Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,775,041 A→G 5.6% D715D (GAT→GAC clfB ← Clumping factor B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,775,0410AG 5.6% 1110.8 / 18.8 464D715D (GAT→GACclfBClumping factor B
Reads supporting (aligned to +/- strand):  ref base A (228/184);  new base G (4/32);  total (241/223)
Fisher's exact test for biased strand distribution p-value = 1.35e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 472 total aligned reads displayed.

CTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTC  >  USA300TCH1516_ALE/2774901‑2775181
                                                                                                                                            |                                                                                                                                            
  gTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATc                                                                                                                                            >  1:1133658/1‑141 (MQ=255)
   tctgaatctgaaGCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCg                                                                                                                                           <  1:2503696/141‑1 (MQ=255)
       aatctgaatcGCTGTCTGAGTCCGAATCGCTATATGACTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTTGCTATCTGAGTCTGAGTTGCTGGCTCAATCTGAGTCGCTATCTGAGTCTGAATAGCtct                                                                                                                                       >  1:7394/1‑139 (MQ=11)
        atctgtgtcGCTGTGTGAGTGCGAATCGCTATATGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATcacttgc                                                                                                                                      <  2:1862633/141‑7 (MQ=17)
        atctgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCCatc                                                                                                                                      >  1:3378960/1‑141 (MQ=255)
          ctgaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCCGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctg                                                                                                                                    <  1:2891300/141‑1 (MQ=255)
            gaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgag                                                                                                                                  >  1:3555777/1‑140 (MQ=255)
            gaatcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaa                                                                                                                                  >  1:3668772/1‑141 (MQ=255)
              atcGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAACAAAACGCTTACTGTGAGTGGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTgtctgaatc                                                                                                                                >  1:1021812/1‑141 (MQ=14)
                cGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGACTCGCTACCGCAAGCAGATTAACTATGTGGTTCTAAAGCGCGATCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTgtctgcatctg                                                                                                                              >  2:4291868/1‑141 (MQ=2)
                cGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCGGTCTGAGTCTGAATCGCTatctgagtctg                                                                                                                              >  1:2775484/1‑141 (MQ=255)
                 gCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGACTCGCTGGCTGAGTCTGCATCGCTatctgagtgtgt                                                                                                                             >  2:3687949/1‑135 (MQ=14)
                   tGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGt                                                                                                                           >  2:3547319/1‑141 (MQ=255)
                      cTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGc                                                                                                                        >  2:3424783/1‑141 (MQ=255)
                       ttaGTCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCt                                                                                                                       <  2:132273/139‑1 (MQ=255)
                       tGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAATCTGAGTCGcc                                                                                                                       >  2:891247/1‑140 (MQ=255)
                          ggccaaaTCCCTACCTGAATCGGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAAACGCTATCTGAATCTGAGTCGCTgtc                                                                                                                    <  1:2473005/136‑1 (MQ=17)
                           tctgagtCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGACTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtct                                                                                                                   <  2:3007074/135‑1 (MQ=255)
                            ccGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctg                                                                                                                  <  1:2914963/141‑1 (MQ=255)
                            ccGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAATCTGAGTCGCTgtctg                                                                                                                  >  1:4267341/1‑141 (MQ=255)
                            ccGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctg                                                                                                                  >  1:807799/1‑141 (MQ=255)
                            ccGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctg                                                                                                                  <  1:3769437/141‑1 (MQ=255)
                             tcagtCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctga                                                                                                                 <  1:4335025/137‑1 (MQ=255)
                                tacgttctctgagtctgagTCGCTATGTGAGTCTGATTCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctgagtc                                                                                                              <  2:1194363/134‑1 (MQ=14)
                                  cGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctgagtctg                                                                                                            <  1:2433609/141‑1 (MQ=255)
                                  cGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctgagtctg                                                                                                            <  1:2584316/141‑1 (MQ=255)
                                   gctgcttgaatctgaGTCTCTGTCCGAGTCCGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCCGAATCGCTATCTGAATCTGAATCGCTgtctgagtctga                                                                                                           <  2:552839/135‑1 (MQ=1)
                                   gCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctgagtctga                                                                                                           <  1:864171/141‑1 (MQ=255)
                                    cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGGATCTGAGTCGCTATCTGAGTCTGAGTCGCTGGCTGAGTCTGAGTCGCTGTCTGTGTCTGAATCGCTATCTGAATCTGAGTCGCTGtctgagtctgag                                                                                                          <  1:537316/141‑1 (MQ=14)
                                       tctgtatctgaGTGGCTGTCTGGGTCTGACTCTCTATCGGTACCTGGGTCGCCGTCTGAGTCTGAGTCGCTGTCCGAGTCTGAGTCGCTGTCTCACTCTGAGTCTCTATCTGAGTCTGAGTCGCTGTCTGAGtctgagtcg                                                                                                       <  2:2823742/141‑1 (MQ=11)
                                       tctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcg                                                                                                       <  1:2650762/141‑1 (MQ=255)
                                       tctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCACTATCTGAATCTGAGTCGCTGTCtgagtctgagtct                                                                                                       >  2:597197/1‑140 (MQ=255)
                                       tctgaatctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTATGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCtgaaacggagtca                                                                                                       >  2:3938505/1‑140 (MQ=14)
                                              ctgaGTCGCTGTCTGCGTCTGAATCGCTGTCTGAATCTGACGCGCTATCTGAGTCTGAGTCGCTTTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctg                                                                                                <  2:771260/141‑1 (MQ=17)
                                              ctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctg                                                                                                <  1:310626/141‑1 (MQ=255)
                                               tgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCCCTATCTGATGCTGACTCGCTATCAGTGtctgagccgctctgacg                                                                                               >  2:2607866/1‑135 (MQ=11)
                                                gaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaa                                                                                              >  1:4185932/1‑141 (MQ=255)
                                                  gTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatc                                                                                            <  1:1600113/141‑1 (MQ=255)
                                                  gTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatc                                                                                            <  1:2312150/141‑1 (MQ=255)
                                                   tCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCACCGCACAACTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATATGAATCTGAGTCGCTATATGAAtctgaggcgtgttctgaatct                                                                                           >  2:1805968/1‑141 (MQ=14)
                                                     tcTGTTTGAGTCTGAATCGCTATCTGAGTCTGAGTGGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCACTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTATCCGAGtctgagtcgctgtctgaatctga                                                                                         <  2:2364277/140‑1 (MQ=11)
                                                     gCTGTCTGGGTCTGAGTGGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctga                                                                                         <  2:2035691/141‑1 (MQ=14)
                                                       tGTCTGATTCGGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagt                                                                                       <  1:990396/141‑1 (MQ=255)
                                                         tctgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcg                                                                                     >  1:1553006/1‑141 (MQ=255)
                                                           tgagtgtgaGGCGCGATCTGAGTTTGGGTCGCTATGTGAGTCTGAGTGTCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCACTGTCTGAGtctgagtcgctgtctgaatctgagtcgct                                                                                   <  2:2941977/141‑1 (MQ=11)
                                                               tctgaGTCGCTGTCTGATTCTGAGTCGCTTTCTGTGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtct                                                                               <  2:191206/141‑1 (MQ=11)
                                                                    aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCtgagtcgctgtctgaatctgagtcgctgtctgaatc                                                                          <  1:3341729/141‑1 (MQ=255)
                                                                    aTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCtgagtcgctgtctgaatctgagtcgctgtctgaatc                                                                          <  1:226223/141‑1 (MQ=255)
                                                                     tCGCTTTCTGAATCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTgagtcgctgtctgaatctgagtcgctgtctgaatct                                                                         <  2:2539059/141‑1 (MQ=255)
                                                                      cGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGagtcgctgtctgaatctgagtcgctgtctgaatctg                                                                        <  1:4404942/141‑1 (MQ=255)
                                                                       gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAgtcgctgtctgaatctgagtcgctgtctgaatctga                                                                       >  1:4232822/1‑141 (MQ=255)
                                                                       gCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAgtcgctgtctgaatctgagtcgctgtctgaatctga                                                                       >  1:1888708/1‑141 (MQ=255)
                                                                        cTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTAGCTATCTGAATCTGAGTCGCTATCTGAATCTGAATCTCTGtctgaatctgaa                                                                      >  2:1480154/1‑141 (MQ=14)
                                                                          atctgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTCTCTGACTCTGAAGCGCTGTCTGAGTCTGAGTCCCTCTCAGACACTGAATCACTAtctgaatctgaaac                                                                    >  2:3052653/1‑139 (MQ=14)
                                                                             tgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTATCTGAATCTGAGTCGCTCTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGCATCGCt                                                                 >  2:979607/1‑141 (MQ=255)
                                                                             cgagtctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCt                                                                 <  2:72326/137‑1 (MQ=1)
                                                                              aaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGTGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTg                                                                <  2:1741975/140‑1 (MQ=255)
                                                                                    gaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgag                                                          >  1:3290580/1‑141 (MQ=255)
                                                                                     ggtggCTGTCTGGGTGTGGGTGGCTATCTGGGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagt                                                         <  2:637883/137‑1 (MQ=14)
                                                                                     attctcTATCTGACTCTGAGTCTCTGTCTGAGTCTGAGTCGCTTTCTGAGTCTTATTCTCTATCTGAATCTGACTCGCTGTCTGAGTCTGAGTCGCTGTCTGACTCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagt                                                         <  2:1568574/136‑1 (MQ=14)
                                                                                       tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtct                                                       >  2:3335258/1‑141 (MQ=255)
                                                                                       tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtct                                                       <  1:1205690/141‑1 (MQ=255)
                                                                                        cGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGACTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGATTCTGAGCAACAGTCTGAATCTGCATCGCTgtctgagtctg                                                      >  2:2149674/1‑141 (MQ=17)
                                                                                         gCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtctga                                                     >  1:1504997/1‑141 (MQ=255)
                                                                                               tgagtctgagtcgctgtctgagtctgagtcgctgtcTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGCGTCGCTGTCTGAATCTGAGTTGGTGGCGTAGTCGGAATCGCTGtctgagtctgaatcgct                                               >  1:611904/1‑141 (MQ=17)
                                                                                               gggctctgactggctttctgattcttattctctgtctgaaTCTGAATCGCTATCTTAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgct                                               <  2:3576651/137‑1 (MQ=17)
                                                                                                gagtctgagtcgctgtctgagtctgagtcgctgtctGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgcta                                              >  1:3962273/1‑141 (MQ=255)
                                                                                                gagtctgagtcgctgtctgagtctgagtcgctgtctGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgcta                                              >  1:2703228/1‑141 (MQ=255)
                                                                                                gagtctgagtcgctgtctgaggcggagtcgctgtctGAGTGTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgcta                                              <  1:1346297/141‑1 (MQ=255)
                                                                                                   tctgagtcgctgtctgagtctgagtcgctgtctgagTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGACTCTGCATCGCTGtctgagtctgaatcgctgtct                                           >  2:3238780/1‑141 (MQ=255)
                                                                                                   tctgagtcgctgtctgagtctgagtcgctgtctgagTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatct                                           >  1:39078/1‑141 (MQ=255)
                                                                                                   tctgagtcgctgtctgagtctgagtcgctgtctgagTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatct                                           >  1:2158872/1‑141 (MQ=255)
                                                                                                      gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgtgtctgactcgctatctgat                                        >  2:522776/1‑140 (MQ=255)
                                                                                                      gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgag                                        >  1:949001/1‑141 (MQ=255)
                                                                                                      gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgag                                        >  1:550044/1‑141 (MQ=255)
                                                                                                           gctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGATGtctgagtctgaatcactatctgaatctga                                   >  2:1100190/1‑141 (MQ=255)
                                                                                                            ctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTCAATCTCAGTCTCTGTATGACCCAGAGCCGCTGTCTAAATCTGAATCACTGTCTGAATCCGAAtcgctatctgaatctgaatcgctatctgaatctgaa                                  >  1:3247923/1‑141 (MQ=11)
                                                                                                              gtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGATGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatc                                >  1:1436389/1‑141 (MQ=255)
                                                                                                              ggctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatc                                <  1:1702318/139‑1 (MQ=255)
                                                                                                               tctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTgtctgagtctga                                                                                                           <  1:403033/65‑1 (MQ=255)
                                                                                                                 tgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAATCTGAATCGCTATCTGACGCGGAATCGCTGtctgagtctgaagtgttatctgaagctgaatcgct                             >  2:2740232/1‑141 (MQ=14)
                                                                                                                 tgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAATCGCGGTCTGAGTCTGAGTCGCCTTCTGAATCGCAGTAGCTTTATGAAACGGAATCGCTTtctgagtcggattagtcatctgaatgtgaatcgct                             >  2:2423797/1‑141 (MQ=9)
                                                                                                                  ggttctgtgtcgctttctcagtctgaGTCGCTGTCTGAGTCGGAGTCCCTGTCTGAGTCTGAATCGCTGTCTGAATCTGTATCTTGGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgcta                            <  2:4071313/138‑1 (MQ=11)
                                                                                                                  gagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGTATCTTATTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgcta                            <  1:3028250/141‑1 (MQ=255)
                                                                                                                     tctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTgagtctgaatcgctatctgagtctgaatcgctatct                         >  1:1643294/1‑141 (MQ=255)
                                                                                                                     tctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTgagtctgaatcgctatctgagtctgaatcgctatct                         <  1:3424783/141‑1 (MQ=255)
                                                                                                                      ctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGATCCCCTGTCTGACTCTGACTCGCTGTCTGattcagaatcgctgtctgattctgactccctatctg                        >  2:4207144/1‑141 (MQ=11)
                                                                                                                      ctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGagtctgaatcgctatctgagtctgaatcgctatctg                        <  1:205456/141‑1 (MQ=255)
                                                                                                                        gagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTTAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGtctgaatcgctatctgagtctgaatcgctatctgag                      <  1:3059648/141‑1 (MQ=255)
                                                                                                                        gagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGACTCGCTGTCTGAATCTGAATCGCTGTCTGATtctgaatcgctatctgagtctgaatcactatctgag                      >  2:2296310/1‑141 (MQ=255)
                                                                                                                           tcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTgaatcgctctctgattctgaatcgctatctgagtct                   >  2:1395697/1‑141 (MQ=255)
                                                                                                                           tcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTgaatcgctatctgagtctgaatcgctatctgagtct                   >  1:1280169/1‑141 (MQ=255)
                                                                                                                            cgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGaatcgctatctgagtctgaatcgctatctgagtctg                  <  1:3824352/141‑1 (MQ=255)
                                                                                                                              ctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAAtcgctatctgagtctgaatcgctatctgagtctgaa                >  1:3516801/1‑141 (MQ=255)
                                                                                                                              ctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAAtcgctatctgagtctgaatcgctatctgagtctgaa                <  1:1801128/141‑1 (MQ=255)
                                                                                                                                   tgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACt           >  1:1984659/1‑141 (MQ=255)
                                                                                                                                   tgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACt           >  1:1053814/1‑141 (MQ=255)
                                                                                                                                        ctgaAGCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTg      <  1:3687949/141‑1 (MQ=255)
                                                                                                                                            aTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCAGAAGCGCTGTATGACTCTGAGGCGGTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTGTCTGCGTc  >  2:45924/1‑141 (MQ=14)
                                                                                                                                            aTCGCTATCTGAATCAGAGGCGCTGGCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAAGCGCTGTCGGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGGCTGAGTc  >  2:3863364/1‑141 (MQ=14)
                                                                                                                                            |                                                                                                                                            
CTGTCTGAATCTGAATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTC  >  USA300TCH1516_ALE/2774901‑2775181

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: