct tctaccaacc
     1921 catagtcact caataattga gtgactattt ttaatggttt tggatgagat gaaaataaat
     1981 aagtgttaaa gtaaaaatat agcattatcc tcattcacat ttagttttag tcttttaatg
     2041 tgaagtgatc ttcgcccaaa aatagctact cacaaattga gtggctattt tttaatgctt
     2101 tattccaatt gctttattga cgttgagcct cggaaccctt aacaatccct aaacttgtcg
     2161 aatcgtcggc ttaatagctc acgctatgcc gacattcgtc tccaagttta gttaagggtt
     2221 cttctcaaca tcaataaatt ttctcggcat aaatgcgtat ggtatgctca atacagtgct
     2281 caattttaat cgcacagcat tttattgcta ttctccagac cactcatttt tgagtggttc
     2341 ttttattt
//
