LOCUS       NZ_CP062440             3126 bp    DNA     circular CON 20-MAY-2024
DEFINITION  Staphylococcus aureus strain NAS_AN_285 plasmid unnamed, complete
            sequence.
ACCESSION   NZ_CP062440
VERSION     NZ_CP062440.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15567960
            Assembly: GCF_022493095.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3126)
  AUTHORS   Cella,E., Sutcliffe,C., Jubair,M., Weatherholtz,R.C., Reid,R.,
            Reid,A., Quay,D., Azarian,T.H. and Hammitt,L.
  TITLE     Carriage prevalence and genomic epidemiology of Staphylococcus
            aureus among Native Americans in the southwest US
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3126)
  AUTHORS   Cella,E., Sutcliffe,C., Jubair,M., Weatherholtz,R.C., Reid,R.,
            Reid,A., Quay,D., Azarian,T.H. and Hammitt,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-JUL-2020) Burnett School of Biomedical Sciences,
            University of central Florida, 4111 Libra Dr, Orlando, FL 32816, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method                   :: Uniclycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50x
            Sequencing Technology             :: Illumina MiSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022493095.1-RS_2024_05_20
            Annotation Date                   :: 05/20/2024 03:11:00
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,838
            CDSs (total)                      :: 2,756
            Genes (coding)                    :: 2,681
            CDSs (with protein)               :: 2,681
            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)              :: 75
            CDSs (without protein)            :: 75
            Pseudo Genes (ambiguous residues) :: 0 of 75
            Pseudo Genes (frameshifted)       :: 40 of 75
            Pseudo Genes (incomplete)         :: 36 of 75
            Pseudo Genes (internal stop)      :: 16 of 75
            Pseudo Genes (multiple problems)  :: 16 of 75
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP062440.1.
            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..3126
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="NAS_AN_285"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed"
                     /collected_by="UCF"
     gene            139..327
                     /locus_tag="IF743_RS14160"
                     /old_locus_tag="IF743_14145"
     CDS             139..327
                     /locus_tag="IF743_RS14160"
                     /old_locus_tag="IF743_14145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001030810.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001039248.1"
                     /translation="MNKNTVLDEGYVIATILNVFFLLGLIFISHLENLYILIPYVILMG
                     INAIYLVVKVMNFKKNN"
                     /name="hypothetical protein"
     gene            complement(1110..1235)
                     /locus_tag="IF743_RS14215"
     CDS             complement(1110..1235)
                     /locus_tag="IF743_RS14215"
                     /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_276322774.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKK"
                     /name="hypothetical protein"
     gene            1687..2682
                     /locus_tag="IF743_RS14165"
                     /old_locus_tag="IF743_14155"
     CDS             1687..2682
                     /locus_tag="IF743_RS14165"
                     /old_locus_tag="IF743_14155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001199892.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EKVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAI
                     KPNRKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDVEDGNLINASDEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     Typing          2753..2917
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          1688..2682
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agcttgtata tatttttaag ttaaaaacct atatgatacc ccctaaacct ttaaaatacc
       61 cccttaaaac tcaaaataaa ggtatttata atttgagtaa gtcttgtgat aaagtttttt
      121 aaaaaaggag tgtttatttt gaataaaaac acagtgttag atgaaggtta cgttatagca
      181 actattttaa atgttttctt tttacttgga ttaattttta tatctcattt ggaaaattta
      241 tatatattaa ttccgtatgt tattttgatg ggaataaatg ctatttattt ggttgttaag
      301 gttatgaatt tcaaaaagaa taattagaat atttgagggg attttgaaac gagtttcttc
      361 ttgttttcac actgtttttt tattcctatt ggtgttgttg cttacttttt gtttttctat
      421 aaagatgatg cttttgacga gatggaagaa aaatatgatt atcatgaaga taataaaaaa
      481 tagacgacgc atttatgccg agaaaattta ttgatgttga gaagaaccct taactaaact
      541 tgcagacgaa tgtcggcata gcgtgagcta ttaagccgac cattcgacaa gttttgggat
      601 tgttaagggt tccgaggctc aacgtcaata aagcaattgg aataaatagt atctaaagta
      661 acccgtattt aagattacat tgtacatcct tcgaaaccat agtagctgcg attccagcta
      721 ggtttccttt tatcccaatt ttagctaatt tttttgctac gccctttaag tttttggctt
      781 taacatcttc aaaaactgct gtgattatgt ttccagttaa aagttctcca tatgagttta
      841 aaacttcaga atagaaacag tcaccgctat ttttgtagtt cccaccaact gctctaggtg
      901 atattgaact agttttcttt ttattctcta tgtcgttttt tagtttttgg aatccttcag
      961 gaacatatcc atatcgagat ttggcatttt ctagattaac atctttagct gttccgtctt
     1021 tatctaaaat aataattttg ccatatatgt attttagttc tttttcaatt tctttttcgt
     1081 ttaaagtttc aacgttttta tctgcaatgt tattttttgt tttgggcttg agcttctttg
     1141 aaattaaaat ccaagaccat tgaaagtatg gttaaaatac ttaaagatac tactaaaatc
     1201 tttcttagtg atatactgtt ttgaattgca ttcattgtaa atgccccctt gttttgttat
     1261 ttaaatgaat tcaatataat attaacatat aaaaacaaag gagtttaata tgaataagtt
     1321 tttttacttt ttgattattt tattatctgt atttttaatt tttaattttg ttaattcgat
     1381 tttatttgat aatccttttg actttttaga aagttttatt tattcattgg ttttcacatt
     1441 aatttattta ggtttagagg gtcataaaaa gaagaaggaa taggttgttt tttgaaacga
     1501 gtgtgaacga gtttcttctt gtcttgatac tatatagaaa taactcgatt ttatatatat
     1561 agctgtaact gttgatatta cagtgtttaa acgtgttttt gtgcgtgaaa ggaaaatttg
     1621 acaataaaaa accccagtta tattattaag gtgtcgaatc ttaaataata ctgggggtct
     1681 ttttatatgc aatataatac tactagaagt ataaccgaaa atcaagataa taaaacgtta
     1741 aaagatatga cgaaaagtgg gaaacaacgc ccatggagag aaaagaaaat agataatgta
     1801 agctatgcag atatactaga aattttaaaa atcaaaaagg cttttaatgt aaaacaatgt
     1861 ggtaatattt tagaatttaa gccaactgat gaaggctatt tgaagttaca taagacatgg
     1921 ttttgtaaat caaaattatg tccggtttgt aattggagac gtgctatgaa aaatagttat
     1981 caagctcaaa aagtgattga aaaagtaatt aaggaaaagc caaaagcacg ttggttgttt
     2041 ttaacacttt caacaaaaaa tgcgatagat ggagatactt tagaacaaag tttgaagcat
     2101 ctaactaaag catttgatag gttgagtaga tataaaaagg ttaaacaaaa tcttgttgga
     2161 tttatgcgtt caacagaagt taccgttaat aaaaatgacg gtagttataa tcagcacatg
     2221 catgttttgt tatgtgttga aaatgcatat tttagaaaaa aagagaatta tataactcaa
     2281 gaagaatggg ttaatttatg gcaaagagca ttacaagttg actatcgacc tgttgctaat
     2341 gttaaagcga tcaaaccgaa tagaaaaggc gataaagaca ttgaatcggc aatcaaagag
     2401 acctcaaaat attcggttaa atcatctgat tttttaactg atgatgatga aaaaaatcaa
     2461 gaaattgtaa gtgatttaga aaaaggtttg tatcgaaaac gtatgttaag ttatggtgga
     2521 ttgcttaaac aaaaacataa aattttaaac ttagacgatg tcgaagatgg taatttgatt
     2581 aatgcaagtg atgaagataa aacaacagac gaagaagaaa aagcacattc aattaccgca
     2641 atttggaatt tcgaaaagca aaattattat ttaagacatt agtgttgact aatgtctttt
     2701 ttgttgattt tttataaaaa agtactgtct tatttttgtg acaaatgctg tatgtagtgt
     2761 cacaaaaata agacaaacgc aatatattgt gtcacaaaaa taagacagta cagctttgta
     2821 tgatatcact ttaaaatacc ttaaaacccc tggaatttct ggctttgcca gacctatcat
     2881 ttttgaatga tagcaaattc tccttatgct cttacggagt ttttagagaa aaattaaaaa
     2941 ttctcgattt ttgataaaaa acgccctgca ggaatttaga aaaacatgtg gaagttttaa
     3001 aggattttat gctaattttt aatttgcatg taaatgggca gtgttaaaaa attagtcact
     3061 ggttttgctg aaatttttgt ttgtgaaatt accatatatt tatttggctc atatttgcgt
     3121 tttaag
//
