Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,435,075 T→A 6.7% G144G (GGT→GGA) ‡ dapH → 2,3,4,5‑tetrahydropyridine‑2,6‑dicarboxylate N‑acetyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,435,0750TA 6.7% 724.7 / 6.2 286G144G (GGT→GGA) ‡dapH2,3,4,5‑tetrahydropyridine‑2,6‑dicarboxylate N‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base T (90/167);  new base A (23/2);  total (114/172)
Fisher's exact test for biased strand distribution p-value = 2.22e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

Only 100 of 289 total aligned reads displayed.

GGTGCGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTAAAGGTGC  >  USA300TCH1516_ALE/1434935‑1435215
                                                                                                                                             |                                                                                                                                            
ggTGCGTTTATTAGAGAACAAGCAGAATATATACTTGTGGCTGTCGTTAAGATGGGCGCAACAATTAATATTGGCGCAGGCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGt                                                                                                                                              <  1:3925728/141‑1 (MQ=255)
 gTGCGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTa                                                                                                                                             <  1:1642607/141‑1 (MQ=255)
       ttattaGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATg                                                                                                                                       <  1:1167688/141‑1 (MQ=255)
          ttaGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTAc                                                                                                                                    <  1:2392307/141‑1 (MQ=255)
          ttaGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTAc                                                                                                                                    >  1:263556/1‑141 (MQ=255)
          ttaGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTAc                                                                                                                                    >  1:879200/1‑141 (MQ=255)
          ttaGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCAAAATCTCCAACTGATGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAAGTGGGAAAAATGTAc                                                                                                                                    >  1:2085253/1‑141 (MQ=255)
             gagaACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATg                                                                                                                                 >  1:2577917/1‑141 (MQ=255)
              agaACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGt                                                                                                                                <  1:4067271/141‑1 (MQ=255)
               gaACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAGTGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTa                                                                                                                               >  1:4321006/1‑141 (MQ=255)
               gaACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTa                                                                                                                               <  1:3813163/141‑1 (MQ=255)
                aaCAAGCCATTATTGAAGATGGTGCTGTCGTTATGACTGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAg                                                                                                                              <  1:409129/141‑1 (MQ=255)
                   aaGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAgggg                                                                                                                           <  1:1066410/141‑1 (MQ=255)
                   aaGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAgggg                                                                                                                           <  1:3578510/141‑1 (MQ=255)
                     gCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCt                                                                                                                         >  1:3238505/1‑141 (MQ=255)
                     gCCAGTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCt                                                                                                                         <  1:2499565/141‑1 (MQ=255)
                      ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACCACTGGTAAAAATGTACATGTAGGGGCTg                                                                                                                        >  1:584903/1‑141 (MQ=255)
                      ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTg                                                                                                                        <  1:928915/141‑1 (MQ=255)
                      ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTg                                                                                                                        >  1:982987/1‑141 (MQ=255)
                      ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCGCTACCATTAGTAAAAAAGTACATATAGGGGCTg                                                                                                                        >  2:2793836/1‑141 (MQ=255)
                      ccATTATTGAAGAGGGTGACAAAATTTAGATGTTCGCAACAATTAATATTGGCCCAGTCGGTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTg                                                                                                                        <  1:1861635/141‑1 (MQ=255)
                         gtattGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCTCAGTCGTTGGCGAAGGTACGCTGGTCGGGATGAATGCTACCATCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGgcg                                                                                                                     <  1:1043025/140‑1 (MQ=255)
                            ttGTAGATTGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCTAAGGTACCCTGATTGATATGAATGCTACTCTCGGTGGTCCTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAg                                                                                                                  <  1:616294/141‑1 (MQ=255)
                            ttGAATATGGTGCTGTCGTTATGATGGGCGCAACAAGTAATATTGGCGCAGTCGTTGGCGAAGGTACAACGATTGATACACATGCGACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAg                                                                                                                  <  1:1692009/141‑1 (MQ=255)
                            ttGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAg                                                                                                                  <  1:3819042/141‑1 (MQ=255)
                            ttGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTCCTACAATTGATAAAAATGTACATGTAGGGGCTGGCGCAg                                                                                                                  >  2:562580/1‑141 (MQ=255)
                            ttGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATCATTAATAAAAAAGTACATGTAGAGGCTCGCGCac                                                                                                                  >  2:3857492/1‑140 (MQ=255)
                            ttGAAGATGGTGCTGTCGTCATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAg                                                                                                                  <  1:2475002/141‑1 (MQ=255)
                               taaGTTGGTGCTGTTGTTATGATGGGCGCAACAATTTGTATTGGGGCAGTTGTTGGGGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTa                                                                                                                <  2:2403478/140‑1 (MQ=255)
                               gAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTa                                                                                                                >  1:3043566/1‑141 (MQ=255)
                               gAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATCATTAAAAAAAATATACATTTAAGGGCTGGCGCAgaa                                                                                                                >  2:2178364/1‑139 (MQ=255)
                               gAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATCATTAAAAAAAAAATACATGTCGGGGCTGGCGCAGtc                                                                                                                >  2:3556590/1‑140 (MQ=255)
                               gAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCCTACAACTAATAAAAAAATACATGTATGGGCTGGCGCAgaa                                                                                                                >  2:4207038/1‑139 (MQ=255)
                               gAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAATCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCGCTATCATTAGTAAAAATGTACATGTATGGGCGGGCGCAGTa                                                                                                                >  2:3169425/1‑141 (MQ=255)
                                 agcgggTGCGGTCGTGATGATGGGGGCAACAATTAATATTGGCGGAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTAtt                                                                                                              <  2:3579428/137‑1 (MQ=255)
                                   aTGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAg                                                                                                            <  1:4305723/141‑1 (MQ=255)
                                     ggTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCa                                                                                                          <  1:74372/141‑1 (MQ=255)
                                      gTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAg                                                                                                         >  1:2913589/1‑141 (MQ=255)
                                        gCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGgt                                                                                                       >  1:2345295/1‑141 (MQ=255)
                                        gCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCGCTACAATTAAAAAAAAAATACATGTAGGGTCTGGCGCAGTATTAGCAggg                                                                                                       >  2:502504/1‑140 (MQ=255)
                                          tGTCGTTATGATGGGCGCAACAATTAATATTGGCGCCGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGgtgt                                                                                                     >  1:1606082/1‑141 (MQ=255)
                                           gTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACATCTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGtgtg                                                                                                    >  1:47163/1‑141 (MQ=255)
                                             ggtagtgacgGGCGCAACAATTAAGATTGGCGCAGTTGTTGGCGAAGGTACAATGAGTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGAt                                                                                                  <  2:1506791/136‑1 (MQ=255)
                                             cGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTACCATTAAAAAAAATATACATGCAGGGGCTGGCACTGTCTTAGCAGgtctaat                                                                                                  >  2:251301/1‑136 (MQ=255)
                                             cGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCCTACCATTAAAAAAAATGAACATGTAGGGGCTGGCGCAGTATTAGCAAGCGTGAt                                                                                                  >  2:3425719/1‑141 (MQ=255)
                                             cGTGATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGAt                                                                                                  <  1:2128614/141‑1 (MQ=255)
                                                tATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCGGGATTAGCAGGTGTGATTGa                                                                                               >  1:1759284/1‑141 (MQ=255)
                                                    atgGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAAccc                                                                                           <  2:3900051/141‑1 (MQ=255)
                                                       ggCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACCATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAGTGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCt                                                                                        >  1:181688/1‑141 (MQ=255)
                                                         cgcAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTACCATTGAAAAAAATATACATGTAGGGGCTGGCGCAGTATTAGCAGATGTGATTGAACTCACTAg                                                                                      >  2:2286736/1‑141 (MQ=255)
                                                            aacaaTTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGc                                                                                   >  1:937187/1‑141 (MQ=255)
                                                            aacaaTTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCGCTATAATTAATAAAAAGAAACATGTAGGGGCTGGCGCAGTATTAGCAGGCATGATTGAACACACTAgcgc                                                                                   >  2:4052346/1‑141 (MQ=255)
                                                             acaaTTACTATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCt                                                                                  <  1:3656971/141‑1 (MQ=255)
                                                             acaaTTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCt                                                                                  <  1:1461192/141‑1 (MQ=255)
                                                              caaTTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCtt                                                                                 <  1:3992674/141‑1 (MQ=255)
                                                                   aaTATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTCGTATCATTAATAAAAAAAAACATCTCGACTCTCGCTCACTATTAACACTTGCGATTTAACCCCCTCGCGCTTCACCg                                                                            >  2:1165304/1‑141 (MQ=255)
                                                                     tatTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGt                                                                          <  1:1258082/141‑1 (MQ=255)
                                                                     tatTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGATACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGt                                                                          <  1:1014618/141‑1 (MQ=255)
                                                                      atTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGtt                                                                         <  1:545027/141‑1 (MQ=255)
                                                                         ggCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGACCCCCCTCGTGCTTCACCGGTtata                                                                      >  1:255051/1‑141 (MQ=255)
                                                                         ggCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTtata                                                                      >  1:2974762/1‑141 (MQ=255)
                                                                           cgcAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTTCATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAAt                                                                    <  1:837232/141‑1 (MQ=255)
                                                                            gtaGTCGTAGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGTCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATc                                                                   <  1:2242775/139‑1 (MQ=255)
                                                                              aGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGa                                                                 <  1:1949750/141‑1 (MQ=255)
                                                                               gTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGGGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAg                                                                >  1:1212808/1‑141 (MQ=255)
                                                                                        catggTACAATGATTGATATGAATGCTATTCTCTGTGGTCGTGTTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTa                                                       <  1:1529208/138‑1 (MQ=255)
                                                                                          gagTACAAAAATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTAtt                                                     <  1:4333964/139‑1 (MQ=255)
                                                                                          aGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGGTATCATTAAAAAAAAAATAGATGTAGGGGCTGGAGCAGTATTAGCAGGAGAGATTGAACCCCATAGTGCTTCAACGGTTATAATCGAGGATGAGGTAtt                                                     >  2:1250891/1‑141 (MQ=255)
                                                                                          aGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTAtt                                                     <  2:612060/141‑1 (MQ=255)
                                                                                               cAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCg                                                >  1:3397393/1‑141 (MQ=255)
                                                                                                 aTGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGt                                              >  1:3446929/1‑141 (MQ=255)
                                                                                                 aTGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGt                                              >  1:2185861/1‑141 (MQ=255)
                                                                                                   gattgcgATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGc                                            <  1:3281754/141‑1 (MQ=255)
                                                                                                   gattgatATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGc                                            <  1:3138812/141‑1 (MQ=255)
                                                                                                   aagtgatATGAGTGGTTCTGTCGGTGGTGGTGTTACAGCTGGTATAAATGTACATGTAGGGGCTGGCGCAGTATTAGGAGGTGTGATTGAGACCCCTAGTGCTTCACTGGTTATAATCGAGGATGATGTATTAATCGGTGc                                            <  2:207303/138‑1 (MQ=255)
                                                                                                     ttgatATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCaa                                          <  1:847133/141‑1 (MQ=255)
                                                                                                         tatGAATGCTACTCTCGGTGGTCGCCGTATCATTAAAAAAAAAATACATGTAGGGGCTGGCGCAGTATTAACAAGTGTAATTGAACCCACTAGAACTTCACCGGTTATAAACGAGGATGATGTATTAATCGGTGCAAAtac                                      >  2:1648839/1‑139 (MQ=255)
                                                                                                           tGAATGCTACTCTCGGTGGTCGCCGTATAATTAAAAAAAAAATACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATAATGTATTAATCGGAGCAAAAGCAg                                    >  2:2759434/1‑141 (MQ=255)
                                                                                                            taattatACTCTCGGTGGTCTGGCTAAGACTTGTAAAAAAGGACATGTAGGGGTTGGCGCAGTATTAGTAGGTGTGATTGATCCCCTTATTGTTTTACCGGTTATAATTGAGGATGATGTATTAATCGGTGCAAATGCAGt                                   <  2:435528/135‑1 (MQ=255)
                                                                                                            gAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGCGGATGATGTATTAATCGGTGCAAATGCAGt                                   >  1:1362889/1‑141 (MQ=255)
                                                                                                            gAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGt                                   >  1:3769308/1‑141 (MQ=255)
                                                                                                             aaTGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGtt                                  >  1:1737488/1‑141 (MQ=255)
                                                                                                             aaTGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGtt                                  <  1:4266234/141‑1 (MQ=255)
                                                                                                               tGCTACTCTCGGTGGTCGGGCTACAACTGGTAAAAATGTACATGTAGGGGTTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTAt                                <  2:3619632/141‑1 (MQ=255)
                                                                                                                 cTACTCTCGGTGGTCGTCGTATCATTAAAAAAAAAAAACATGTAGGGGCTGGCGCAGTATTAGCAAGTAAGATTGAACCCCCTAGTGCTTCACCAGTTATAACCAAGGATGATCTACTAATCGGTGCAAATACAGatataa                              >  2:855907/1‑139 (MQ=255)
                                                                                                                        cGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCGTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAgg                       <  1:1371829/141‑1 (MQ=255)
                                                                                                                         ggtggtCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCGTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGgt                      <  2:2577917/141‑1 (MQ=255)
                                                                                                                          gtggtCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGGTGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGgtg                     <  1:4207038/141‑1 (MQ=255)
                                                                                                                           tggtCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGgtgt                    <  1:2724085/141‑1 (MQ=255)
                                                                                                                           tggtCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGgtgt                    >  1:3511365/1‑141 (MQ=255)
                                                                                                                            ggtCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTa                   <  1:4044576/141‑1 (MQ=255)
                                                                                                                            ggtCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTa                   <  1:2286736/141‑1 (MQ=255)
                                                                                                                              tCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACg                 >  1:3312720/1‑141 (MQ=255)
                                                                                                                                gTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACgtg               >  1:2667299/1‑141 (MQ=255)
                                                                                                                                gTGATAGAACTAGTAAAAAGGTGGTGGTAGGGGCTGGCGGAGTATTAGGAGGTGTGATTGAACCGCCTAGTGCGTGACCGGTTATAAGGGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACgtg               <  2:23144/141‑1 (MQ=255)
                                                                                                                                    tACAACTGGTAGAAATGTACATGTAGGGGCTGGCGCAGTAGTAGCAGGTGTGATTGAACCCCCTAGTGCTTTACCGGTTATTATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTgg           <  2:2921207/141‑1 (MQ=255)
                                                                                                                                      tagcTGGTAAAAATGTACATGTAGGGGCTTGCGTAGTATTAGCAGGTTTGATTGATACCCCTAGTGCTTCACTGGTTATGATCGTGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTa         <  2:1123736/138‑1 (MQ=255)
                                                                                                                                            gTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTAAAGGTg   >  2:3478472/1‑141 (MQ=255)
                                                                                                                                            gTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTAAAGGTg   <  1:419406/141‑1 (MQ=255)
                                                                                                                                            gTAAAAATGTACATGTAGGGGCTGGCGCAGGATTAGCAGGTTTGATTGAACTCTCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTGGAAGGTGTACGTGTTGGTAAAGGTg   <  2:263556/141‑1 (MQ=255)
                                                                                                                                             |                                                                                                                                            
GGTGCGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTAAAGGTGC  >  USA300TCH1516_ALE/1434935‑1435215

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: