Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 111,516 C→A 33.5% Q196K (CAA→AAA)  USA300HOU_0110 → possible staphylococcal tandem lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730111,5160CA33.5% 69.6 / 34.5 48Q196K (CAA→AAA) USA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base C (17/14);  new base A (8/8);  total (26/22)
Fisher's exact test for biased strand distribution p-value = 7.68e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01

CTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGA  >  CP000730/111376‑111655
                                                                                                                                             |                                                                                                                                           
cTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTc                                                                                                                                             <  1:7157/141‑1 (MQ=255)
   aGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCATTATAGCTTTTTTAACGATTTAATGAATTATACAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAat                                                                                                                                          <  1:147822/141‑1 (MQ=25)
   aGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAat                                                                                                                                          <  2:28384/141‑1 (MQ=255)
    ggAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAata                                                                                                                                         <  1:237574/141‑1 (MQ=255)
         ttAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAAt                                                                                                                                    <  1:218206/141‑1 (MQ=255)
            aagaagAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGTTAAATATCAATTa                                                                                                                                  >  2:78333/1‑141 (MQ=18)
            aagaagAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTTTTTTTTTTTGTAATATTAAATATTAAATGAATTATAAAGAGGTAGATATATAGTATAAGTGAGATGTTCTGAGGTTTTCAGGTCAATATGAATTaa                                                                                                                                 >  2:310526/1‑141 (MQ=12)
              gaagaaAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACt                                                                                                                               >  1:251920/1‑141 (MQ=255)
              gaagaaAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACt                                                                                                                               >  2:160490/1‑141 (MQ=255)
                 gaaAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAat                                                                                                                            >  2:115947/1‑141 (MQ=255)
                     aCATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAatgatg                                                                                                                        <  1:187082/141‑1 (MQ=255)
                     aCATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAatgatg                                                                                                                        >  1:245579/1‑141 (MQ=255)
                              aaGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATg                                                                                                               >  1:81344/1‑141 (MQ=255)
                               aGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGt                                                                                                              <  1:266844/141‑1 (MQ=255)
                                 aaaTCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTaa                                                                                                            <  1:76277/141‑1 (MQ=255)
                                  aaTCGAAAACTTTAAG‑TTTTTTTTTTTTTTTAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATGATATAATCCAGAGGTGCCGAGTTATTCAGCTAAATATCAATTAACTTATGATTATTATTATGTtaa                                                                                                           >  2:317249/1‑141 (MQ=17)
                                   aTCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTaaaa                                                                                                          <  1:51009/141‑1 (MQ=255)
                                    tCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTaaaaa                                                                                                         >  1:285285/1‑140 (MQ=255)
                                    tCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAAc                                                                                                         >  1:290293/1‑141 (MQ=255)
                                                  tttttatGAGAAATATAGAAATTATAACGATATAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATCTCAATTAACTAATAATGCTTATAATGTAAAAAAATTCCACAAAAg                                                                                            <  2:130689/140‑1 (MQ=14)
                                                       ttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATg                                                                                       >  1:161288/1‑141 (MQ=255)
                                                        tGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGa                                                                                      >  2:133083/1‑141 (MQ=255)
                                                          cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGata                                                                                    <  2:195394/141‑3 (MQ=255)
                                                          cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGata                                                                                    >  1:231621/1‑139 (MQ=255)
                                                          cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGata                                                                                    <  1:249211/141‑3 (MQ=255)
                                                           tttttttttcAATTTTAAAGAGTTAATGAATTTTAAAGTTGGGGATGTATCATATAATCCTGAGGTTCCGAGTTATTCGTTTTTTTATTTATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGatattatat                                                                                   >  2:256815/10‑136 (MQ=9)
                                                           ttttttttgCAATTTAAAAGATTTAATGAATTATAAAGATGGGGATATATCATATAATCCAGCGGTTCCGAGTTATTCAGCTCTATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACAt                                                                                   >  2:91506/9‑141 (MQ=18)
                                                           gcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGatat                                                                                   >  2:203093/1‑138 (MQ=255)
                                                            ttttataTCAATTTTAAAGATGTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTACATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                                                  >  2:246898/4‑141 (MQ=14)
                                                                 taGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCATCTCAATATCAATTAACTAATGATGAATATAATGTAAAACAATTACGTAAAAGATATGACATACcaac                                                                             >  2:43085/1‑141 (MQ=255)
                                                                 taGCAATGTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACcaac                                                                             <  1:300994/141‑1 (MQ=255)
                                                                  aGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACcaaca                                                                            >  2:127103/1‑141 (MQ=255)
                                                                   gCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACcaacaa                                                                           >  2:199193/1‑141 (MQ=255)
                                                                   gCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACcaacaa                                                                           >  1:230506/1‑141 (MQ=255)
                                                                    cAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATAccgacgag                                                                          <  2:35990/141‑7 (MQ=11)
                                                                        tttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATaaa                                                                      <  1:34138/141‑1 (MQ=255)
                                                                            aaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgcgc                                                                  >  2:106286/1‑141 (MQ=255)
                                                                               aTTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGa                                                               >  2:89838/1‑141 (MQ=255)
                                                                                tttAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGaa                                                              <  2:26670/141‑1 (MQ=255)
                                                                                        aTTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATAACAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgttgt                                                      <  1:95760/141‑1 (MQ=255)
                                                                                               aGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAgg                                               <  2:161288/141‑1 (MQ=255)
                                                                                                      gaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAggg                                        <  1:199193/141‑1 (MQ=255)
                                                                                                            tCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTa                                  >  1:315121/1‑141 (MQ=255)
                                                                                                                     ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca                         <  2:43173/141‑1 (MQ=255)
                                                                                                                        gagGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcatca                      >  2:91254/1‑141 (MQ=255)
                                                                                                                              ccGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGa                <  2:34323/141‑1 (MQ=255)
                                                                                                                                 aGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGatat             <  1:192140/141‑1 (MQ=255)
                                                                                                                                   ttATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaa           <  1:138985/141‑1 (MQ=255)
                                                                                                                                            tCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGa  >  2:34598/1‑141 (MQ=255)
                                                                                                                                             |                                                                                                                                           
CTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAG‑TTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGA  >  CP000730/111376‑111655

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑