Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 111,560 T→C 11.4% R210R (CGT→CGC)  USA300HOU_RS00520 → putative lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE111,5600TC11.4% 214.0 / 13.7 87R210R (CGT→CGC) USA300HOU_RS00520putative lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (42/34);  new base C (6/4);  total (48/39)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01

AAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACTG  >  USA300TCH1516_ALE/111423‑111699
                                                                                                                                          |                                                                                                                                           
aaGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTaaa                                                                                                                                          <  2:299414/141‑1 (MQ=255)
 aGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGCaaaa                                                                                                                                         >  2:84254/1‑141 (MQ=255)
  tttttttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGCAAAAg                                                                                                                                        <  2:471619/140‑1 (MQ=255)
  gTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAg                                                                                                                                        <  1:286310/141‑1 (MQ=255)
        tGCGCAATTTTGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGa                                                                                                                                  <  1:238781/141‑1 (MQ=255)
        tGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTAAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGa                                                                                                                                  <  1:364018/141‑1 (MQ=255)
         gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAGAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGAA‑TATAATGTAAAACAATTACGCAAAAGATATGat                                                                                                                                 >  2:765545/1‑140 (MQ=17)
         gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGAAGAT‑TATAATGTAAAACAATTACGCAAAAGATATGat                                                                                                                                 >  1:614702/1‑140 (MQ=255)
          cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGCAAAAGATATGata                                                                                                                                <  2:364865/141‑3 (MQ=255)
          cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATAACAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGCAAAAGATATGata                                                                                                                                <  1:279765/141‑3 (MQ=14)
          cgaaaTATATCAATTTTAAAGATTTAATGAAGTATAAAGATGGAGATGTATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATTATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACa                                                                                                                                <  2:63852/138‑1 (MQ=18)
           gcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACAt                                                                                                                               <  1:320128/141‑1 (MQ=255)
           gcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACAt                                                                                                                               >  1:734403/1‑141 (MQ=255)
            cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGGTATTCGGCTAAATATCAATTAACTAATGCTGAT‑TATAATGTAAAAAAATTACGCCAAAGATATGAtata                                                                                                                              >  1:79126/1‑141 (MQ=14)
               aataGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATCAACTAATGATGAT‑TATAATGTAAAACAATTACGCAAAAGATATGATATAccg                                                                                                                           <  2:382414/140‑2 (MQ=14)
                ataGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACaaa                                                                                                                          >  2:614496/1‑141 (MQ=255)
                  aGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGCAAAAGATATGATATAcggacg                                                                                                                        >  2:419636/1‑136 (MQ=14)
                   gCAATTTTAAAGGTTCAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAAAATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACcaacaa                                                                                                                       <  1:286491/141‑1 (MQ=255)
                   gCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACcaacaa                                                                                                                       >  1:250268/1‑141 (MQ=255)
                    cAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACaaa                                                                                                                      >  1:133188/1‑141 (MQ=255)
                    cAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACaaa                                                                                                                      <  1:553466/141‑1 (MQ=255)
                          tAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgc                                                                                                                >  1:804156/1‑141 (MQ=255)
                           aaaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACAAACAAATAAAgcg                                                                                                               >  2:647661/1‑141 (MQ=255)
                            aaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgcgc                                                                                                              >  1:624413/1‑141 (MQ=255)
                            aaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCAGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAAAAAATAAAgagc                                                                                                              >  2:304155/1‑141 (MQ=255)
                             aGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAACTACGTAAAAGATATGACATACCAACAAATAAAGCGcc                                                                                                             <  2:624731/141‑1 (MQ=255)
                                 ttAATGAATTATAAAGACGGAGATATATCATATAACCCAGAGGTGCCGAGTTATTCAGCCCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAg                                                                                                         <  1:145073/141‑1 (MQ=255)
                                     tGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgt                                                                                                     >  2:775565/1‑141 (MQ=255)
                                     tGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgt                                                                                                     >  2:456270/1‑141 (MQ=255)
                                     tGAAATATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATATAGCGCCGAAGCtgt                                                                                                     >  1:598001/1‑141 (MQ=255)
                                       aaTTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgttg                                                                                                   <  1:263393/141‑1 (MQ=255)
                                             aaaGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAATGTCATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGaaa                                                                                             <  1:575769/141‑1 (MQ=255)
                                             aaaGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGaaa                                                                                             <  2:705033/141‑1 (MQ=255)
                                             aaaGATGGAGACATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTATCTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGaaa                                                                                             <  2:212497/141‑1 (MQ=255)
                                               aGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGAGATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGACAgg                                                                                           >  2:588196/1‑141 (MQ=255)
                                                      aatatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAggg                                                                                    <  2:324518/140‑1 (MQ=255)
                                                        tatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGaa                                                                                  >  2:319548/1‑141 (MQ=255)
                                                         atatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTACTAATGAT‑TATAATATAAAACAATTACGTAAAAGATAAGACATCCCAACAAATAAAGCGACAAAGACAGTGCAGAAAGGAACAgggcaa                                                                                 >  2:659280/1‑138 (MQ=14)
                                                         atatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAt                                                                                 >  2:379954/1‑141 (MQ=255)
                                                         atatCATATAATCCAGAGGTGCCGAGATATACAGCTCAATTACAATTAACCAATGATGAT‑TATAATGTAAAAAAATTACGTAATAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAt                                                                                 >  2:412429/1‑141 (MQ=17)
                                                            tCACATAACCCAGAGGTGCCGAGTTATTCAGCTCAATACCAATTAACCAATGATGAT‑TATAATGTAAAACAATTACCTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTa                                                                              <  2:503417/141‑1 (MQ=14)
                                                                   aTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                                                                       >  1:387304/1‑141 (MQ=255)
                                                                   aTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                                                                       <  1:403226/141‑1 (MQ=255)
                                                                      cAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcat                                                                    >  2:671213/1‑141 (MQ=255)
                                                                         agGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGCGGAG‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAg                                                                 >  1:576411/1‑141 (MQ=255)
                                                                         agGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGGACAGAGAATTT‑AAAGGTTCATCGGt                                                                >  2:311475/1‑141 (MQ=255)
                                                                           gTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGtt                                                               >  2:17804/1‑141 (MQ=255)
                                                                           gTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGAAATTTAAAAGGTTCATCAGtt                                                               >  1:289519/1‑141 (MQ=255)
                                                                                gAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGata                                                          <  1:602715/141‑1 (MQ=255)
                                                                                 ggTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGatat                                                         <  2:319887/140‑1 (MQ=255)
                                                                                    tATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaa                                                      >  2:698854/1‑141 (MQ=255)
                                                                                     aTTCAGCTCAATATCCATTGAATAAT‑ATAATAGATAATGTACAACAATTACGTAAAAGATATGACAGACCAACAAATAAAGATCCGAAGCTGGTGGTGAAAGGTAGAGGGTATTGAAAAGGTTCATCAGTTGGATATaaaa                                                     >  2:807279/1‑141 (MQ=14)
                                                                                     aTTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGACGCTGTTGTTGAAAGTTACAGCGACTCTAAAAGGGTCATCAGTTGGATATgaaa                                                     >  2:337665/1‑141 (MQ=17)
                                                                                          gCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaaaaact                                                >  2:836845/1‑139 (MQ=255)
                                                                                           cTCAATATCAATAAACTAATGATGAT‑TATAAAGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGAAAATAAAAAAATTg                                               <  2:254370/141‑1 (MQ=255)
                                                                                             cAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGGTATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAAGTGaa                                             <  1:570541/141‑1 (MQ=255)
                                                                                             cAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGaa                                             <  2:721437/141‑1 (MQ=255)
                                                                                             cAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGaa                                             <  2:526914/141‑1 (MQ=255)
                                                                                                  tCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAGAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTAc                                        >  1:126515/1‑141 (MQ=255)
                                                                                                  tCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTAc                                        >  1:552925/1‑141 (MQ=255)
                                                                                                  tCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGATGTTGTTGGAAGGTACAGGGAAATTAAAAGGTTCATCAGTCGGATCTAAAAAATATGAAtgtgc                                        >  2:836085/1‑137 (MQ=14)
                                                                                                    aaTTAACTAATGATGAT‑TAAAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACtt                                      <  2:450702/141‑1 (MQ=255)
                                                                                                     aTTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACttt                                     >  2:12343/1‑141 (MQ=255)
                                                                                                      ttAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACtttt                                    >  2:120764/1‑141 (MQ=255)
                                                                                                        aaCTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACtttttt                                  <  1:489845/141‑1 (MQ=255)
                                                                                                        aaCTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACtttttt                                  >  2:687136/1‑141 (MQ=255)
                                                                                                              tgatgaT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGaa                            >  1:80300/1‑141 (MQ=255)
                                                                                                               gatgat‑TATAATGTAAAACAGTTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAAt                           <  1:401049/141‑1 (MQ=255)
                                                                                                               gatgat‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAAt                           >  1:403151/1‑141 (MQ=255)
                                                                                                               gatgat‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAAt                           >  1:392348/1‑141 (MQ=255)
                                                                                                                atgat‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAGTTTACTTTTTTAGAGAATa                          >  1:7696/1‑141 (MQ=255)
                                                                                                                 tgat‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTCAGAGAATaa                         <  1:614496/141‑1 (MQ=255)
                                                                                                                   at‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACTAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATaaaa                       <  2:759256/141‑1 (MQ=255)
                                                                                                                       ataATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATg                    <  2:100592/141‑1 (MQ=255)
                                                                                                                       ataATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATg                    <  2:247335/141‑1 (MQ=255)
                                                                                                                         aaTGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAACTgca                  >  2:206919/1‑139 (MQ=255)
                                                                                                                          aTGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGAGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTGTTTAGAGAATAAAAATGaaa                 <  1:588196/141‑1 (MQ=255)
                                                                                                                           tggaacaCAATTACGGAAAAGATATGACATACCAACAAATAAGGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTGAAAAGGTTCATCAGTTTGATATAAAAAAATTGAATTTACTTTTTTATAGAATAAAAATGaaaa                <  2:495795/135‑1 (MQ=18)
                                                                                                                             tAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAata              <  1:319548/141‑1 (MQ=255)
                                                                                                                               aaaCAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtt            >  1:53596/1‑141 (MQ=255)
                                                                                                                                    aTTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttactt       >  1:467372/1‑141 (MQ=255)
                                                                                                                                      tACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttacttta     >  1:141199/1‑141 (MQ=255)
                                                                                                                                      tACGTAAAAGATATGACATACAACTTAATAAATCGCCGACAATCAGGACAATCTGTATAGGGAATTTAAAAGGTTGATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttacttta     <  1:604760/141‑1 (MQ=16)
                                                                                                                                      tACGCAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttacttta     >  1:568855/1‑141 (MQ=255)
                                                                                                                                       aCGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttactttac    <  2:738810/141‑1 (MQ=255)
                                                                                                                                         gTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACTg  >  1:343426/1‑141 (MQ=255)
                                                                                                                                         gTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACTg  >  1:804672/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                           
AAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAT‑TATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACTG  >  USA300TCH1516_ALE/111423‑111699

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑