LOCUS       CP030417                3123 bp    DNA     circular BCT 10-OCT-2019
DEFINITION  Staphylococcus aureus strain ER01836.3 plasmid unnamed2, complete
            sequence.
ACCESSION   CP030417
VERSION     CP030417.1
DBLINK      BioProject: PRJNA470993
            BioSample: SAMN09483964
KEYWORDS    .
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3123)
  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  JOURNAL   Unpublished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 3123)
  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                   :: 111.147472589x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/29/2018 21:01:07
            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)                     :: 3,130
            CDS (total)                       :: 3,048
            Genes (coding)                    :: 2,962
            CDS (coding)                      :: 2,962
            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)       :: 44 of 86
            Pseudo Genes (incomplete)         :: 38 of 86
            Pseudo Genes (internal stop)      :: 24 of 86
            Pseudo Genes (multiple problems)  :: 19 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..3123
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="ER01836.3"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
                     /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(3039..3123,1..107)
                     /locus_tag="DQU83_00175"
     CDS             join(3039..3123,1..107)
                     /locus_tag="DQU83_00175"
                     /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="QFI78190.1"
                     /translation="MIGLAKPEIPGVLRYFKVISYKAVLSYFCDTIYCVCLIFVTLHTA
                     FVTKIRQYFFIKNQQKRH"
                     /name="hypothetical protein"
     gene            complement(114..1109)
                     /locus_tag="DQU83_00180"
     CDS             complement(114..1109)
                     /locus_tag="DQU83_00180"
                     /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="QFI78191.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EKVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAI
                     KPNRKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDVEDGNLINASDEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            1561..2142
                     /locus_tag="DQU83_00185"
     CDS             1561..2142
                     /locus_tag="DQU83_00185"
                     /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="QFI78192.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKNNIAD
                     KNVETLNEKEIEKELKYIYGKIIILDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKTSSISPRAVGGNYKNSGDCFYSEVLNSYGELLTGNIITAVFEDVKAKNLKGVAKKL
                     AKIGIKGNLAGIAATMVSKDVQCNLKYGLL"
                     /name="hypothetical protein"
     gene            complement(2467..2655)
                     /locus_tag="DQU83_00190"
     CDS             complement(2467..2655)
                     /locus_tag="DQU83_00190"
                     /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="QFI78193.1"
                     /translation="MNKNTVLDEGYVIATILNVFFLLGLIFISHLENLYILIPYVILMG
                     INAIYLVVKVMNFKKNN"
                     /name="hypothetical protein"
     Typing          complement(3003..3123)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.970000000000003e-57"
     Typing          complement(115..1109)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtgacacaat atattgcgtt tgtcttattt ttgtgacact acatacagca tttgtcacaa
       61 aaataagaca gtactttttt ataaaaaatc aacaaaaaag acattagtca acactaatgt
      121 cttaaataat aattttgctt ttcgaaattc caaattgcgg taattgaatg tgctttttct
      181 tcttcgtctg ttgttttatc ttcatcactt gcattaatca aattaccatc ttcgacatcg
      241 tctaagttta aaattttatg tttttgttta agcaatccac cataacttaa catacgtttt
      301 cgatacaaac ctttttctaa atcacttaca atttcttgat ttttttcatc atcatcagtt
      361 aaaaaatcag atgatttaac cgaatatttt gaggtctctt tgattgccga ttcaatgtct
      421 ttatcgcctt ttctattcgg tttgatcgct ttaacattag caacaggtcg atagtcaact
      481 tgtaatgctc tttgccataa attaacccat tcttcttgag ttatataatt ctcttttttt
      541 ctaaaatatg cattttcaac acataacaaa acatgcatgt gctgattata actaccgtca
      601 tttttattaa cggtaacttc tgttgaacgc ataaatccaa caagattttg tttaaccttt
      661 ttatatctac tcaacctatc aaatgcttta gttagatgct tcaaactttg ttctaaagta
      721 tctccatcta tcgcattttt tgttgaaagt gttaaaaaca accaacgtgc ttttggcttt
      781 tccttaatta ctttttcaat cactttttga gcttgataac tatttttcat agcacgtctc
      841 caattacaaa ccggacataa ttttgattta caaaaccatg tcttatgtaa cttcaaatag
      901 ccttcatcag ttggcttaaa ttctaaaata ttaccacatt gttttacatt aaaagccttt
      961 ttgattttta aaatttctag tatatctgca tagcttacat tatctatttt cttttctctc
     1021 catgggcgtt gtttcccact tttcgtcata tcttttaacg ttttattatc ttgattttcg
     1081 gttatacttc tagtagtatt atattgcata taaaaagacc cccagtatta tttaagattc
     1141 gacaccttaa taatataact ggggtttttt attgtcaaat tttcctttca cgcacaaaaa
     1201 cacgtttaaa cactgtaata tcaacagtta cagctatata tataaaatcg agttatttct
     1261 atatagtatc aagacaagaa gaaactcgtt cacactcgtt tcaaaaaaca acctattcct
     1321 tcttcttttt atgaccctct aaacctaaat aaattaatgt gaaaaccaat gaataaataa
     1381 aactttctaa aaagtcaaaa ggattatcaa ataaaatcga attaacaaaa ttaaaaatta
     1441 aaaatacaga taataaaata atcaaaaagt aaaaaaactt attcatatta aactcctttg
     1501 tttttatatg ttaatattat attgaattca tttaaataac aaaacaaggg ggcatttaca
     1561 atgaatgcaa ttcaaaacag tatatcacta agaaagattt tagtagtatc tttaagtatt
     1621 ttaaccatac tttcaatggt cttggatttt aatttcaaag aagctcaagc ccaaaacaaa
     1681 aataacattg cagataaaaa cgttgaaact ttaaacgaaa aagaaattga aaaagaacta
     1741 aaatacatat atggcaaaat tattatttta gataaagacg gaacagctaa agatgttaat
     1801 ctagaaaatg ccaaatctcg atatggatat gttcctgaag gattccaaaa actaaaaaac
     1861 gacatagaga ataaaaagaa aactagttca atatcaccta gagcagttgg tgggaactac
     1921 aaaaatagcg gtgactgttt ctattctgaa gttttaaact catatggaga acttttaact
     1981 ggaaacataa tcacagcagt ttttgaagat gttaaagcca aaaacttaaa gggcgtagca
     2041 aaaaaattag ctaaaattgg gataaaagga aacctagctg gaatcgcagc tactatggtt
     2101 tcgaaggatg tacaatgtaa tcttaaatac gggttacttt agatactatt tattccaatt
     2161 gctttattga cgttgagcct cggaaccctt aacaatccca aaacttgtcg aatggtcggc
     2221 ttaatagctc acgctatgcc gacattcgtc tgcaagttta gttaagggtt cttctcaaca
     2281 tcaataaatt ttctcggcat aaatgcgtcg tctatttttt attatcttca tgataatcat
     2341 attttcttcc atctcgtcaa aagcatcatc tttatagaaa aacaaaaagt aagcaacaac
     2401 accaatagga ataaaaaaac agtgtgaaaa caagaagaaa ctcgtttcaa aatcccctca
     2461 aatattctaa ttattctttt tgaaattcat aaccttaaca accaaataaa tagcatttat
     2521 tcccatcaaa ataacatacg gaattaatat atataaattt tccaaatgag atataaaaat
     2581 taatccaagt aaaaagaaaa catttaaaat agttgctata acgtaacctt catctaacac
     2641 tgtgttttta ttcaaaataa acactccttt tttaaaaaac tttatcacaa gacttactca
     2701 aattataaat acctttattt tgagttttaa gggggtattt taaaggttta ggggtatcat
     2761 ataggttttt aacttaaaaa tatatacaag ctcttaaaac gcaaatatga gccaaataaa
     2821 tatatggtaa tttcacaaac aaaaatttca gcaaaaccag tgactaattt tttaacactg
     2881 cccatttaca tgcaaattaa aaattagcat aaaatccttt aaaacttcca catgtttttc
     2941 taaattcctg cagggcgttt tttatcaaaa atcgagaatt tttaattttt ctctaaaaac
     3001 tccgtaagag cataaggaga atttgctatc attcaaaaat gataggtctg gcaaagccag
     3061 aaattccagg ggttttaagg tattttaaag tgatatcata caaagctgta ctgtcttatt
     3121 ttt
//
