Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,857,867 C→T 6.8% L169L (TTG→TTA USA300HOU_RS09235 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,857,8670CT 6.8% 617.5 / 7.9 275L169L (TTG→TTAUSA300HOU_RS09235hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (108/129);  new base T (6/25);  total (120/155)
Fisher's exact test for biased strand distribution p-value = 6.27e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 277 total aligned reads displayed.

TTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATC  >  USA300TCH1516_ALE/1857734‑1857999
                                                                                                                                     |                                                                                                                                    
     gctgctTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCGTCTTGTGATGTATGACTCAAatt                                                                                                                                 >  2:1234066/1‑134 (MQ=255)
       tgctTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAattat                                                                                                                               >  1:704335/1‑134 (MQ=255)
        gctTGTTGTGCTTTCAATTCCACTGCTTTTGGTTCTTCATTTTATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAattatt                                                                                                                              <  1:510384/134‑1 (MQ=255)
           tgttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACTGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGc                                                                                                                           <  1:819431/134‑1 (MQ=255)
           tgttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGc                                                                                                                           >  1:1056218/1‑134 (MQ=255)
            gttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCTCTCAATTTATTTGct                                                                                                                          >  2:1488438/1‑133 (MQ=255)
              tgtgCTTTTACTGCCACTGCTTTTGGTTTTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATTTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACt                                                                                                                        <  2:104310/134‑1 (MQ=255)
              tgtgCTTTCAATGCTACTGTTGTTGCTTGTGCATTTTTTACTGCTGCACTTTTGTCTGTCTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACt                                                                                                                        <  2:1442886/134‑1 (MQ=17)
               gtgCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACtt                                                                                                                       >  2:2759502/1‑134 (MQ=255)
               gtgCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCATATTGTGATGTATAACTCAAATTATTTGCACtt                                                                                                                       >  1:2632522/1‑134 (MQ=255)
               gtgCTGTCAATTCCACTGCTTTTGGTGTGTCATTTGATGTAGCTGCATTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACtt                                                                                                                       <  1:2490945/134‑1 (MQ=17)
                 gCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGc                                                                                                                     <  1:2685391/134‑1 (MQ=255)
                  ttttCAATGCCACTGTTTTTGGTTCTGCATTTGATACTGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGct                                                                                                                    <  2:1644859/133‑1 (MQ=255)
                  tcttCATTGCCACTGCTGTTGGTTCGTCATTTTTTACAGCTGCATTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTTTTCGTCTTGTGATGTATCACTCAAATTATTTGCACTTGct                                                                                                                    <  2:1592949/132‑1 (MQ=17)
                     tCAATGCCACTGCTTTTGGTTATTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTTCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCTCTTGcttct                                                                                                                 >  2:210371/1‑134 (MQ=255)
                          gctaCTGTTTTTGTTTTTGCATTTGTTATTGCTGTACTTTTGTCTGTTTCTGCTTGTGCTGCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCttt                                                                                                            <  2:2540416/131‑1 (MQ=17)
                          gCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTATCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCttt                                                                                                            <  1:1496289/134‑1 (MQ=255)
                          gCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTACATGTACTAAATAATTAACAACTTGAATCTATTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCttt                                                                                                            >  1:831901/1‑134 (MQ=17)
                           ccACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTATGCCTCTTGTGATGTATCACTTAAATTATTTGAACTTGCTTCTTCtttt                                                                                                           >  2:544210/1‑134 (MQ=255)
                           ccACTGCTTCTGGTTCTTCATTTGTTGCAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCtttt                                                                                                           <  2:403282/134‑1 (MQ=255)
                            taCTGCTTTTGCTTCTGTATCTTTTACTGCTGCACTTTTATCTTTTTCTGCTTGTGCTTCTTGTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTa                                                                                                          <  2:2013945/133‑1 (MQ=11)
                            cACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATAACTCAAATTATTTGCACTTGCTTCTTCTTTTa                                                                                                          >  1:2648524/1‑134 (MQ=255)
                               tGCTTTTGATTTTTCATTTGTTATTGCTGTATTTTTATCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCg                                                                                                       <  2:231894/134‑1 (MQ=17)
                                gCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCgc                                                                                                      >  1:1424020/1‑134 (MQ=255)
                                 cTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTAAATCTTGTGATGTATCACTCAAATTATTTACACTTGATTCTTCTTTTATCgct                                                                                                     >  1:58615/1‑134 (MQ=17)
                                      ggTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGATTCTTTTTTAGCATCTTGAATCTTTTGTGCCTCTTATGATGTATCAATCTAATTATTTACACTTTTTTCTTTTTTTATCGCTGTttg                                                                                                >  2:644595/1‑134 (MQ=255)
                                      ggTTCTTCATTTGATACAGCTGCACTTTTATCTGATTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttg                                                                                                >  1:2420547/1‑134 (MQ=255)
                                       tttcttcATTTTATTTAGCTGTATTTTTTTCTGTTTCTTTTTTTTTTTCTTTTTTATCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATCATTTGCACTTGCTTCTTCTTTTATCGCTGCttgt                                                                                               <  1:190162/133‑1 (MQ=17)
                                       gTTTTTCATTTGATACTGCTGTACTTTTATCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgt                                                                                               <  2:2068601/134‑1 (MQ=255)
                                       gTTCTTCATTTTTTACTGCTGTACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgt                                                                                               <  2:2390852/134‑1 (MQ=255)
                                       gTTCTTCATTTGATGCTGATGCACTTTTGTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgt                                                                                               <  2:2680964/134‑1 (MQ=255)
                                         tcttcATTTGTTGCAGCTGCATTTTTGTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgttg                                                                                             <  2:784242/134‑1 (MQ=255)
                                          cttcATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTtgttgt                                                                                            <  1:1676514/134‑1 (MQ=255)
                                                   aTACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAAt                                                                                   >  1:2519555/1‑134 (MQ=255)
                                                    tACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCATATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATg                                                                                  <  2:1688445/134‑1 (MQ=255)
                                                      ttgCTGTATTTTTATCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGcc                                                                                <  1:1184453/132‑1 (MQ=255)
                                                       aGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATAACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTTTTGTGCTTTCTATGTCa                                                                               >  1:921079/1‑134 (MQ=255)
                                                       aGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTAACACTCAAATTATTTACAATTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCa                                                                               >  1:940338/1‑134 (MQ=255)
                                                           gtgtttttttCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGc                                                                           <  2:1829032/130‑1 (MQ=255)
                                                           gCACTTTTATCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGc                                                                           <  1:2446550/134‑1 (MQ=255)
                                                              cTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCAATAAAATTATTTGCACTTGCTTCTTCTTTTATAGCTGCTTGTTGTGCTTTCAATGCCACTGCttt                                                                        >  1:43823/1‑134 (MQ=255)
                                                                ttttTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTg                                                                      <  2:2827040/134‑1 (MQ=255)
                                                                 ttATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGa                                                                     <  2:2773191/134‑1 (MQ=255)
                                                                  tATCTGTTTCTGTGTGGGCTTTTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGAt                                                                    <  1:2541171/134‑1 (MQ=255)
                                                                  tATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTTATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGAt                                                                    <  1:2772448/134‑1 (MQ=255)
                                                                    tCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTc                                                                  <  2:117291/134‑1 (MQ=255)
                                                                    tCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTc                                                                  <  1:212843/134‑1 (MQ=255)
                                                                          tCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTAtt                                                            >  1:766527/1‑134 (MQ=255)
                                                                            tGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTCTGATTCTTTAtttt                                                          >  2:235840/1‑133 (MQ=255)
                                                                            tGCTTGTGCTTCTTTTTTAACTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAACTTATTTGCACTTGCTTCTTCTTTTATCCCTGCTTGTTTTGATTTATATGTAACTGATTTAGATTATTTTTTTg                                                          >  1:1220523/1‑134 (MQ=14)
                                                                             gCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCTCTCATATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTTCTTTTAATGCCACTGCTTTTGATTTTTTTTTTGa                                                         >  1:1997354/1‑134 (MQ=14)
                                                                                   gCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTATTCTTTTATAGCTGCTTGTTGTGCTTTCAATGCCACTACTTTTGATTCTTTATTTGATACAGc                                                   >  1:1143067/1‑134 (MQ=255)
                                                                                     ttcttTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATACCAATGCATTTAATTTTTTATTTCATACAGTca                                                 >  1:1212956/1‑134 (MQ=14)
                                                                                      tcttTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATg                                                                                  <  1:919137/100‑1 (MQ=255)
                                                                                         tttttAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACt                                             <  1:2153411/134‑1 (MQ=255)
                                                                                         tttttAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACt                                             <  2:73736/134‑1 (MQ=255)
                                                                                           tttAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACttt                                           <  1:1016948/134‑1 (MQ=255)
                                                                                             tAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTACTTTTGATTCTTTATTTGATACAGCTACACTTTTa                                         >  1:2797645/1‑134 (MQ=255)
                                                                                              aGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTTATTCTTTATTTTATACAGCCACCTTTTTAt                                        >  2:1910414/1‑134 (MQ=255)
                                                                                              aGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTAt                                        >  2:916144/1‑134 (MQ=255)
                                                                                               gCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTTATAAAGCCACACCATTATc                                       >  2:1324328/1‑134 (MQ=255)
                                                                                               gCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATc                                       <  1:210371/134‑1 (MQ=255)
                                                                                                  tcttGAATCTCTTGTGCCTCTTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTTCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGc                                    <  2:1741901/134‑1 (MQ=255)
                                                                                                   cttGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCt                                   <  1:1561587/134‑1 (MQ=255)
                                                                                                     tgcaTCTCTTGTGTCTCTTGTTATTTTTCTCTCATTTTTTTTGCTCTTTCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTc                                 <  1:314069/131‑1 (MQ=17)
                                                                                                     tGATTCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTc                                 <  1:2207130/134‑1 (MQ=255)
                                                                                                        aTCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTTTGCTTTCAATGCAACTGCTTTTGATTCTTTATTTGATACAACCACACTTTTATCCGCTTCTGc                              >  1:301370/1‑134 (MQ=255)
                                                                                                        aTCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGc                              <  1:35771/134‑1 (MQ=255)
                                                                                                         tctcTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTTTTCTTTCAATCCCACTGCTTTTAATTCTTTATTTTATACAACTACAATTATATCCTCTTCTGCt                             >  1:2056976/1‑134 (MQ=14)
                                                                                                         tctcTTGTGCCTCTTGTGATGTATCACTCAAAATATTTGCACTTGCTTCTTCTTTTATCGCTGATTGTTGTGCATTTAATGCCCCTGCTTCTTATTTTTTATTTTATAAATCCTACCTTTTATCCGCTCTTGCt                             >  2:2535920/1‑134 (MQ=14)
                                                                                                          ctctTGTGCCTCTTGTGATGTATCACTCAAATTATTTGc                                                                                                                           <  1:2335559/39‑1 (MQ=255)
                                                                                                          ctctTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATCACGCCACACTTTTATCCGCTTCTGCtt                            <  1:1248099/134‑1 (MQ=255)
                                                                                                          ctctTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCtt                            <  1:605031/134‑1 (MQ=255)
                                                                                                          ctctTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCtt                            <  1:1685323/134‑1 (MQ=255)
                                                                                                          ctctTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTAATACAACCACACCTTTATCCGCTTCTGCtt                            >  1:1784811/1‑134 (MQ=255)
                                                                                                           tctTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTtg                           >  1:1642722/1‑134 (MQ=255)
                                                                                                            ctTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACt                                                                                                                        >  2:87903/1‑40 (MQ=255)
                                                                                                             ttGTGCCTCTTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTtgtg                         <  2:2581029/134‑1 (MQ=255)
                                                                                                             ttGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCCTTTAATGCCACTGCTTTTGATTCTTTATTTGATACAACCACACTAATATCTTCTTCTGCTtgtg                         >  2:1788353/1‑134 (MQ=14)
                                                                                                              tgtgCCTCTTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGc                        <  2:1937710/134‑1 (MQ=255)
                                                                                                               tgtcttctTGTGATGTATGACTCAAATTAGTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCt                       <  2:847896/129‑1 (MQ=255)
                                                                                                               gtgCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCt                       <  1:723823/134‑1 (MQ=255)
                                                                                                               gtgCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCACTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCt                       >  1:2253061/1‑134 (MQ=255)
                                                                                                               gtgCCTCTTGTGATATATCACTTAAATTATTTGTACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCt                       <  2:687558/134‑1 (MQ=255)
                                                                                                                  ccTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTtct                    <  1:1855912/134‑1 (MQ=255)
                                                                                                                  ccTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCCTTTGATTCTTTTTTTGTTACAGCTACACCTTTATCCTCTTCTGTTTATGCtacc                    >  2:534027/1‑131 (MQ=14)
                                                                                                                    ttctgtgATGTATCACTCAAATAATTCGCACTTCCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTctct                  <  2:25119/131‑1 (MQ=255)
                                                                                                                    tctTGTGATTTGTCACTTAAATTATTTGCTCTTGCTTCTTCTTTTCTCGCTGCTTCTTGTGCTTTCAATACCACTGTTTTTGATTCTTTATTTTATACAGCCACATTTTTATCCGCTTCTGCTTGTGCTTctct                  <  2:2210706/134‑1 (MQ=255)
                                                                                                                    tctTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTctct                  <  2:1127817/134‑1 (MQ=255)
                                                                                                                    tctTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTctct                  >  1:1592867/1‑134 (MQ=255)
                                                                                                                    tcctgtgATGTATCACTTAAATTACTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTctct                  <  2:2449769/131‑1 (MQ=255)
                                                                                                                          gATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGc            <  1:96703/134‑1 (MQ=255)
                                                                                                                            tGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTTAATGCCACTGCTTTTGATTCTTTATTTGTTACAGCTACACTTTTATCAGCTTTTGCTTGTGCTTGTCTTTTTGcct          >  2:322344/1‑132 (MQ=14)
                                                                                                                            tGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGctt          <  1:491094/134‑1 (MQ=255)
                                                                                                                             gTATCACTCAAATTATTTGGTCGTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCACTGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGcttc         <  2:1870760/134‑1 (MQ=255)
                                                                                                                               aTCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGcttctt       <  1:2581958/134‑1 (MQ=255)
                                                                                                                                 cACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTTATACAGCCACATTTTTATACGCTTTTGCTTGTGCTTTTCTTTTATTTTCTTGa     >  1:1289167/1‑134 (MQ=17)
                                                                                                                                 cACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGa     <  1:2304216/134‑1 (MQ=255)
                                                                                                                                 aaCTCAAATTATTTGACCTTGCTTCTTCTTTTATCGCTGCTTGGTGTGCCTTCAATGCCAATACTCTTGTTTCTTTATTTAATAGATAGTCATTTTTATCCGCTTCTGCGTCTCCATCTCTTTTGGcttcttta     >  2:105967/2‑132 (MQ=9)
                                                                                                                                  aCTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGATTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGATTATGCTTCTCTTTTTGCTACTCGaa    >  1:2385607/1‑134 (MQ=17)
                                                                                                                                     |                                                                                                                                    
TTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATC  >  USA300TCH1516_ALE/1857734‑1857999

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: