Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,775,107 A→G 13.7% D693D (GAT→GAC clfB ← Clumping factor B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,775,1070AG13.7% 129.2 / 3.3 61D693D (GAT→GACclfBClumping factor B
Reads supporting (aligned to +/- strand):  ref base A (21/30);  new base G (6/3);  total (28/33)
Fisher's exact test for biased strand distribution p-value = 2.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCACTATCTGATTCTGAGTCGCTATCTGATTCTGAGTC  >  USA300TCH1516_ALE/2774969‑2775241
                                                                                                                                          |                                                                                                                                      
aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTctgagtcgctgtctgaatctgagtcgctgtctgaat                                                                                                                                       <  1:123844/140‑1 (MQ=255)
aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTctgagtcgctgtctgaatctgagtcgctgtctgaat                                                                                                                                       >  1:464963/1‑140 (MQ=255)
 tCGCTATCTGAATCGGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCtgagtcgctgtctgaatctgagtcgctgtctgaatc                                                                                                                                      <  1:547576/140‑1 (MQ=255)
   gCTATCTGACTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                                                                                    <  1:17026/140‑1 (MQ=255)
    cTATCTGCCTCTGCGTCGCCATCGCCGTCTGCGTCGCTCTCTGAGTCTGAGTCGCTGTCGGAGTCTGCGTCGCTGTCTGAATCTGAGTCGCTCTCTGACTCTGAgtcgctatctcaatctgagtcgctgtctgaatctga                                                                                                                                   <  2:513221/140‑1 (MQ=11)
    cTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAgtcgctgtctgaatctgagtcgctgtctgaatctga                                                                                                                                   <  1:606495/140‑1 (MQ=255)
        ctgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAATCTGAATCGCTGTCTGAAGCTGAATCGCTGTCTTAGTCTGAGTCGCTGTGtgcatctgagtca                                                                                                                               >  2:245918/1‑139 (MQ=11)
          gaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCt                                                                                                                             <  1:51312/140‑1 (MQ=255)
             tctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCGGTCTGAGTCTGAATCGCGATCTGAATCTGGGTTGTTGCCGCAGCCAGCGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTgtc                                                                                                                          >  1:143653/1‑140 (MQ=14)
                  ggcGCTATCTGAGTCTGAGCCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCCGAATCTGAATCGCTgtctgagt                                                                                                                     <  2:405736/138‑1 (MQ=255)
                   tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGCGTATCCTGCGGATTCTGAGTCGGTTGCGGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtc                                                                                                                    <  1:559380/140‑1 (MQ=17)
                   tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGACTCTGAATCGCTgtctgagtc                                                                                                                    >  1:125446/1‑140 (MQ=255)
                   tCGCTATCTGAATCCGAGTCGCTGTCCGAGTCTGAGTCGCTAGCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCGGTCTGAGTCTGAATCGCGgtctgacgc                                                                                                                    >  2:403488/1‑137 (MQ=11)
                     gcgctctcagtctaagtcgccgtctgcgtccgagtcgctcTCTGAGTCTGACGCGCTCTCTGAACCTGAGTCGCTCTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtctg                                                                                                                  <  2:624840/136‑1 (MQ=14)
                      cTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGTGTCTGAGTCGCTgtctgcatcaga                                                                                                                 >  2:264584/1‑133 (MQ=14)
                         tcggagtctgagtcgctgtctgagtatgggtaacgttctGAGTCTGACTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatc                                                                                                              <  1:285846/137‑1 (MQ=17)
                          ctgagtctgagtcgctgtctgagtctgagtcgctgtCTGAGTCTGAATCGCTATCTGAATCTGAGTCACTATCTGAGACTGAATCGCTGTCTGAATCTGAGACACTGTCTGAATCTGCATCGATGtctgagtctgactcg                                                                                                             >  1:160893/1‑140 (MQ=14)
                           tgagtctgagtcgctgtctgagtctgagtcgctgtcTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgc                                                                                                            <  1:230906/140‑1 (MQ=255)
                            gagtctgagtcgctgtctggctccgaatcgctctctGAGTCTGAATCGCTATCTGAATCTGAGTCGCTCTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAATCTGAATCGCTGtctgagtctgaatcgct                                                                                                           <  2:510139/140‑1 (MQ=11)
                            gagtctgagtcgctgtctgagtctgagtcgctctctGAGGCTGAGTCGCTCTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgct                                                                                                           <  2:143851/140‑1 (MQ=14)
                               cccgagtcgctgcccgcgtcggcgtcgctctctgagtctGGATCGCTACCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatc                                                                                                        <  2:600977/137‑1 (MQ=17)
                                  gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctga                                                                                                     <  2:446029/140‑1 (MQ=255)
                                  gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTCTCTGAATCTGAGTCGCTGTCTGAGTCCGAGTCGCTGtctgagtctggatcgctctctta                                                                                                     >  2:667757/1‑138 (MQ=14)
                                       gctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctg                                                                                                <  1:188522/140‑1 (MQ=255)
                                           tctgagtctgtgtcgctgtctgcttctgaGTCGCTGTCTGCGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGGCTGAGTCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatc                                                                                            <  2:465509/140‑1 (MQ=11)
                                           tctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatc                                                                                            >  1:558419/1‑140 (MQ=255)
                                             tgagtctgagtcgctgtctgagtcggaATCGCGATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgc                                                                                          <  1:202096/140‑1 (MQ=255)
                                             tgactctgagtcgctgtctgagtctgaGTCGCTATCGGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgc                                                                                          <  1:219050/140‑1 (MQ=255)
                                               agtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgcta                                                                                        <  1:602331/140‑1 (MQ=255)
                                                gtcttagtcgctctctgaggctgaCTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTctgagtctgaatcgctatctgagtctgaatcgctat                                                                                       <  2:518646/140‑1 (MQ=14)
                                                  ctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTGGCTGTCTGAGTCTGCGTCGAATTCTGAACCTTAGTCGCTGTCTGAATCTGAATCGCTGTCTgaacctgaatcgctatctgagtttgagtcgctatct                                                                                     >  1:759874/1‑140 (MQ=14)
                                                  ctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTgagtctgaatcgctatctgagtctgaatcgctatct                                                                                     <  1:270889/140‑1 (MQ=255)
                                                   tgagtcgctctctgagtctgaCTCGCTATCTGTGTCTGAGTCGCTGTCTGAGTCTGTGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGagtctgaatcgctatctgagtctgaatcgctatctg                                                                                    <  2:705977/140‑1 (MQ=11)
                                                    gagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAgtctgaatcgctatctgagtctgaatcgctatctga                                                                                   >  1:411178/1‑140 (MQ=255)
                                                      gtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAATCGGAAGCGCTGTCTGAGTCGGAATCGCTACCTGAgtcggagtcgcaatctgagcctgaatcgctgtctgaag                                                                                 >  2:111433/1‑138 (MQ=11)
                                                         gctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGaatcgctatctgagtctgagtcgctgtctgaggctg                                                                              >  1:219940/1‑140 (MQ=255)
                                                          ctgtctgagtctgaTTCTCTTTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAGTCTGAatcgctatctgagtctgaatcgctatctgagtctga                                                                             <  2:9710/140‑1 (MQ=14)
                                                          ctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGGATCGCTGTCTGAGTCTGAatcgctatctgagtctgaatcgctatctgagtctga                                                                             <  1:498027/140‑1 (MQ=255)
                                                           tggctgagtctgaCGCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAAtcgctatctgagtctgaatcgctatctgagtctgaa                                                                            <  1:315137/137‑1 (MQ=255)
                                                             tctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAAGCgctagctgagtttgaagcgatatcttagtctgcatc                                                                          >  2:514099/1‑140 (MQ=17)
                                                                   tctgcATCGCTATCTGAGTCGGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTc                                                                    <  2:260175/140‑1 (MQ=255)
                                                                   tctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGACTCACTGTc                                                                    >  1:588468/1‑140 (MQ=255)
                                                                   tccgaATCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTc                                                                    <  1:103851/137‑1 (MQ=255)
                                                                    ctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCt                                                                   >  1:677778/1‑140 (MQ=255)
                                                                      gaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGCATCGCTATCTGAGTCTGAATCACTGTCTGa                                                                 >  1:253771/1‑140 (MQ=255)
                                                                      gaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGATGTCTGAGTATGAATCGGTATCTGAGTCTGGATAGCTATCTGAGTCTGAATCACTGTCtta                                                                 >  1:124513/1‑138 (MQ=17)
                                                                        aTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGt                                                               >  1:520406/1‑140 (MQ=255)
                                                                        aTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGt                                                               <  1:566461/140‑1 (MQ=255)
                                                                        aTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCGGAGTGTGAATCGCTATCTGAGTCTGACTCACGGTGTGAGt                                                               >  1:500496/1‑140 (MQ=17)
                                                                            cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGCGTCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGCGTCTGAATCGCTGTCTGCGTCTGAGTCGCTGACTGAGTCTGa                                                           >  2:331339/1‑140 (MQ=11)
                                                                            cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGa                                                           >  1:276929/1‑140 (MQ=255)
                                                                              atctgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGt                                                         <  1:734669/140‑1 (MQ=255)
                                                                               tctgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTTGCTGTCTGAATCTGAATCGCTGTCAGAGTCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAATCACTGTCTGATGCCGAATc                                                        >  2:381561/1‑140 (MQ=14)
                                                                               tctgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTATCGGAGTCTGAATCCATGTCTCCGTCCGCGTc                                                        >  1:576736/1‑140 (MQ=17)
                                                                                 tgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGGGTCTGCGTCGCTATCTTAGTCTGAGTGGCGATCTGAGTCTGAGTCGCTAACTGAATACGAgagac                                                      >  2:249187/1‑136 (MQ=11)
                                                                                  gaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACt                                                     >  1:404939/1‑140 (MQ=255)
                                                                                   aatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTg                                                    <  1:526030/140‑1 (MQ=255)
                                                                                   aatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTg                                                    <  1:618249/140‑1 (MQ=255)
                                                                                   aagctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTg                                                    <  1:405894/137‑1 (MQ=255)
                                                                                    atctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGt                                                   <  1:403060/140‑1 (MQ=255)
                                                                                    atctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGt                                                   <  1:403488/140‑1 (MQ=255)
                                                                                     tctcaGTCGCTGTCTGATTCTCAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGATTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTc                                                  <  2:334923/140‑1 (MQ=255)
                                                                                         aGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGaa                                              >  1:690628/1‑140 (MQ=255)
                                                                                          gTCGCTGTCTGAGTCTGAGTCGATGTCTGAAGCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCAACCTGCGTCAGAATCTGTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAAt                                             <  1:29410/140‑1 (MQ=18)
                                                                                           tggcggtctgtgtctgaGTCGCTGTCTGAGTCGGGGTCGCTGTCTGGGTCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATc                                            <  2:85441/135‑1 (MQ=17)
                                                                                            cGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCCCTGTCTGAGTCCGAGGCCCGCTCTGAATCt                                           >  1:154935/1‑140 (MQ=18)
                                                                                            cGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCt                                           >  1:648388/1‑140 (MQ=255)
                                                                                                gtctgagtctgaGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATTTGACt                                       >  1:233122/1‑140 (MQ=255)
                                                                                                       tctgaggcgctgtctgaatctgagtcgctgtctgaaTCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatc                                <  1:649529/140‑1 (MQ=255)
                                                                                                         tgagtcgctgtctgaatctgagtcgctgtctgaatcTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGCCTAActatctg                              >  1:85981/1‑140 (MQ=255)
                                                                                                          tactggctatctgactctgcgccgctgtctcagtctgaCTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctga                             <  2:51015/135‑1 (MQ=17)
                                                                                                           agtcgctgtctgaatctgagtcgctgtctgaatctgAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgat                            <  1:260310/140‑1 (MQ=255)
                                                                                                             tcgctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGACTCACTGTCTGAGTCCGCGTCACTGTCTGACTCTGACTCCctctctgatcc                          >  1:245870/1‑138 (MQ=18)
                                                                                                             tcgctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatatgattc                          >  1:316800/1‑140 (MQ=255)
                                                                                                              cgctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCCGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattct                         >  1:468560/1‑140 (MQ=255)
                                                                                                                ctgtctgaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctga                       >  1:208778/1‑140 (MQ=255)
                                                                                                                ctgtccgaatctgagtcgctgtctgaatctgaCTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTTCGAGTCACTGTCTGAATCTGACTCActatctgattctga                       <  2:92796/140‑1 (MQ=255)
                                                                                                                      gaatctgagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCTGAGTCACTGTCTGAGTCTGACGCActctctgattctgagtcgct                 >  2:518170/1‑140 (MQ=255)
                                                                                                                         tctgagtcgctgtctgactctgaCTCGCTCTCTGAGTCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctgagtcgctatc              <  2:760689/140‑1 (MQ=255)
                                                                                                                            gagtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAGTCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActagcagggtctgagtcgcgatcgga           >  2:400265/1‑140 (MQ=17)
                                                                                                                              gtcgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCAGTGTCTGAAGCCGACACActatctgattctgagtcgctatctgctt         >  1:139705/1‑140 (MQ=18)
                                                                                                                                cgctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgcttctgagtcgctatctgatgct       >  2:438339/1‑140 (MQ=255)
                                                                                                                                  ctgtctgaatctgaATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctgagtcgctatctgattctga     <  1:647705/140‑1 (MQ=255)
                                                                                                                                     tctgaatctgaaTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCActatctgattctgagtcgctatctgagtctgagtc  >  1:243318/1‑140 (MQ=255)
                                                                                                                                          |                                                                                                                                      
ATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGTCTGAATCTGACTCACTATCTGATTCTGAGTCGCTATCTGATTCTGAGTC  >  USA300TCH1516_ALE/2774969‑2775241

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: