LOCUS       CP030515                3125 bp    DNA     circular BCT 10-OCT-2019
DEFINITION  Staphylococcus aureus strain ER01116.3 plasmid unnamed1, complete
            sequence.
ACCESSION   CP030515
VERSION     CP030515.1
DBLINK      BioProject: PRJNA470993
            BioSample: SAMN09483941
KEYWORDS    .
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3125)
  AUTHORS   Sullivan,M.J., Altman,D.R., Chacko,K., Cliferri,B., Webster,E.,
            Deikus,G., Lewis,M., Khan,Z., Beckford,C., Rendo,A., Samaroo,F.,
            Sebra,R., Karam-Howlin,R., Southwick,K., Adams,E., Ying,L.,
            Kornblum,J., Factor,S., Danesh Yazdi,M., Dingle,T., Hamula,C.,
            Bashir,A., Schadt,E., Kasarskis,A., Patel,G., Wallach,F., Gibbs,K.
            and van Bakel,H.
  TITLE     Whole genome sequencing to identify and define MRSA outbreaks
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3125)
  AUTHORS   Sullivan,M.J., Altman,D.R., Chacko,K., Cliferri,B., Webster,E.,
            Deikus,G., Lewis,M., Khan,Z., Beckford,C., Rendo,A., Samaroo,F.,
            Sebra,R., Karam-Howlin,R., Southwick,K., Adams,E., Ying,L.,
            Kornblum,J., Factor,S., Danesh Yazdi,M., Dingle,T., Hamula,C.,
            Bashir,A., Schadt,E., Kasarskis,A., Patel,G., Wallach,F., Gibbs,K.
            and van Bakel,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUN-2018) Genetics and Genomic Sciences, Icahn School
            of Medicine, One Gustave L. Levy Place Box 1498, New York, NY 10029,
            USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 2.2.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 58.9894658071x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/29/2018 18:11:50
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            Annotation Method :: Best-placed reference protein set; GeneMarkS+
            Annotation Software revision      :: 4.5
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 3,039
            CDS (total)                       :: 2,957
            Genes (coding)                    :: 2,871
            CDS (coding)                      :: 2,871
            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)              :: 86
            Pseudo Genes (ambiguous residues) :: 0 of 86
            Pseudo Genes (frameshifted)       :: 49 of 86
            Pseudo Genes (incomplete)         :: 34 of 86
            Pseudo Genes (internal stop)      :: 22 of 86
            Pseudo Genes (multiple problems)  :: 18 of 86
            ##Genome-Annotation-Data-END##
            Annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (released 2013). Information about the Pipeline can be
            found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..3125
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="ER01116.3"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed1"
                     /geo_loc_name="USA:New York City"
                     /lat_lon="40.7903114 N 73.9528738 W"
                     /collection_date="2015"
                     /collected_by="Mount Sinai Hospital"
     gene            join(2132..3125,1..2)
                     /locus_tag="DQU60_00005"
     CDS             join(2132..3125,1..2)
                     /locus_tag="DQU60_00005"
                     /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="QFL50589.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EKVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAI
                     KPNRKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDVEDGNLINASDEDKTTDEEEKVHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            complement(9..200)
                     /locus_tag="DQU60_00010"
     CDS             complement(9..200)
                     /locus_tag="DQU60_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001791934.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QFL50586.1"
                     /translation="MIGLAKPEIPGVLRYFKVISYKAVLSYFCDTIYCVCLIFVTLHTA
                     FVTKIRQYFFIKNQQKRH"
                     /name="hypothetical protein"
     gene            585..773
                     /locus_tag="DQU60_00015"
     CDS             585..773
                     /locus_tag="DQU60_00015"
                     /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="QFL50587.1"
                     /translation="MNKNTVLDEGYVIATILNVFFLLGLIFISHLENLYILIPYVILMG
                     INAIYLVVKVMNFKKNN"
                     /name="hypothetical protein"
     gene            complement(1099..1680)
                     /locus_tag="DQU60_00020"
     CDS             complement(1099..1680)
                     /locus_tag="DQU60_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991705.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QFL50588.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKNNIAD
                     KNVETLNEKEIEKELKYIYGKIIILDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKTSSISPRAVGGNYKNSGDCFYSEVLNSYGELLTGNIITAVFEDVKAKNLKGVAKKL
                     AKIGIKGNLAGIAATMVSKDVQCNLKYGLL"
                     /name="hypothetical protein"
     Typing          73..237
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          2133..3125
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.799"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 agtgttgact aatgtctttt ttgttgattt tttataaaaa agtactgtct tatttttgtg
       61 acaaatgctg tatgtagtgt cacaaaaata agacaaacgc aatatattgt gtcacaaaaa
      121 taagacagta cagctttgta tgatatcact ttaaaatacc ttaaaacccc tggaatttct
      181 ggctttgcca gacctatcat ttttgaatga tagcaaattc tccttatgct cttacggagt
      241 ttttagagaa aaattaaaaa ttctcgattt ttgataaaaa acgccctgca ggaatttaga
      301 aaaacatgtg gaagttttaa aggattttat gctaattttt aatttgcatg taaatgggca
      361 gtgttaaaaa attagtcact ggttttgctg aaatttttgt ttgtgaaatt accatatatt
      421 tatttggctc atatttgcgt tttaagagct tgtatatatt tttaagttaa aaacctatat
      481 gataccccct aaacctttaa aataccccct taaaactcaa aataaaggta tttataattt
      541 gagtaagtct tgtgataaag ttttttaaaa aaggagtgtt tattttgaat aaaaacacag
      601 tgttagatga aggttacgtt atagcaacta ttttaaatgt tttcttttta cttggattaa
      661 tttttatatc tcatttggaa aatttatata tattaattcc gtatgttatt ttgatgggaa
      721 taaatgctat ttatttggtt gttaaggtta tgaatttcaa aaagaataat tagaatattt
      781 gaggggattt tgaaacgagt ttcttcttgt tttcacactg tttttttatt cctattggtg
      841 ttgttgctta ctttttgttt ttctataaag atgatgcttt tgacgagatg gaagaaaaat
      901 atgattatca tgaagataat aaaaaataga cgacgcattt atgccgagaa aatttattga
      961 tgttgagaag aacccttaac ttgcagacga atgtcatgtc ggcatagcgt gagctattaa
     1021 gccgaccatt cgacaagttt tgggattgtt aagggttccg aggctcaacg tcaataaagc
     1081 aattggaata aatagtatct aaagtaaccc gtatttaaga ttacattgta catccttcga
     1141 aaccatagta gctgcgattc cagctaggtt tccttttatc ccaattttag ctaatttttt
     1201 tgctacgccc tttaagtttt tggctttaac atcttcaaaa actgctgtga ttatgtttcc
     1261 agttaaaagt tctccatatg agtttaaaac ttcagaatag aaacagtcac cgctattttt
     1321 gtagttccca ccaactgctc taggtgatat tgaactagtt ttctttttat tctctatgtc
     1381 gttttttagt ttttggaatc cttcaggaac atatccatat cgagatttgg cattttctag
     1441 attaacatct ttagctgttc cgtctttatc taaaataata attttgccat atatgtattt
     1501 tagttctttt tcaatttctt tttcgtttaa agtttcaacg tttttatctg caatgttatt
     1561 tttgttttgg gcttgagctt ctttgaaatt aaaatccaag accattgaaa gtatggttaa
     1621 aatacttaaa gatactacta aaatctttct tagtgatata ctgttttgaa ttgcattcat
     1681 tgtaaatgcc cccttgtttt gttatttaaa tgaattcaat ataatattaa catataaaaa
     1741 caaaggagtt taatatgaat aagttttttt actttttgat tattttatta tctgtatttt
     1801 taatttttaa ttttgttaat tcgattttat ttgataatcc ttttgacttt ttagaaagtt
     1861 ttatttattc attggttttc acattaattt atttaggttt agagggtcat aaaaagaaga
     1921 aggaataggt tgttttttga aacgagtgtg aacgagtttc ttcttgtctt gatactatat
     1981 agaaataact cgattttata tatatagctg taactgttga tattacagtg tttaaacgtg
     2041 tttttgtgcg tgaaaggaaa atttgacaat aaaaaacccc agttatatta ttaaggtgtc
     2101 gaatcttaaa taatactggg ggtcttttta tatgcaatat aatactacta gaagtataac
     2161 cgaaaatcaa gataataaaa cgttaaaaga tatgacgaaa agtgggaaac aacgcccatg
     2221 gagagaaaag aaaatagata atgtaagcta tgcagatata ctagaaattt taaaaatcaa
     2281 aaaggctttt aatgtaaaac aatgtggtaa tattttagaa tttaagccaa ctgatgaagg
     2341 ctatttgaag ttacataaga catggttttg taaatcaaaa ttatgtccgg tttgtaattg
     2401 gagacgtgct atgaaaaata gttatcaagc tcaaaaagtg attgaaaaag taattaagga
     2461 aaagccaaaa gcacgttggt tgtttttaac actttcaaca aaaaatgcga tagatggaga
     2521 tactttagaa caaagtttga agcatctaac taaagcattt gataggttga gtagatataa
     2581 aaaggttaaa caaaatcttg ttggatttat gcgttcaaca gaagttaccg ttaataaaaa
     2641 tgacggtagt tataatcagc acatgcatgt tttgttatgt gttgaaaatg catattttag
     2701 aaaaaaagag aattatataa ctcaagaaga atgggttaat ttatggcaaa gagcattaca
     2761 agttgactat cgacctgttg ctaatgttaa agcgatcaaa ccgaatagaa aaggcgataa
     2821 agacattgaa tcggcaatca aagagacctc aaaatattcg gttaaatcat ctgatttttt
     2881 aactgatgat gatgaaaaaa atcaagaaat tgtaagtgat ttagaaaaag gtttgtatcg
     2941 aaaacgtatg ttaagttatg gtggattgct taaacaaaaa cataaaattt taaacttaga
     3001 cgatgtcgaa gatggtaatt tgattaatgc aagtgatgaa gataaaacaa cagacgaaga
     3061 agaaaaagta cattcaatta ccgcaatttg gaatttcgaa aagcaaaatt attatttaag
     3121 acatt
//
