Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,775,041 A→G 13.3% D715D (GAT→GAC)  clfB ← Clumping factor B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,775,0410AG13.3% 152.9 / 6.3 93D715D (GAT→GAC) clfBClumping factor B
Reads supporting (aligned to +/- strand):  ref base A (38/36);  new base G (8/6);  total (50/43)
Fisher's exact test for biased strand distribution p-value = 7.75e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTG  >  USA300TCH1516_ALE/2774905‑2775177
                                                                                                                                        |                                                                                                                                         
ctgaatctgaatCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGCGTCGCTGTCTGAGTCGGAGTCGCTGTCTGACTCTGAGTCg                                                                                                                                        >  2:433498/1‑140 (MQ=14)
ctgaatctgaatCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCCGAATCAGAGTCGCTGACTGAGTCAGAGTCGCGGTCTGAGTCTGAGTCGAAGGCTGAAACAGAATCg                                                                                                                                        >  2:506457/1‑140 (MQ=14)
      ctgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTatct                                                                                                                                  >  1:73717/1‑140 (MQ=255)
       tgaatcGCTGTCTGAGTCCGAATCGCTATCTGAGTCTGAGTCGCTGTGTGAGTCTGAATCTCGGTGTGCGTCGGAGTCGCGATGAGCGTCTGAGTCGCTGCGGGAGTCGGAGTCGCAGGCTGAGTCTCGATCGcgcgcgg                                                                                                                                 >  2:436949/1‑134 (MQ=9)
       tgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGagtctgagtcgctgtctgagtctgagtcgctgtctgagtctgagtcgctgtctgagtctgagtcgctgtctg                                                                                                                                 >  2:666055/1‑140 (MQ=11)
       tgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAGTCTGAGGCGCTATCTGAGTCTGAGTCGGTGTGTGAGTCTGAGTCGCTGTCTGAGTCTGACTCGCTatctg                                                                                                                                 >  2:174343/1‑140 (MQ=14)
       tgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctg                                                                                                                                 >  1:339235/1‑140 (MQ=255)
            cGCTGTCTGAGTCCGAGTCGCTCGCTGAACCTGAGTCGCTGTCTGAGTCTGACTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaatc‑t                                                                                                                           <  2:545925/140‑1 (MQ=17)
            cGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCGGAATCGGAATCGCCatctgaatc‑t                                                                                                                           >  2:337288/1‑140 (MQ=14)
             gCTGTCTGAGTCCGAAGCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaatc‑tg                                                                                                                          <  1:546247/140‑1 (MQ=255)
              cTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGCATCGCGgtctggatc‑tgg                                                                                                                         >  2:209337/1‑139 (MQ=11)
              cTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTgtcggagtc‑tga                                                                                                                         >  2:95939/1‑140 (MQ=255)
               tGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTCGCAGAGTCTGAATCGCTATCTGGGTC‑TGAg                                                                                                                        >  2:634122/1‑140 (MQ=14)
               tGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTATGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAg                                                                                                                        >  1:371302/1‑140 (MQ=255)
                 tCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTATCTGAATCTGAAGCGCTGTCTGAGTGTGATGCGCTGTCTGAGTTTGAATCGGTATGTGAATC‑TGAggt                                                                                                                      >  2:358180/1‑138 (MQ=14)
                 tCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGATTCTGAATCGCTATCTGAGTCTGTATCGGTGTCTGAGTCTGTCTCGCTgtgtgaaac‑tgccgc                                                                                                                      >  2:103723/1‑136 (MQ=11)
                 tCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCTCTATCTGACTC‑TCAGTc                                                                                                                      >  1:362816/1‑140 (MQ=255)
                 tCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTc                                                                                                                      >  1:286819/1‑140 (MQ=255)
                    gAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCt                                                                                                                   <  1:247698/140‑1 (MQ=255)
                    ctgTCTGAGTCGCTTTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTTTCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCt                                                                                                                   <  2:532824/138‑1 (MQ=14)
                     aGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGcgg                                                                                                                  >  1:395733/1‑138 (MQ=255)
                       tCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATC‑TGAGTCGCTgtc                                                                                                                >  1:143708/1‑140 (MQ=255)
                                cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTCTCTGATTC‑TGCGTCACTgtctgagtccga                                                                                                       >  2:405726/1‑140 (MQ=14)
                                cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTgtctgagtctga                                                                                                       <  1:239145/140‑1 (MQ=255)
                                 tATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCGGAGTCTGAGTCGCTGTCTGAGTCGGTATCGCTATCTGAATCTGAGTCGCTATCTGAGTG‑TGAGTCGCTGtctgaatcagag                                                                                                      >  2:675153/1‑140 (MQ=11)
                                  atctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTctgcgtctgagt                                                                                                     >  1:390725/1‑140 (MQ=255)
                                   tctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGCGCATGGCGCGATCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCtgagtctgagtc                                                                                                    <  1:328213/140‑1 (MQ=14)
                                    ctgaatctgaGTATCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGGCGCTGTCTGAGTCTGAATCGCTATTTGATTC‑TGAGTCGCTGTCTGAGtctgagtcg                                                                                                   <  1:215860/140‑1 (MQ=17)
                                     tgaatctgaGTCGCTGTCTGAGTCTGCATCGCTATCTGACTCTGAGTCGCTATCGGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgc                                                                                                  <  1:625754/140‑1 (MQ=255)
                                         tccgaGTCGCTATCCGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAATC‑AGAGTCGCTGTGTGAGactgagtcgcgggc                                                                                              >  2:552157/4‑136 (MQ=11)
                                             aGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaa                                                                                          >  1:657106/1‑140 (MQ=255)
                                             aGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCGAACGCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaa                                                                                          >  1:481577/1‑140 (MQ=255)
                                             aGTCGCTGTCTGAGTCTGAATCGATATCTGAATGGGAGTCGCTATCTGAGTCTGAGTCGGTGTCTGAGTCTGAGTGGGTCTCTGAGTCTGAGTCGCTATCTGAGGC‑GGACTCGCCATCTGAGtcagaagcgctatcggaa                                                                                          >  2:503575/1‑140 (MQ=2)
                                             aGTCGCTGTCCGTGTCCGAGTCGCTTTCTGAATCTGAGTCGCTATCTGAGTCCGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaa                                                                                          <  2:635531/140‑1 (MQ=14)
                                             aGTCGCTCTCTGAGTCTGAGTCGCTCTCCGAGTCTGACTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAgtc‑tgagtcgctgtctgagtctgagtcgctgtctgag                                                                                          <  2:437248/140‑2 (MQ=1)
                                              ctCGCTGTCTCGGTCTGATTCGCTATCTGCATCTGAGTCGCTGTCTGAGTCTGATTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaat                                                                                         <  2:17152/139‑1 (MQ=14)
                                               tggCTGTCTGGGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaatc                                                                                        <  1:288273/138‑1 (MQ=255)
                                               tCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGCGTAGCTCTCTGAAtctgaatagatcgctgaatc                                                                                        >  2:373071/1‑140 (MQ=14)
                                                 gCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGATTC‑TGAGTCGCTGTCTGCAtctgactcgctgtccgactctg                                                                                      >  2:327487/1‑140 (MQ=14)
                                                         tgtgtgaTTCTCTATTTGATTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctg                                                                              <  2:386032/136‑1 (MQ=14)
                                                          gtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgt                                                                             <  1:498735/140‑1 (MQ=255)
                                                          ggctgtctCGCTGTCTTAATCGGACTCCCTGTCTGAGTCTGAGCCGCTGTCTGAGTCGGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgt                                                                             <  2:460109/133‑1 (MQ=14)
                                                             tgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtctg                                                                          >  1:367522/1‑140 (MQ=255)
                                                               agtCGCTCTCGGACTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtctgaa                                                                        <  2:542616/138‑1 (MQ=14)
                                                                aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAAGCTGACTCGGTATCTGAATC‑TGACGCGCTATCTGAGTctgagtcgctatctaagtacgattcgctgtctgcat                                                                       >  2:530197/1‑140 (MQ=11)
                                                                aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTCTCTGAGTCTGAACCGCTATCCCACTCAAGAGCAACTAGGT‑AGTgtgagacgctgtcggaatccgagtcgctggccgaat                                                                       >  2:313315/1‑140 (MQ=2)
                                                                aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGACGCTGTCTGGGTCTGAATCACTGTCTGAGTG‑TGAGTCGCTGTCTGAGTctgagtcgctgtctgaacgtgagtcgccgtctggat                                                                       >  2:535048/1‑140 (MQ=14)
                                                                  cGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGACTCTGAGTCGCTGTCTGAGTCTTACTCGCTGTCTGACTC‑TGCGCCGCTGTCTGAGTCTgcgtcgctctctggacccgcatcgctgtctaactct                                                                     >  1:47735/1‑140 (MQ=14)
                                                                   gctatctgagtctgagtcgctatctgagtctgagtcGCTGTCTGAGTCTGCGTCGCTGTCTGAGCCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                    <  1:549754/140‑1 (MQ=255)
                                                                   gCTATCTGCGGCTGAGTCGCTTTCTGAGTCTGAGTCGCTGTCTGAGTCTGGCTCGCTGTCCGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                    <  2:646908/140‑1 (MQ=14)
                                                                   gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGGTATCTGACTC‑GGAGGCGGTGTCGGCATCtgagacgatgtctgaatcggagtcggcgtcggaatcgg                                                                    >  2:664287/1‑138 (MQ=14)
                                                                   gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGCATC‑TGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                    <  1:629949/140‑1 (MQ=255)
                                                                   gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                    <  1:702920/140‑1 (MQ=255)
                                                                   gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                    <  1:433477/140‑1 (MQ=255)
                                                                   gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                    <  1:164030/140‑1 (MQ=255)
                                                                    cTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAgtcgctgtctgcatctgggtcgctgtctgagtctga                                                                   >  1:425877/1‑140 (MQ=255)
                                                                    cTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAATCGCTGTCTGAGTCTGAcgcgctgtctgaatctgaatcgctgtctgactcaga                                                                   >  2:60577/1‑140 (MQ=14)
                                                                         tgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGc                                                              <  1:145486/140‑1 (MQ=255)
                                                                          gactctgcGTCGCTAGGTGAGTCTGAGTCGTTGTGCGAGCCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTC‑TGAGTGGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTTTGAATCTGAATCGCt                                                             <  1:302292/137‑1 (MQ=14)
                                                                              ctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtct                                                         >  1:660347/1‑140 (MQ=255)
                                                                              ctgaGCCGCCATCCGAGTCTGAGCCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtct                                                         <  1:445442/140‑1 (MQ=255)
                                                                                gaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGTGTTTGAGTCGCTATCTAATTA‑TGAGTCGCTGTCTTAGTCTGATTCGCTTTCTGAATTTTAGTTACTCGTTGATTCTGAATGGATgtctga                                                       >  1:630112/1‑140 (MQ=9)
                                                                                 aGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAATCTGACTCGCGgtctgag                                                      >  2:194273/1‑140 (MQ=255)
                                                                                   tCGCTGTCTGAGTCTGAGTCGCAGTCTGAGTCGGAGGCGCCGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtc                                                    <  1:300541/140‑1 (MQ=17)
                                                                                   tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTC‑TGAGTCGCTGTCTGAGTCTGAGTCGGTGTCTGAATCTGAGTCGCTGTGTGCATCTGAATCGCTgactgagtc                                                    >  2:325901/1‑140 (MQ=17)
                                                                                   tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtc                                                    <  1:289482/140‑1 (MQ=255)
                                                                                         tctgagtctgagtcgctgtctgagtctgagtcgctgTCTGAGTCTGAATCGCTGTCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTGTGAATCGGAGTCGCGgtctgagtatgggtc                                              >  2:621888/1‑136 (MQ=14)
                                                                                          ctgagtctgcgtcgctgtctgagtctgagtcgctgtCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcg                                             <  1:614847/140‑1 (MQ=255)
                                                                                          ctgagtctgagtcgctgtctgagtctgagtcgctgtCTGAGTCTGAATCGCTGTCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGACTCGCTGgctgactctgaatcg                                             >  2:33943/1‑140 (MQ=14)
                                                                                          ctgagtctgagtcgctgtctgagtctgagtcgctgtCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcg                                             >  1:178527/1‑140 (MQ=255)
                                                                                           tgcgtctgcgtcgctgtctgagtctgcttcgcggtctgaGTCTGCATCGCTGTCTGAATC‑TGACTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgt                                            <  2:674318/137‑2 (MQ=17)
                                                                                               tctgagtcgctgtctgagtctgagtcgctgtctgagTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatc                                        <  1:278386/140‑1 (MQ=255)
                                                                                                   cgccgctgttggaggttgtgttgctggcggaatctgaGCCGCTATCGGAATC‑TGGATCGCTGTCTGAGTCTGACTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgag                                    <  2:118604/137‑1 (MQ=11)
                                                                                                   agtcgctgtctgagtctgagtcgctgtctgagtctgAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgag                                    <  1:552157/140‑1 (MQ=255)
                                                                                                    gtggccttctgagtctgagtcgctgtctggggctgaGTCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGtctgagtctgaatcgctatctgagt                                   <  2:96790/133‑1 (MQ=14)
                                                                                                    gtcgctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagt                                   <  1:32512/140‑1 (MQ=255)
                                                                                                    gtcgctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtatgtatctgaatcgatatctggat                                   >  2:551473/1‑137 (MQ=17)
                                                                                                      cgctgtctgcgtctgcgtcgctgtctgcgtctgaCTCGCTATCTGAGTC‑TGACTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtct                                 <  2:645477/140‑1 (MQ=14)
                                                                                                       gctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctg                                <  1:289108/140‑1 (MQ=255)
                                                                                                        ctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctga                               >  1:597438/1‑140 (MQ=255)
                                                                                                         tgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCACTGtctgagtctgaatcgctatctgagtctgaa                              <  1:503575/140‑1 (MQ=255)
                                                                                                         tgtcggagtctgagtcgccgtcggagtctgaGTCGCTGTCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaa                              <  2:247453/140‑1 (MQ=14)
                                                                                                           tctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCAGTCTGAATCTGGATCGCTGtctgggtatgaatagctacatgaatctgacgg                            >  2:399071/1‑137 (MQ=14)
                                                                                                           tctgagtctgagtcgctggctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatc                            <  2:695147/140‑1 (MQ=255)
                                                                                                                 tctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCtgagtctgaatcgctatctgagtctgaatcgctatc                      >  1:348686/1‑140 (MQ=255)
                                                                                                                 tctgagtcgctgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGACTCTGAATCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAAGCGCTTTCtgtgtcggagtcgctatataaatatgaatcgctatc                      >  2:100317/1‑140 (MQ=14)
                                                                                                                     tgtcgctggctgagtctgcGTCGCTATCTGATTC‑TCAGTCGCTGTCTCAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGtctgaatcgctatctgagtctgaatcgctatctgag                  <  2:479720/139‑1 (MQ=14)
                                                                                                                          gcatctgtgtctgcACCTCTATCTGAATC‑TGTGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTATCCGAGTCTGAgtcgctatctgagtctgagtcgctatcttattctga             <  2:255173/137‑1 (MQ=1)
                                                                                                                           tgtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTGTGAATCACTGTCTGAAtgtgaatcgctctctgagtgtgaagcgctagctgagagggaa            >  2:667314/1‑134 (MQ=14)
                                                                                                                            gtctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGCATcgctatctgaagctgaatcgccatctgagtctgaat           >  2:179342/1‑140 (MQ=255)
                                                                                                                              ctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCa         >  1:429700/1‑140 (MQ=255)
                                                                                                                              ctgagtctgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATAGCTATCTGAGTCTTAATCGCTATCTGAGTCTGAATCa         >  1:26290/1‑140 (MQ=255)
                                                                                                                                gagtctgaACCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACt       <  1:238716/140‑1 (MQ=255)
                                                                                                                                     tgaATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTg  <  2:72988/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                         
CTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATC‑TGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTG  >  USA300TCH1516_ALE/2774905‑2775177

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑