Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,774,816 C→T 6.8% S790S (TCG→TCA clfB ← Clumping factor B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,774,8160CT 6.8% 1258.8 / 9.3 511S790S (TCG→TCAclfBClumping factor B
Reads supporting (aligned to +/- strand):  ref base C (235/210);  new base T (34/17);  total (276/235)
Fisher's exact test for biased strand distribution p-value = 7.45e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.00e-01

Only 100 of 523 total aligned reads displayed.

GCTTTCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCT  >  USA300TCH1516_ALE/2774676‑2774956
                                                                                                                                             |                                                                                                                                            
gCTTTCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATcc                                                                                                                                              >  1:282299/1‑141 (MQ=255)
 cTTTCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCg                                                                                                                                             <  1:1617752/141‑1 (MQ=255)
  tttCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGATTCGCTATCCGa                                                                                                                                            >  2:1669641/1‑141 (MQ=255)
  tttCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTCTCCGa                                                                                                                                            >  2:3156938/1‑141 (MQ=255)
  tttCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGACTCGCTATCCGa                                                                                                                                            >  2:4105033/1‑141 (MQ=255)
   ttttGTTTATTATTTGGTGGTGTACCTCTTGAATCGGAGTCACTTTCTGGGTCTGAGTGGCTATTTGAACTCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAg                                                                                                                                           <  2:79008/138‑1 (MQ=21)
   ttCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAg                                                                                                                                           >  2:3280504/1‑141 (MQ=255)
     cTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTc                                                                                                                                         <  1:571442/141‑1 (MQ=255)
     cTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTc                                                                                                                                         >  1:2337177/1‑141 (MQ=255)
       gTTGATTATGTGGGGGGTTAGCTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTg                                                                                                                                       <  2:1202969/141‑1 (MQ=18)
             tattTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGACGCTAGCGGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGc                                                                                                                                 <  1:3453300/141‑1 (MQ=255)
                ttGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGt                                                                                                                              >  1:1741975/1‑141 (MQ=255)
                tgggtggtGTTACTCGTGAATCGGAGTCACTATCTGAGTGTGAGTCGCTATCTGAAGCCGAGTCGCGATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCAATCGGAGACGGTGTCGCTGt                                                                                                                              <  2:1618897/139‑1 (MQ=18)
                 tggtggTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtc                                                                                                                             >  1:832684/1‑141 (MQ=255)
                 tggtggTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtc                                                                                                                             >  1:2570755/1‑141 (MQ=255)
                 tggtggTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtc                                                                                                                             >  1:1416674/1‑141 (MQ=255)
                   gtggtgTACCTCTTGAATCGGAGTCACTATCTGCGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctg                                                                                                                           <  1:526161/141‑1 (MQ=255)
                   gtggtgTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctg                                                                                                                           <  1:2164394/141‑1 (MQ=255)
                   gtggtgGAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctg                                                                                                                           <  1:2952901/141‑1 (MQ=255)
                     ggtgTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGCCGCTATCCGAGTCTAAGTCGCTGtctgaa                                                                                                                         >  2:1313800/1‑141 (MQ=255)
                       tgtAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctgaatc                                                                                                                       >  1:4235853/1‑141 (MQ=255)
                        gtAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGtctggatct                                                                                                                      >  2:1041830/1‑141 (MQ=255)
                          taCTTTTGAATGGGAGTGACTATCTGAGGTTGAGTCGCTATCTGAGGCTGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctgaatctga                                                                                                                    <  2:144871/140‑1 (MQ=17)
                          atttctTTAGTCGGAGTGACTTTCTGGGTCTTGGTGGCTATCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctgaatctga                                                                                                                    <  2:573166/138‑1 (MQ=17)
                          aaCTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctgaatctga                                                                                                                    <  1:1225301/141‑1 (MQ=255)
                           aCTCTTGAATCGGAGTCAGTCTCTGAGGCCGGTGCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGATGATGAGTCGCTGTCTGAGTCTGAGACGTCGtccccatctgaa                                                                                                                   >  2:2473005/1‑141 (MQ=9)
                           aCTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGcctgaatccgca                                                                                                                   >  2:1581874/1‑137 (MQ=255)
                           aCTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGtctgaatctgaa                                                                                                                   <  1:415690/141‑1 (MQ=255)
                           aCTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGACGCTGtctgaatctgaa                                                                                                                   >  1:3080840/1‑141 (MQ=255)
                           aCTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGATGTCTGAGTCTGACTCGCTATCCCAGTCTGGCGCGATGtccgaatctgac                                                                                                                   >  2:2066826/1‑140 (MQ=18)
                               ttGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCAc                                                                                                               <  1:3533179/141‑1 (MQ=255)
                                    tCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCt                                                                                                          >  1:2642686/1‑141 (MQ=255)
                                      ggAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGa                                                                                                        >  1:2845448/1‑141 (MQ=255)
                                        aGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAAt                                                                                                      >  1:3349646/1‑141 (MQ=255)
                                        aGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGATATTATTATCTGAATGGTTGAAGAAAACCAACCCGCTATCTGAGTATGAGTCGCTATCTGAATCTGAATCACTGTCtaagt                                                                                                      >  2:949985/1‑137 (MQ=12)
                                          tcatgttctgagtctgagTCGCTATGTGAATCCGAGGCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATcc                                                                                                    <  2:277779/135‑1 (MQ=255)
                                           cACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAATCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAACCTGAATGACCGTCTGAATGCg                                                                                                   >  2:3832438/1‑141 (MQ=18)
                                                     gtctgagtcGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGCGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATGCGAATAGCTatc                                                                                         >  1:50252/1‑141 (MQ=255)
                                                         gagtcGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTCTCCGAGTCTGAGTCGCTGTCTGAATGTGAATCGCTGTCTGAATGCGAATCGCTctctgaa                                                                                     >  2:1904101/1‑141 (MQ=17)
                                                          ggtcTCTATCTGAATCCGAGTCGGTATCCGAGTCGGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTatctgaat                                                                                    <  1:2774785/140‑1 (MQ=255)
                                                          agtcGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTatctgcat                                                                                    >  1:2445912/1‑141 (MQ=255)
                                                           gtcGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGATTCCGAATCGCCgtctgaatc                                                                                   >  2:3672165/1‑141 (MQ=14)
                                                           gtcGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAGTCTGAATCACTGTCTGAATCCGAATCGCTatctgagtc                                                                                   >  1:3255674/1‑141 (MQ=255)
                                                                  tCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCg                                                                            >  1:4388999/1‑141 (MQ=255)
                                                                   cTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGc                                                                           <  1:1834299/141‑1 (MQ=255)
                                                                    ggAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCt                                                                          <  1:1502887/140‑1 (MQ=255)
                                                                    ggAATCCGAGTCGCGATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCt                                                                          <  2:2367631/140‑1 (MQ=255)
                                                                       aTCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGGATTCCTGTCTGAATCCGAATCGCTATCTGCATCTAAATCGCTATc                                                                       >  2:3063843/1‑141 (MQ=17)
                                                                       aTCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCCCtctc                                                                       >  2:2983672/1‑141 (MQ=255)
                                                                           gAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTTGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAg                                                                   >  1:3841179/1‑141 (MQ=255)
                                                                           gAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAGTCTGAATCACTGTCTGAATCCGTCTCGCTGTCTGAGTCTGTCTCACTCTCCGaa                                                                   >  2:3769437/1‑140 (MQ=14)
                                                                             ttggttATCTGAGTCTGCGTCACTTTTTCTGTCGGAAGCGCTGTCTGCGTTTGAGTCGCTATCCGATTCTGAGTCGCTTTCTGAATCTGAATCTCTGTCTGATTCTGAATCGCTATCTGAATCTGAATCGCTATCCGAGTc                                                                 <  2:2273993/136‑1 (MQ=14)
                                                                             gTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGCGTCTGAATCGCTATCTGAGTCTGAATCGCTAtatacctg                                                                 >  2:3969087/1‑134 (MQ=11)
                                                                             gTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTc                                                                 <  1:1146579/141‑1 (MQ=255)
                                                                               cGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCAGAGTCTGAGTCGCTGTTTGAGTATGACTATCTGGCGTAATCCGAATCTCTATCTGAGTATGACTCGCTATTCGAGTCtt                                                               >  2:1988284/1‑140 (MQ=17)
                                                                                   aTCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCACTATCCGAGTCTGAGTc                                                           <  1:932072/141‑1 (MQ=255)
                                                                                    tCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCTCTATCCGAGTCTGAGTCg                                                          >  1:4119614/1‑141 (MQ=255)
                                                                                    tCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCg                                                          <  1:2415523/141‑1 (MQ=255)
                                                                                          tCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtct                                                    <  1:3621399/141‑1 (MQ=255)
                                                                                           cTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctg                                                   <  1:3975186/141‑1 (MQ=255)
                                                                                           cTGAGTCGCTATCTGAGTCTGAACCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctg                                                   <  1:3909434/141‑1 (MQ=255)
                                                                                           cTGAGGCGCTTTCTGAGTCGGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAGTCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctg                                                   <  2:527454/141‑1 (MQ=17)
                                                                                            tGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctga                                                  <  1:963236/141‑1 (MQ=255)
                                                                                               gTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAGTCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctgaatc                                               <  2:4228963/141‑1 (MQ=255)
                                                                                                tCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctgaatct                                              <  1:1061199/141‑1 (MQ=255)
                                                                                                 cGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctgaatctg                                             <  1:3555329/141‑1 (MQ=255)
                                                                                                  gCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTAACACGTGTTGATTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctgaatctga                                            <  1:3012923/141‑1 (MQ=18)
                                                                                                   cTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGtctgaatctgaa                                           <  1:4011787/141‑1 (MQ=255)
                                                                                                     aTCTGCGTCCGAACCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGACTCCTAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCtgaatctgaatc                                         <  1:628071/141‑1 (MQ=18)
                                                                                                     aTCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCtgaatctgaatc                                         <  1:1336093/141‑1 (MQ=255)
                                                                                                      tCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATAGCTATCTTAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCg                                        >  1:1011603/1‑141 (MQ=255)
                                                                                                       cTGGGTCTGAATCGCTGACTGAGTCTGAGTCGCTTTCCATTGGTGAGTAGGTGTTTGTATCTGAGTCACTGTCTGAGTCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGc                                       <  2:3321240/141‑1 (MQ=17)
                                                                                                         gAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGCCGCTGTCTGAATCTGAATCGCTg                                     >  1:2919538/1‑141 (MQ=255)
                                                                                                           gTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCAGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTc                                   >  1:4295851/1‑141 (MQ=255)
                                                                                                            tCTGAATCGCTGTCTGAGGCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCt                                  <  1:3720728/141‑1 (MQ=255)
                                                                                                                gagctcTGTCTGAGTCTGTGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGt                              <  2:2556140/136‑1 (MQ=255)
                                                                                                                aaccgcgGTCTGAGTCTGAGTCGCTAGCTGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAGTCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGt                              <  2:4306731/138‑1 (MQ=17)
                                                                                                                  tCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTTTCCGAGACTCACTCTATGTGTGCAGCTAAAACACTGTCTGAGTcc                            >  2:492193/1‑141 (MQ=17)
                                                                                                                  tCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTcc                            <  1:3643942/141‑1 (MQ=255)
                                                                                                                  tCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTcc                            >  1:1950177/1‑141 (MQ=255)
                                                                                                                    gCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGa                          >  1:891853/1‑141 (MQ=255)
                                                                                                                    gCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGa                          >  1:985152/1‑141 (MQ=255)
                                                                                                                       gtctgagtctgaGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATc                       <  1:274575/141‑1 (MQ=255)
                                                                                                                         ttgcgtctgagtcGCTATCCGTGTCTGAGTCGCTGTCTGATTCTGAATCACTTTCTGAGTCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCGGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGc                     <  2:3603088/137‑1 (MQ=17)
                                                                                                                          tgagtctgagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCt                    >  1:1907617/1‑141 (MQ=255)
                                                                                                                           gagtctgagtcGCTATCCGAGTCTTAGTCGCTATCTGCATCTTAATCACTTCCTGAATCCGAATCACTGACTGAATCTTAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGACTCGcca                   >  1:3162651/1‑139 (MQ=17)
                                                                                                                           gagtctgagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCAGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCCGTCGGAAACCGAATCGCTa                   >  2:1801128/1‑141 (MQ=17)
                                                                                                                             gtctgagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGCGTCCGAATCGCTatc                 >  1:1776904/1‑141 (MQ=255)
                                                                                                                             gtctgagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTatc                 <  1:2069668/141‑1 (MQ=255)
                                                                                                                             gtctgagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAAGCGCTGTCTGAGTCCGAATCGCTatc                 <  1:731147/141‑1 (MQ=255)
                                                                                                                              tcggggtcGCTATCGGGGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCCGAGTCGCTATCTGAGTCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTatct                <  2:241764/136‑1 (MQ=14)
                                                                                                                               ctgagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAGTCACTGTCTGAGTCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTatctg               <  2:1236121/141‑1 (MQ=255)
                                                                                                                               ctgagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTatctg               <  1:4324768/141‑1 (MQ=255)
                                                                                                                                tgtgtcGCTATCCGAGTCTGAGGTGGTGTCGGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTatctga              <  2:2147427/138‑1 (MQ=18)
                                                                                                                                 gagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTatctgaa             >  1:2672423/1‑141 (MQ=255)
                                                                                                                                 gagtcGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTatctgaa             <  1:4105033/141‑1 (MQ=255)
                                                                                                                                       cTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAAGCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAg       <  1:1110739/141‑1 (MQ=255)
                                                                                                                                       cTATCCGAGGCTGAGTCGCTGTCTGAATCTGAGTCACTGTCTGAGTCGGAATCGCTATCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAg       <  2:1073046/141‑1 (MQ=14)
                                                                                                                                          tCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCg    >  1:2247658/1‑141 (MQ=255)
                                                                                                                                          tCCGAGTCTGAGTCCCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTAGCAGAATCAGCAACGCAAGCAGTAGCTGAGTCGCTGTCTGAAACCGAATCGCTCTCCGAGTCAGAAACGATAGCTAAATCTGAggga    >  2:289890/1‑138 (MQ=9)
                                                                                                                                             |                                                                                                                                            
GCTTTCTGTTCATTATTTGGTGGTGTAACTCTTGAATCGGAGTCACTATCTGAGTCTGAGTCGCTATCTGAATCCGAGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCACTGTCTGAATCCGAATCGCTATCTGAATCTGAATCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCT  >  USA300TCH1516_ALE/2774676‑2774956

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: