Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,857,867 C→T 12.0% L169L (TTG→TTA USA300HOU_RS09235 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,857,8670CT12.0% 683.5 / 31.5 314L169L (TTG→TTAUSA300HOU_RS09235hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (132/131);  new base T (12/34);  total (147/167)
Fisher's exact test for biased strand distribution p-value = 3.58e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

Only 100 of 325 total aligned reads displayed.

TCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATCTCTTGTGC  >  USA300TCH1516_ALE/1857727‑1858007
                                                                                                                                            |                                                                                                                                            
tcttcttTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTc                                                                                                                                              <  1:709409/141‑1 (MQ=255)
  ttcttTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGACTCTTGTGATGTATTACTcga                                                                                                                                            >  1:2448980/1‑139 (MQ=255)
      tttATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGTATCTCTTGTGCCTCTTGTGCTGTATCACTctcgttt                                                                                                                                        >  2:2267135/1‑135 (MQ=255)
          tCGGTGCTTGTTGTGCTTTCACTGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTACGCCACTTGTTATGTATCACTCATATTATTTg                                                                                                                                    <  1:2121558/141‑1 (MQ=17)
           ctctgttTGTTGTGCATTCTCTTCCACTGCTTTTGCTCTTTCATTTTTTATTGCTGTACTTCTATCTTTTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCACTTAAATTATTTGc                                                                                                                                   <  2:3256965/139‑1 (MQ=2)
           cGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGc                                                                                                                                   <  1:3978407/141‑1 (MQ=255)
            tctgctTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGCTGTATCACTTAACTTATTTGCa                                                                                                                                  >  2:4111744/2‑141 (MQ=255)
              tgctTGTTGTGCTTTCAATGCCGCTGCTTTTGGTTCTTCATTTGATGCAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTGTTTTAGCTTCTTGAAGCTCTTGTGCCTCTTGTGATGTGTCACTATCATTCTTGGCACt                                                                                                                                >  1:904227/1‑141 (MQ=14)
              tgctTGTTGTGCTTTCAATGCCACTGCTTTTGGTTATTCATTTTGTACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACt                                                                                                                                <  1:3427853/141‑1 (MQ=255)
               gctTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACtt                                                                                                                               <  1:330428/141‑1 (MQ=255)
                tttgttgTGTTTTTACTGCCACTGTTTTTGGTTTTTCATTTGTTGTAGCTGCATTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTg                                                                                                                              <  2:222247/140‑1 (MQ=17)
                ctTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTg                                                                                                                              <  1:2574651/141‑1 (MQ=255)
                   gttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATTTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGctt                                                                                                                           <  1:555044/141‑1 (MQ=255)
                   gttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCATTCAGATTAGCTTCACTTTctt                                                                                                                           >  2:2322704/1‑141 (MQ=17)
                   gttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGctt                                                                                                                           >  1:3342440/1‑141 (MQ=255)
                    ttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGcttc                                                                                                                          <  1:3844141/141‑1 (MQ=255)
                     tgtgCTTTCAATGCCACTGCTTTTGGTTCTTAATTTGATACAGATGCACTTTTATATGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCAATCAAATTATCTGCAACTGcttct                                                                                                                         >  2:2646861/1‑141 (MQ=17)
                      gtgCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTTCTTCTTTTTTAGCTTATTGGATATCTTTTGCATCTTATTATATATCTCTCTAATTGTTTTCACTTTcttatt                                                                                                                        >  2:3316700/1‑141 (MQ=17)
                             cAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAGTCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTAt                                                                                                                 >  1:310921/1‑141 (MQ=255)
                             cAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTAt                                                                                                                 >  1:1867931/1‑141 (MQ=255)
                               aTGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGTTGTATGACTCTAGTTTTTTGAACTTGCTTCTTCTTTTGTct                                                                                                               >  2:238770/1‑140 (MQ=17)
                               aTGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTCTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTATTGTATCACTCTCGTTATTTTCACTTGTTTCttttttagtgt                                                                                                               >  2:3853322/1‑136 (MQ=17)
                                tGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTTGCTCTTGTGATGTATCACTCACATTATATGTATTTGCTTTTTCTTTTAtgtt                                                                                                              >  2:2132814/1‑138 (MQ=17)
                                tGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCgc                                                                                                              <  1:3163600/141‑1 (MQ=255)
                                 gCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCgct                                                                                                             <  1:3370200/141‑1 (MQ=255)
                                  ccACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCATTTTCTTCGTCTTTTATCgctg                                                                                                            >  1:3904452/1‑141 (MQ=255)
                                  ccACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATAATTTGCACTTGCTTCTTCTTTTATCgctt                                                                                                            >  2:3706933/1‑140 (MQ=255)
                                  ccACTGCTTATGGTTCTTCATTGTATACAGCAGCACTTTGATATGGTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTTTGCCTCTTGTGATCTCTCACAACACTTAGGTGGACTTGCTTCTTCTTTTATCgctg                                                                                                            >  2:1767478/1‑141 (MQ=14)
                                   cACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCACTTAAat                                                                                                                                          <  2:4405999/110‑1 (MQ=255)
                                   cACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTTAAATTATTTGCACt                                                                                                                                >  1:3815297/1‑120 (MQ=255)
                                   cACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAat                                                                                                                                          >  1:4405999/1‑110 (MQ=255)
                                    aCTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCGTCTTGTGATGTCTCACTCAAATTATTTGCCCTTGCTTCTTCTTTTTTGgctgct                                                                                                          >  1:157028/1‑141 (MQ=17)
                                       gCTTTTGGTTCTTCATTTGCTACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGGATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgt                                                                                                       <  1:2472461/141‑1 (MQ=255)
                                         ttttGGTTCTTCATTTGATACAGCTGCACTTTTGTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGAACTTGCTTCTTCTTTTATCGTTGCttgttg                                                                                                     >  1:655969/1‑141 (MQ=255)
                                         ttttGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgttg                                                                                                     <  1:1242270/141‑1 (MQ=255)
                                         ttttGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCAATTGCTTCTTCTTTTATCGCTCCttgttt                                                                                                     >  2:3661794/1‑140 (MQ=255)
                                          tttGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTtgttgt                                                                                                    >  2:1285144/1‑141 (MQ=255)
                                              gTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGGTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATTACTTTAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGAtt                                                                                                >  1:1949618/1‑141 (MQ=17)
                                               ttcttcATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCttt                                                                                               >  1:1098996/1‑141 (MQ=255)
                                               ttcttcATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCctt                                                                                               >  1:4336524/1‑141 (MQ=255)
                                                tcttcATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTc                                                                                              <  1:3665060/141‑1 (MQ=255)
                                                      tttGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATGTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGcc                                                                                        >  1:3710564/1‑141 (MQ=255)
                                                        tGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTTAAATTATTTGCACt                                                                                                                                <  2:2829306/99‑1 (MQ=255)
                                                        tGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACt                                                                                                                                >  1:2829306/1‑99 (MQ=255)
                                                             cAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTGTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTTCTTGTTGTGCTTTTAATGCCGCtcttt                                                                                 >  2:4311286/1‑137 (MQ=14)
                                                                  gCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGcctt                                                                                               <  2:1483918/122‑4 (MQ=2)
                                                                  gCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCttt                                                                                               >  1:1483918/1‑122 (MQ=255)
                                                                  gCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCTACTGCTTTTGAt                                                                            >  1:2694305/1‑141 (MQ=255)
                                                                   cACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTTCTTTTAATGCTACTTCtttttttt                                                                           >  2:1917309/1‑137 (MQ=17)
                                                                   cACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCttt                                                                                               >  1:2868633/1‑121 (MQ=255)
                                                                   cACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCATTGCCACTTCTTTTGttt                                                                           >  2:2588724/1‑141 (MQ=255)
                                                                    aCTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTc                                                                          <  1:4236918/141‑1 (MQ=255)
                                                                     cTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTTCTTTTGATTCt                                                                         >  1:4289558/1‑141 (MQ=255)
                                                                               tttCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATa                                                               <  2:343377/141‑1 (MQ=255)
                                                                               tttCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATa                                                               >  1:1778222/1‑141 (MQ=255)
                                                                                   tGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGct                                                                                                                            <  2:195977/76‑1 (MQ=255)
                                                                                   tGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGc                                                           >  1:833197/1‑141 (MQ=255)
                                                                                      ttGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCg                                                                                                               <  1:3766317/86‑1 (MQ=255)
                                                                                      ttGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCcac                                                        <  2:1009467/141‑1 (MQ=255)
                                                                                        gtgCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTTCTACAGCTacac                                                      >  2:3962035/1‑141 (MQ=255)
                                                                                        gtgCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCacac                                                      >  1:2283634/1‑141 (MQ=255)
                                                                                            ttcttTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCTCTGCTTTTGATTCTTTATTTGATACAGCCACACtttt                                                  <  2:1587155/141‑1 (MQ=255)
                                                                                               ttttttAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACGCAAAGCATTTGCACTTGCTAATTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTATATTCTTTATTTTATACATCCACATCTTTacc                                               >  2:6527/1‑139 (MQ=14)
                                                                                                tttttAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTTAATGc                                                                                         >  1:1829497/1‑98 (MQ=255)
                                                                                                 ttttAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCgctgc                                                                                                           <  1:974228/79‑1 (MQ=255)
                                                                                                    tAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTTCCTGCCACGGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCtt                                          >  1:1437261/1‑141 (MQ=255)
                                                                                                     aGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCCACCTATTTGCACTTGATTCTTCATTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTCTTTGATACAGCCACACTTTTATCCGCTTc                                         >  1:2212975/1‑141 (MQ=17)
                                                                                                     aGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCgctgc                                                                                                           <  1:2923326/75‑1 (MQ=39)
                                                                                                     aGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTTATTTGATACCGCCACGCTTTTATCCGCttt                                         >  1:753473/1‑140 (MQ=255)
                                                                                                     aGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTc                                         >  1:465229/1‑141 (MQ=255)
                                                                                                     aGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTc                                         <  1:216304/141‑1 (MQ=255)
                                                                                                        ttcttGAATCTCTTGTGCCTGTTGTGATGTATCCCTCACATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCCTGCAATTCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGc                                      <  1:2801087/141‑1 (MQ=17)
                                                                                                        ttcttGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCgc                                                                                                              >  2:1193123/1‑69 (MQ=255)
                                                                                                        ttcttGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttg                                                                                                        >  1:2668346/1‑75 (MQ=255)
                                                                                                          tttGAATCTCTTTTTCTTCTTTTGATTTATCATTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTTCTTTTGATTCTTTATTTTATACAGCCACACTTTTATCCGcttcttctt                                    <  2:585954/140‑1 (MQ=17)
                                                                                                             gAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCTCTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTtgtg                                 <  2:3785683/141‑1 (MQ=255)
                                                                                                               atttctTGTGCCTCGTGTGATGTATCCCTTGCATTTGTTGCACTTGCTTCTTTTTTTATTGTTGCGTTTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCt                               <  2:3047254/138‑1 (MQ=17)
                                                                                                               aTCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTTCTTCTTCTTTTATCGCTGCTTGTCGTGTCTCTGATACCACTCATTTTCTGGTTAGATGGGGTACAGCCACACTTTTATCCGCTTCTGCTTGTGCt                               <  1:3249974/141‑1 (MQ=9)
                                                                                                                    ttGTGTCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTctct                          <  1:1015205/141‑1 (MQ=255)
                                                                                                                    ttGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTTCTTctct                          >  1:2617405/1‑141 (MQ=255)
                                                                                                                      ttgCCTCTTGTGATGTCTCACTCATCTGATGGGCACTTGCTTCTTCGTTGATCGCGGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCGTCTGCTTGTGCTTCTCttt                        <  1:3020146/140‑1 (MQ=17)
                                                                                                                      gtgCCTCTTGTGATGTATCACTTAGATTATTTGCTCTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCttt                        <  2:4013776/141‑1 (MQ=255)
                                                                                                                      gtgCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTTTTTTATACAGCCACACTTTTCTCCTCTTCTGCTTGTGCTTCTCttt                        >  1:1307857/1‑141 (MQ=255)
                                                                                                                      gtgCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTCTTTTTCTTTTTTTGTTACAGCCCCTCTCTTATCCGCTTTTGCTTCTTCTTCTCttt                        >  2:1685384/1‑141 (MQ=17)
                                                                                                                       ggCCTCTTGTGTTGTATCCCTCAAATTATTTGCACTTGCTTCTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTa                      <  1:2004063/140‑1 (MQ=255)
                                                                                                                        gCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTa                      <  1:4023220/141‑1 (MQ=255)
                                                                                                                         ccTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTTCTTTTGATTCTTTATTTTATACATCCACTCCTTTATCCGCTTCTGCTTGTGCTTCTCTTTTac                     >  2:3547738/1‑140 (MQ=17)
                                                                                                                             ttGTGATGTATCACTCAACTTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGTGCACATCCCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGcttc                 <  1:2082056/141‑1 (MQ=17)
                                                                                                                              tgtgATGTATCACGCAATTTATTTGTTCTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGCTTCTTTATTTGTTACAGCTGCACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGcttct                <  2:4209421/141‑1 (MQ=14)
                                                                                                                              tgtgATATATCTCTTATATTATTTGCACTTGCTTCTTTTTTTTTCTCTGTTTGTTGTTCTTTTAATGCCACTGCTTTTGATTCTTTATTTGTTATTGCTACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGcttct                <  2:50207/141‑1 (MQ=11)
                                                                                                                              tctcatctATCTCTCAATTTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCAATTGCTTTTGATTCTTTATTTGATACAGCCACACCTCTATCAGCTTTTGATTGTGATTCTCTTTTAGcttct                <  2:2946859/134‑1 (MQ=17)
                                                                                                                               gtgATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGTTTCTTTATTTTATACAGCCACACTTTTATCCGCTTTTGCTTGTGCTTCCCTTTcttcttctt               >  2:2203743/1‑141 (MQ=17)
                                                                                                                                 gATGTATTACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGa             <  2:827012/141‑1 (MQ=255)
                                                                                                                                  aTGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTATCTTCTTGaa            >  1:3551751/1‑141 (MQ=255)
                                                                                                                                   tGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATTCCACTGCTTTTGTTTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAAt           <  2:289029/141‑1 (MQ=255)
                                                                                                                                       tCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATctct       <  1:238770/141‑1 (MQ=255)
                                                                                                                                         ccTCAGATCATCTGCACTTGCTTCGTCTTTTATCCCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGTTACTGCTACGCTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGATTCTTGAATCTCTtg     <  2:557676/140‑1 (MQ=14)
                                                                                                                                           tCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCGCTTCTTCTTTTTCTTTTTTTGGTACAGACACACTTTTATCCGCTTCTGCTTGTGATTTTCTTTTTACTTCTTGGTTGTCTtgt  >  2:680830/1‑140 (MQ=14)
                                                                                                                                            cAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATCTCTTGTGc  <  1:4083135/141‑1 (MQ=255)
                                                                                                                                            cAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATCTCTTGTGc  <  1:3627238/141‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                            
TCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGATTCTTTATTTGATACAGCCACACTTTTATCCGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATCTCTTGTGC  >  USA300TCH1516_ALE/1857727‑1858007

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: